Applications & Publications
Technical Notes
C. elegans Sorting: Live v. Dead
High Throughput Screening and Sorting of Viable C. elegans From a Mixed Live and Dead Population (ANB-02)
C. elegans Sorting by Developmental Stage
Automated Detection and Sorting of C. elegans at Different Developmental Stages From a Mixed Population (ANB-03)
C. elegans Dual Color Sorting: ZsGreen and ZsYellow
Automated Analysis and Sorting of C. elegans from a Mixed ZsGreen and ZsYellow Expressing Populations (ANB-04)
C. elegans Automated Detection and Sorting of Living C. elegans from a Mixed ZsGreen and Propidium Iodide Labeled Population (ANB-05)Dual Color Sorting: ZsGreen and PI
Automated Detection and Sorting of Living C. elegans from a Mixed ZsGreen and Propidium Iodide Labeled Population (ANB-05)
C. elegans Dual Color Fluorescence Sorting
Automated Analysis and Sorting of Living C. elegans from a Mixed ZsYellow and Propidium Iodide Labeled Population (ANB-06)
C. elegans Green Color Fluorescence Sorting
Automated Analysis and Sorting of C. elegans from a Mixed Wild-type ZsGreen Expressing Populations (ANB-07)
COPAS™ Technical Note: C. elegans Survival Study
Effect of SYTOX® Staining and COPAS sorting on the Mean Survival of Wild-type C. elegans
Analysis and sorting of C. elegans based on peak counting of GFP expressing seam cells (QTN-017)
Analysis and Sorting of Acridine Orange Stained C. elegans with Increased Germline Apoptosis (QTN-004)
COPAS Vision ™—An integral component in the Smart Soil Organism Detector of soil nematodes. (QTN-031)
Publications
High-throughput tracking enables systematic phenotyping and drug repurposing in C. elegans disease models
O'Brien et al. January 08, 2025 eLife 12:RP92491. https://doi.org/10.7554/eLife.92491.4
View AbstractHigh-throughput tracking enables systematic phenotyping and drug repurposing in C. elegans disease models
There are thousands of Mendelian diseases with more being discovered weekly and the majority have no approved treatments. To address this need, we require scalable approaches that are relatively inexpensive compared to traditional drug development. In the absence of a validated drug target, phenotypic screening in model organisms provides a route for identifying candidate treatments. Success requires a screenable phenotype. However, the right phenotype and assay may not be obvious for pleiotropic neuromuscular disorders. Here, we show that high-throughput imaging and quantitative phenotyping can be conducted systematically on a panel of C. elegans disease model strains. We used CRISPR genome-editing to create 25 worm models of human Mendelian diseases and phenotyped them using a single standardised assay. All but two strains were significantly different from wild-type controls in at least one feature. The observed phenotypes were diverse, but mutations of genes predicted to have related functions led to similar behavioural differences in worms. As a proof-of-concept, we performed a drug repurposing screen of an FDA-approved compound library, and identified two compounds that rescued the behavioural phenotype of a model of UNC80 deficiency. Our results show that a single assay to measure multiple phenotypes can be applied systematically to diverse Mendelian disease models. The relatively short time and low cost associated with creating and phenotyping multiple strains suggest that high-throughput worm tracking could provide a scalable approach to drug repurposing commensurate with the number of Mendelian diseases.
Reproductive regulation of the mitochondrial stress response in Caenorhabditis elegans
Charmpilas et al. June 25, 2024 Cell Reports 43, 114336 June 25, 2024. Published by Elsevier Inc. https://doi.org/10.1016/j.celrep.2024.114336
Reproductive regulation of the mitochondrial stress response in Caenorhabditis elegans
Sex-specific developmental gene expression atlas unveils dimorphic gene networks in C. elegans
Haque et al. May 20, 2024 Nat Commun 15, 4273 (2024). https://doi.org/10.1038/s41467-024-48369-z
Sex-specific developmental gene expression atlas unveils dimorphic gene networks in C. elegans
The Smart Soil Organism Detector: An instrument and machine learning pipeline for soil species identification
Filgueiras et al. May 29, 2022 Biosensors and Bioelectronics, 2022, 114417, ISSN 0956-5663, https://doi.org/10.1016/j.bios.2022.114417
The Smart Soil Organism Detector: An instrument and machine learning pipeline for soil species identification
A laboratory and simulation platform to integrate individual life history traits and population dynamics.
Scharf, A., Mitteldorf, J., Armstead, B. et al. February 28, 2022 Nat Comput Sci 2, 90–101
A laboratory and simulation platform to integrate individual life history traits and population dynamics.
Increased fidelity of protein synthesis extends lifespan.
Martinez-Miguel VE, et al. September 08, 2021 Cell Metab. S1550-4131(21)00417-4. doi: 10.1016/j.cmet.2021.08.017. Epub ahead of print. PMID: 34525330
Increased fidelity of protein synthesis extends lifespan.
Mitochondria-affecting small molecules ameliorate proteostasis defects associated with neurodegenerative diseases
Elissa Tjahjono, et al. September 06, 2021 Sci Rep. 2021 Sep 6;11(1):17733. doi: 10.1038/s41598-021-97148-z.
Mitochondria-affecting small molecules ameliorate proteostasis defects associated with neurodegenerative diseases
Reduced peroxisomal import triggers peroxisomal retrograde signaling
Rackles et al. January 19, 2021 Cell Reports, Article | Volume 34, Issue 3, 108653, January 19, 2021; DOI: https://doi.org/10.1016/j.celrep.2020.108653
Reduced peroxisomal import triggers peroxisomal retrograde signaling
Divergent Nodes of Non-autonomous UPRER Signaling through Serotonergic and Dopaminergic Neurons
Higuchi-Sanabria, R et al. December 08, 2020 DOI: https://doi.org/10.1016/j.celrep.2020.108489
Divergent Nodes of Non-autonomous UPRER Signaling through Serotonergic and Dopaminergic Neurons
Innate Immunity Promotes Sleep through Epidermal Antimicrobial Peptides
Sinner MP et al. November 24, 2020 Curr Biol. 2020 Nov 24:S0960-9822(20)31653-5. doi: 10.1016/j.cub.2020.10.076. Epub ahead of print. PMID: 33259791.
Innate Immunity Promotes Sleep through Epidermal Antimicrobial Peptides
Three Rules Explain Transgenerational Small RNA Inheritance in C. elegans
Houri-Zeevi et al. July 22, 2020 Cell. 2020 Aug 20;S0092-8674(20)30930-2. doi: 10.1016/j.cell.2020.07.022. Online ahead of print.
Three Rules Explain Transgenerational Small RNA Inheritance in C. elegans
Genetic Variation in Complex Traits in Transgenic a-Synuclein Strains of Caenorhabditis elegans
Wang et al. July 11, 2020 Genes 2020, 11(7), 778; https://doi.org/10.3390/genes11070778
Genetic Variation in Complex Traits in Transgenic a-Synuclein Strains of Caenorhabditis elegans
The neutrally charged diarylurea compound PQ401 kills antibiotic-resistant and antibiotic-tolerant Staphylococcus aureus
Kim et al. June 30, 2020 mBio 11:e01140-20. https://doi.org/10.1128/mBio.01140-20.
The neutrally charged diarylurea compound PQ401 kills antibiotic-resistant and antibiotic-tolerant Staphylococcus aureus
A cullin-RING ubiquitin ligase promotes thermotolerance as part of the intracellular pathogen response in Caenorhabditis elegans
Panek J, et al. March 19, 2020 Proc Natl Acad Sci U S A. 2020 Apr 7;117(14):7950-7960. doi: 10.1073/pnas.1918417117. Epub 2020 Mar 19. PMID: 32193347; PMCID: PMC7148578.
A cullin-RING ubiquitin ligase promotes thermotolerance as part of the intracellular pathogen response in Caenorhabditis elegans
Developmental ROS Individualizes Organismal Stress Resistance and Lifespan
Bazopoulou et al. December 04, 2019 Nature 2019 Dec;576(7786):301-305. doi: 10.1038/s41586-019-1814-y. Epub 2019 Dec 4.
Developmental ROS Individualizes Organismal Stress Resistance and Lifespan
Effect of soil microbial feeding on gut microbiome and cadmium toxicity in Caenorhabditis elegans
Lee et al. November 13, 2019 Ecotoxicology and Environmental Safety; Volume 187, 15 January 2020, 109777
Effect of soil microbial feeding on gut microbiome and cadmium toxicity in Caenorhabditis elegans
Fabrication of sharp silicon arrays to wound Caenorhabditis elegans
Belougne et al. September 19, 2019 doi: http://dx.doi.org/10.1101/776302
Fabrication of sharp silicon arrays to wound Caenorhabditis elegans
Early life exposure of a biocide, CMIT/MIT causes metabolic toxicity via the O-GlcNAc transferase pathway in the nematode C. elegans.
Kim Y, Choi J August 01, 2019 Toxicol Appl Pharmacol. 2019 Aug 1;376:1-8. doi: 10.1016/j.taap.2019.05.012. Epub 2019 May 14.
Early life exposure of a biocide, CMIT/MIT causes metabolic toxicity via the O-GlcNAc transferase pathway in the nematode C. elegans.
High-throughput COPAS assay for screening of developmental and reproductive toxicity of nanoparticles using the nematode Caenorhabditis elegans.
Kim et al. July 09, 2019 J Appl Toxicol. 2019 Oct;39(10):1470-1479. doi: 10.1002/jat.3833. Epub 2019 Jul 9.
High-throughput COPAS assay for screening of developmental and reproductive toxicity of nanoparticles using the nematode Caenorhabditis elegans.
Evolution of sex ratio through gene loss
Yin D, Haag ES June 12, 2019 Proc Natl Acad Sci U S A. 2019 Jun 25;116(26):12919-12924. doi: 10.1073/pnas.1903925116. Epub 2019 Jun 12.
Evolution of sex ratio through gene loss
A Novel Gene Underlies Bleomycin-Response Variation in Caenorhabditis elegans.
Brady et al. June 06, 2019 Genetics. 2019 Aug;212(4):1453-1468. doi: 10.1534/genetics.119.302286. Epub 2019 Jun 6.
A Novel Gene Underlies Bleomycin-Response Variation in Caenorhabditis elegans.
High-throughput assessment of toxic effects of metal mixtures of cadmium(Cd), lead(Pb), and manganese(Mn) in nematode Caenorhabditis elegans.
Tang et al. June 03, 2019 Chemosphere. 2019 Nov;234:232-241. doi: 10.1016/j.chemosphere.2019.05.271. Epub 2019 Jun 3.
High-throughput assessment of toxic effects of metal mixtures of cadmium(Cd), lead(Pb), and manganese(Mn) in nematode Caenorhabditis elegans.
MANF deletion abrogates early larval Caenorhabditis elegans stress response to tunicamycin and Pseudomonas aeruginosa.
Hartman et al. May 21, 2019 Eur J Cell Biol. 2019 Dec;98(5-8). pii: S0171-9335(18)30348-0. doi: 10.1016/j.ejcb.2019.05.002. Epub 2019 May 21.
MANF deletion abrogates early larval Caenorhabditis elegans stress response to tunicamycin and Pseudomonas aeruginosa.
Natural variation in C. elegans arsenic toxicity is explained by differences in branched chain amino acid metabolism
Zdraljevic et al. April 08, 2019 Elife. 2019 Apr 8;8. pii: e40260. doi: 10.7554/eLife.40260.
Natural variation in C. elegans arsenic toxicity is explained by differences in branched chain amino acid metabolism
Interplay between mitochondria and diet mediates pathogen and stress resistance in Caenorhabditis elegans
Revtovich et al. March 13, 2019 https://doi.org/10.1371/journal.pgen.1008011
Interplay between mitochondria and diet mediates pathogen and stress resistance in Caenorhabditis elegans
Dual Role of Ribosome-Binding Domain of NAC as a Potent Suppressor of Protein Aggregation and Aging-Related Proteinopathies
Shen et al. March 12, 2019 https://doi.org/10.1016/j.molcel.2019.03.012
Dual Role of Ribosome-Binding Domain of NAC as a Potent Suppressor of Protein Aggregation and Aging-Related Proteinopathies
Hazard potential of perovskite solar cell technology for potential implementation of “safe-by-design” approach
Bae et al. March 12, 2019 https://doi.org/10.1038/s41598-018-37229-8
Hazard potential of perovskite solar cell technology for potential implementation of “safe-by-design” approach
In Silico Molecular Docking and In Vivo Validation with Caenorhabditis elegans to Discover Molecular Initiating Events in Adverse Outcome Pathway Framework: Case Study on Endocrine-Disrupting Chemicals with Estrogen and Androgen Receptors
Jeong et al. March 10, 2019 DOI: 10.3390/ijms20051209
In Silico Molecular Docking and In Vivo Validation with Caenorhabditis elegans to Discover Molecular Initiating Events in Adverse Outcome Pathway Framework: Case Study on Endocrine-Disrupting Chemicals with Estrogen and Androgen Receptors
A tetracycline-dependent ribozyme switch allows conditional induction of gene expression in Caenorhabditis elegans
Wurmthaler et al. January 30, 2019 Nature Communications volume 10, Article number: 491 (2019)
A tetracycline-dependent ribozyme switch allows conditional induction of gene expression in Caenorhabditis elegans
Translation attenuation by minocycline enhances longevity and proteostasis in old post-stress-responsive organisms
Solis et al. November 28, 2018 Solis et al. eLife 2018;7:e40314. DOI: https://doi.org/10.7554/eLife.40314
Translation attenuation by minocycline enhances longevity and proteostasis in old post-stress-responsive organisms
Ophiopogon japonicus herbal tea ameliorates oxidative stress and extends lifespan in caenorhabditis elegans
Yu et al. November 21, 2018 Pharmacognosy Magazine ORIGINAL ARTICLE Year : 2018 | Volume : 14 | Issue : 58 | Page : 617-623
Ophiopogon japonicus herbal tea ameliorates oxidative stress and extends lifespan in caenorhabditis elegans
MRG-1/MRG15 is a barrier for germ cell to neuron reprogramming in Caenorhabditis elegans
Hajduskova et al. November 13, 2018 Genetics Early online November 13, 2018; https://doi.org/10.1534/genetics.118.301674
MRG-1/MRG15 is a barrier for germ cell to neuron reprogramming in Caenorhabditis elegans
Non-proteolytic activity of 19S proteasome subunit RPT-6 regulates GATA transcriptionduring response to infection
Olaitan et al. September 28, 2018 PLoS Genet 14(9):https://doi.org/10.1371/journal.pgen.1007693
Non-proteolytic activity of 19S proteasome subunit RPT-6 regulates GATA transcriptionduring response to infection
Food perception without ingestion leads to metabolic changes and irreversible developmental arrest in C. elegans
Kaplan et al. August 16, 2018 BMC Biology (2018) 16:112 https://doi.org/10.1186/s12915-018-0579-3
Food perception without ingestion leads to metabolic changes and irreversible developmental arrest in C. elegans
Evolutionary plasticity in the innate immune function of Akirin
Polanowska et al. July 23, 2018 https://doi.org/10.1371/journal.pgen.1007494
Evolutionary plasticity in the innate immune function of Akirin
Combined flow cytometry and high-throughput image analysis for the study of essential genes in Caenorhabditis elegans.
Hernando-Rodríguez et al. March 29, 2018 BMC Biol. 2018 Mar 29;16(1):36. doi: 10.1186/s12915-018-0496-5.
Combined flow cytometry and high-throughput image analysis for the study of essential genes in Caenorhabditis elegans.
Modulatory upregulation of an insulin peptide gene by different pathogens in C. elegans.
Lee et al. March 19, 2018 Virulence. 2018 Dec 31;9(1):648-658. doi: 10.1080/21505594.2018.1433969.
Modulatory upregulation of an insulin peptide gene by different pathogens in C. elegans.
A Damage Sensor Associated with the Cuticle Coordinates Three Core Environmental StressResponses in Caenorhabditis elegans.
Dodd et al. February 27, 2018 Genetics. 2018 Feb 27. pii: genetics.300827.2018. doi: 10.1534/genetics.118.300827. [Epub ahead of print]
View AbstractA Damage Sensor Associated with the Cuticle Coordinates Three Core Environmental StressResponses in Caenorhabditis elegans.
Although extracellular matrices function as protective barriers to many types of environmental insult, their role in sensing stress and regulating adaptive gene induction responses has not been studied carefully...
Extracellular matrix barriers and inducible cytoprotective genes form successive lines of defense against chemical and microbial environmental stressors. The barrier in nematodes is a collagenous extracellular matrix called the cuticle. In Caenorhabditis elegans, disruption of some cuticle collagen genes activates osmolyte and antimicrobial response genes. Physical damage to the epidermis also activates antimicrobial responses. Here, we assayed the effect of knocking down genes required for cuticle and epidermal integrity on diverse cellular stress responses. We found that disruption of specific bands of collagen, called annular furrows, coactivates detoxification, hyperosmotic, and antimicrobial response genes, but not other stress responses. Disruption of other cuticle structures and epidermal integrity does not have the same effect. Several transcription factors act downstream of furrow loss. SKN-1/Nrf and ELT-3/GATA are required for detoxification, SKN-1/Nrf is partially required for the osmolyte response, and STA-2/Stat and ELT-3/GATA for antimicrobial gene expression. Our results are consistent with a cuticle-associated damage sensor that coordinates detoxification, hyperosmotic, and antimicrobial responses through overlapping, but distinct, downstream signaling.
Comprehensive list of SUMO targets in Caenorhabditis elegans and its implication for evolutionary conservation of SUMO signaling
Drabikowski et al January 18, 2018 Sci Rep . 2018 Jan 18;8(1):1139. doi: 10.1038/s41598-018-19424-9.
Comprehensive list of SUMO targets in Caenorhabditis elegans and its implication for evolutionary conservation of SUMO signaling
An Antimicrobial Peptide and Its Neuronal Receptor Regulate Dendrite Degeneration in Aging and Infection.
Lezi et. al January 03, 2018 Neuron. 2018 Jan 3;97(1):125-138.e5. doi: 10.1016/j.neuron.2017.12.001.
An Antimicrobial Peptide and Its Neuronal Receptor Regulate Dendrite Degeneration in Aging and Infection.
JAK/STAT and TGF-ß activation as potential adverse outcome pathway of TiO2NPs phototoxicity in Caenorhabditis elegans
Kim, H. et al December 19, 2017 Scientific Reports 7, Article number: 17833; DOI:10.1038/s41598-017-17495-8
JAK/STAT and TGF-ß activation as potential adverse outcome pathway of TiO2NPs phototoxicity in Caenorhabditis elegans
The combinatorial control of alternative splicing in C. elegans
Tan JH, Fraser AG (2017) November 07, 2017 PLoS Genet 13(11): e1007033. https:// doi.org/10.1371/journal.pgen.1007033
The combinatorial control of alternative splicing in C. elegans
Nuclear localized C9orf72 associated arginine containing dipeptides exhibit age-dependent toxicity in C. elegans
Rudich et al. September 27, 2017 Human Molecular Genetics, ddx372, https://doi.org/10.1093/hmg/ddx372, Published: 27 September 2017
Nuclear localized C9orf72 associated arginine containing dipeptides exhibit age-dependent toxicity in C. elegans
Neuronal inhibition of the autophagy nucleation complex extends life span in post-reproductive C. elegans
Wilhelm et al. September 14, 2017 GENES & DEVELOPMENT 31:1–12 Published by Cold Spring Harbor Laboratory Press; ISSN 0890-9369/17; www.genesdev.org
View AbstractNeuronal inhibition of the autophagy nucleation complex extends life span in post-reproductive C. elegans
Autophagy is a ubiquitous catabolic process that causes cellular bulk degradation of cytoplasmic components and is generally associated with positive effects on health and longevity. Inactivation of autophagy has been linked with detrimental effects on cells and organisms. The antagonistic pleiotropy theory postulates that some fitness-promoting genes during youth are harmful during aging. On this basis, we examined genes mediating post-reproductive longevity using an RNAi screen. From this screen, we identified 30 novel regulators of post-reproductive longevity, including pha-4. Through downstream analysis of pha-4, we identified that the inactivation of genes governing the early stages of autophagy up until the stage of vesicle nucleation, such as bec-1, strongly extend both life span and health span. Furthermore, our data demonstrate that the improvements in health and longevity are mediated through the neurons, resulting in reduced neurodegeneration and sarcopenia. We propose that autophagy switches from advantageous to harmful in the context of an age-associated dysfunction.
Natural variation in a single amino acid substitution underlies physiological responses to topoisomerase II poisons.
Zdraljevic et al. July 12, 2017 PLoS Genet. 2017 Jul 12;13(7):e1006891. doi: 10.1371/journal.pgen.1006891. [Epub ahead of print]
Natural variation in a single amino acid substitution underlies physiological responses to topoisomerase II poisons.
Inter-organ signalling by HRG-7 promotes systemic haem homeostasis.
Sinclair et al. June 05, 2017 Nat Cell Biol. 2017 Jun 5. doi: 10.1038/ncb3539. [Epub ahead of print]
Inter-organ signalling by HRG-7 promotes systemic haem homeostasis.
A systematic RNAi screen reveals a novel role of a spindle assembly checkpoint protein BuGZ in synaptic transmission in C. elegans
Han et al. April 25, 2017 Accepted: 25 Apr 2017. Front. Mol. Neurosci. | doi: 10.3389/fnmol.2017.00141
A systematic RNAi screen reveals a novel role of a spindle assembly checkpoint protein BuGZ in synaptic transmission in C. elegans
Larval crowding accelerates C. elegans development and reduces lifespan
Ludwig et al. April 10, 2017 http://journals.plos.org/plosgenetics/article?id=10.1371/journal.pgen.1006717; (PLoS Genet. 2017 Apr 10;13(4):e1006717. doi: 10.1371/journal.pgen.1006717. eCollection 2017 Apr.)
View AbstractLarval crowding accelerates C. elegans development and reduces lifespan
Environmental conditions experienced during animal development are thought to have sustained impact on maturation and adult lifespan. Here we show that in the model organism C. elegans developmental rate and adult lifespan depend on larval population density, and that this effect is mediated by excreted small molecules. By using the time point of first egg laying as a marker for full maturity, we found that wildtype hermaphrodites raised under high density conditions developed significantly faster than animals raised in isolation. Population density-dependent acceleration of development (Pdda) was dramatically enhanced in fatty acid β-oxidation mutants that are defective in the biosynthesis of ascarosides, small-molecule signals that induce developmental diapause. In contrast, Pdda is abolished by synthetic ascarosides and steroidal ligands of the nuclear hormone receptor DAF-12. We show that neither ascarosides nor any known steroid hormones are required for Pdda and that another chemical signal mediates this phenotype, in part via the nuclear hormone receptor NHR-8. Our results demonstrate that C. elegans development is regulated by a push-pull mechanism, based on two antagonistic chemical signals: chemosensation of ascarosides slows down development, whereas population-density dependent accumulation of a different chemical signal accelerates development. We further show that the effects of high larval population density persist through adulthood, as C. elegans larvae raised at high densities exhibit significantly reduced adult lifespan and respond differently to exogenous chemical signals compared to larvae raised at low densities, independent of density during adulthood. Our results demonstrate how inter-organismal signaling during development regulates reproductive maturation and longevity.
Transaldolase inhibition impairs mitochondrial respiration and induces a starvation-like longevity response in Caenorhabditis elegans
Bennett et al. March 29, 2017 Published: March 29, 2017 http://dx.doi.org/10.1371/journal.pgen.1006695
Transaldolase inhibition impairs mitochondrial respiration and induces a starvation-like longevity response in Caenorhabditis elegans
Copper Oxide Nanoparticles Impact Several Toxicological Endpoints and Cause Neurodegeneration in Caenorhabditis elegans
Michael J. Mashock, Tyler Zanon, Anthony D. Kappell, Lisa N. Petrella, Erik C. Andersen, Krassimira R. Hristova December 06, 2016 Published: December 2, 2016 • http://dx.doi.org/10.1371/journal.pone.0167613
Copper Oxide Nanoparticles Impact Several Toxicological Endpoints and Cause Neurodegeneration in Caenorhabditis elegans
The Intestinal Copper Exporter CUA-1 is required for Systemic Copper Homeostasis in Caenorhabditis elegans
Chun H1, Sharma AK1, Lee J2\2, Chan J3, Jia S3, Kim BE4 November 23, 2016 J Biol Chem. 2016 Nov 23. pii: jbc.M116.760876. [Epub ahead of print]
The Intestinal Copper Exporter CUA-1 is required for Systemic Copper Homeostasis in Caenorhabditis elegans
Next-Generation Sequencing-Based Approaches for Mutation Mapping and Identification in Caenorhabditis elegans
Maria Doitsidou, Sophie Jarriault, Richard J. Poole October 01, 2016 Genetics October 1, 2016 vol. 204 no. 2 451-474; DOI: 10.1534/genetics.115.186197
Next-Generation Sequencing-Based Approaches for Mutation Mapping and Identification in Caenorhabditis elegans
Selection on a Subunit of the NURF Chromatin Remodeler Modifies Life History Traits in a Domesticated Strain of Caenorhabditis elegans.
Large EE, Xu W, Zhao Y, Brady SC, Long L, Butcher RA, et al. July 28, 2016 PLoS Genet. 2016 Jul 28;12(7):e1006219. doi: 10.1371/journal.pgen.1006219. eCollection 2016.
Selection on a Subunit of the NURF Chromatin Remodeler Modifies Life History Traits in a Domesticated Strain of Caenorhabditis elegans.
An Abundant Class of Non-coding DNA Can Prevent Stochastic Gene Silencing in the C. elegans Germline.
Frøkjær-Jensen C, Jain N, Hansen L, Davis MW, Li Y, Zhao D, Rebora K, Millet JR, Liu X, Kim SK, Dupuy D, Jorgensen EM, Fire AZ. July 14, 2016 DOI: http://dx.doi.org/10.1016/j.cell.2016.05.072
An Abundant Class of Non-coding DNA Can Prevent Stochastic Gene Silencing in the C. elegans Germline.
Comparative Genomic Analysis of Drechmeria coniospora Reveals Core and Specific Genetic Requirements for Fungal Endoparasitism of Nematodes
Kevin Lebrigand, Le D. He, Nishant Thakur, Marie-Jeanne Arguel, Jolanta Polanowska, Bernard Henrissat, Eric Record, Ghislaine Magdelenat, Valérie Barbe,Sylvain Raffaele, Pascal Barbry, Jonathan J. Ewbank May 06, 2016 Published: May 6, 2016 • http://dx.doi.org/10.1371/journal.pgen.1006017
Comparative Genomic Analysis of Drechmeria coniospora Reveals Core and Specific Genetic Requirements for Fungal Endoparasitism of Nematodes
A quantitative genome-wide RNAi screen in C. elegans for antifungal innate immunity genes
Olivier Zugasti1,4, Nishant Thakurr1, Jérôme Belougne1, Barbara Squiban, C.1,3, Léopold Kurz1, 4, Julien Soulé1,5 , Shizue Omi1, Laurent Tichit2, Nathalie Pujol1 and Jonathan J. Ewbank1 April 29, 2016 Zugasti et al. BMC Biology (2016) 14:35 DOI 10.1186/s12915-016-0256-3
View AbstractA quantitative genome-wide RNAi screen in C. elegans for antifungal innate immunity genes
1Centre d’Immunologie de Marseille-Luminy, Aix Marseille Université UM2,Inserm, U1104, CNRS UMR7280, 13288 Marseille, France. 2Institut de Mathématiques de Marseille, Aix Marseille Université, I2M Centrale Marseille,CNRS UMR 7373, 13453 Marseille, France. 3Present address: Section of Hematology/Oncology, Department of Pediatrics, University of Oklahoma Health Sciences Center, Oklahoma City, OK, USA. 4Present address: Institut de Biologie du Développement de Marseille, CNRS, UMR6216, Case 907, Marseille, France. 5Present address: Institut de Genomique Fonctionnelle, 141,rue de la Cardonille, 34094 Montpellier Cedex 05, France.
The MADD-3 LAMMER Kinase Interacts with a p38 MAP Kinase Pathway to Regulate the Display of the EVA-1 Guidance Receptor in Caenorhabditis elegans
Serena A. D’Souza 1, 2, 3, Luckshika Rajendran1, 2, Rachel Bagg1, 2, Louis Barbier 1, 2, Derek M. van Pel1, 2, Houtan Moshiri1, 2, Peter J. Roy1, 2, 3 April 28, 2016 PLoS Genet 12(4): e1006010. doi:10.1371/journal. pgen.1006010
View AbstractThe MADD-3 LAMMER Kinase Interacts with a p38 MAP Kinase Pathway to Regulate the Display of the EVA-1 Guidance Receptor in Caenorhabditis elegans
1 Department of Molecular Genetics, University of Toronto, Toronto, Ontario, Canada, 2 The Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Toronto, Ontario, Canada, 3 The Collaborative Programme in Developmental Biology, University of Toronto, Toronto, Ontario, Canada
Mitochondrial Stress Induces Chromatin Reorganization to Promote Longevity and UPRmt.
Ye Tian, Gilberto Garcia, Qian Bian, Kristan K. Steffen, Larry Joe, Suzanne Wolff, Barbara J. Meyer, Andrew Dillin. April 28, 2016 3. Cell, 2016; Apr 28. pii: S0092-8674(16)30402-0. DOI: 10.1016/j.cell.2016.04.011 [Epub ahead of print]
Mitochondrial Stress Induces Chromatin Reorganization to Promote Longevity and UPRmt.
The C. elegans CCAAT-Enhancer-Binding Protein Gamma Is Required for Surveillance Immunity
Kirthi C. Reddy1, et al. February 23, 2016 Volume 14, Issue 7, 23 February 2016, Pages 1581–1589
View AbstractThe C. elegans CCAAT-Enhancer-Binding Protein Gamma Is Required for Surveillance Immunity
1 Division of Biological Sciences, Section of Cell and Developmental Biology, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA
Gait-specific adaptation of locomotor activity in response to dietary restriction in Caenorhabditis elegans.
Lüersen K1 , Faust U1 , Gottschling DC1 , Döring F2 . July 15, 2015 J Exp Biol. 2014 Jul 15;217(Pt 14):2480-8. doi: 10.1242/jeb.099382. Epub 2014 May 6.
View AbstractGait-specific adaptation of locomotor activity in response to dietary restriction in Caenorhabditis elegans.
1Department of Molecular Prevention, Institute of Human Nutrition and Food Science, Christian-Albrechts-University of Kiel, Heinrich-Hecht-Platz 10, 24118 Kiel, Germany.
2Department of Molecular Prevention, Institute of Human Nutrition and Food Science, Christian-Albrechts-University of Kiel, Heinrich-Hecht-Platz 10, 24118 Kiel, Germany.
The principle of antagonism ensures protein targeting specificity at the endoplasmic reticulum
Martin Gamerdinger¹, Marie Anne Hanebuth¹, Tancred Frickey², Elke Deuerling¹ April 10, 2015 Science 348, 201 (2015); DOI: 10.1126/science.aaa5335 1) Department of Biology, Institute of Molecular Microbiology, University of Konstanz, 78457 Konstanz, Germany. 2) Department of Biology, Applied Bioinformatics Laboratory, University of Konstanz, 78457 Konstanz, Germany.
View AbstractThe principle of antagonism ensures protein targeting specificity at the endoplasmic reticulum
View Supplementary Material for this publication.
The ribonucleotidyl transferase USIP-1 acts with SART3 to promote U6 snRNA recycling
Stefan Ruëgger¹, Takashi S. Miki¹, Daniel Hess¹ and Helge Großhans¹ March 09, 2015 Nucl. Acids Res. (2015)doi: 10.1093/nar/gkv196First published online: March 9, 2015
View AbstractThe ribonucleotidyl transferase USIP-1 acts with SART3 to promote U6 snRNA recycling
1Friedrich Miescher Institute for Biomedical Research, Maulbeerstrasse 66, CH-4058 Basel, Switzerland
The DREAM complex promotes gene body H2A.Z for target repression
Latorre I¹, Chesney MA¹, Garrigues JM, Stempor P¹, Appert A¹, Francesconi M, Strome S, Ahringer J¹ March 01, 2015 Genes Dev. 2015 Mar 1;29(5):495-500. doi: 10.1101/gad.255810.114.
View AbstractThe DREAM complex promotes gene body H2A.Z for target repression
1The Gurdon Institute, University of Cambridge, Cambridge CB2 1QN, United Kingdom
Genome-wide screen identifies a novel p97/CDC-48-dependent pathway regulating ER-stress-induced gene transcription
Esther Marza¹,², Saïd Taouji¹,², Kim Barroso¹,², Anne-Aurélie Raymond², Léo Guignard², Marc Bonneu², Néstor Pallares-Lupon¹,², Jean-William Dupuy², Martin E Fernandez-Zapico, Jean Rosenbaum², Francesca Palladino, Denis Dupuy²,and Eric Chevet*,¹,² February 01, 2015 DOI 10.15252/embr.201439123 | Published online 04.02.2015 EMBO reports (2015) embr.201439123
View AbstractGenome-wide screen identifies a novel p97/CDC-48-dependent pathway regulating ER-stress-induced gene transcription
1Team “Endoplasmic Reticulum stress and cancer”, INSERM, UMR1053, Bordeaux, France
2University of Bordeaux, Bordeaux, France eric.chevet@inserm.fr
Insect-Derived Cecropins Display Activity against Acinetobacter baumannii in a Whole-Animal High-Throughput Caenorhabditis elegans Model.
Jayamani E¹, Rajamuthiah R¹, Larkins-Ford J, Fuchs BB¹, Conery AL, Vilcinskas A, Ausubel FM, Mylonakis E4. January 12, 2015 Antimicrob Agents Chemother. 2015 Mar;59(3):1728-37. doi: 10.1128/AAC.04198-14. Epub 2015 Jan 12.
View AbstractInsect-Derived Cecropins Display Activity against Acinetobacter baumannii in a Whole-Animal High-Throughput Caenorhabditis elegans Model.
1Division of Infectious Diseases, Rhode Island Hospital, Alpert Medical School of Brown University, Providence, Rhode Island, USA Massachusetts General Hospital, Harvard Medical School, Boston, Massachusetts, USA.
DAF-16/FOXO and EGL-27/GATA promote developmental growth in response to persistent somatic DNA damage
Michael M. Mueller ¹, ², Laia Castells-Roca ¹, ², Vipin Babu ¹, ², Maria A. Ermolaeva ¹, ², Roman-Ulrich Müller ², Peter Frommolt², Ashley B. Williams ¹, ², Sebastian Greiss ², Jennifer I. Schneider ¹, ², Thomas Benzing ², Bernhard Schermer ², & Björn Schumacher ¹, ² November 24, 2014 Nature Cell Biology 16, 1168–1179 (2014) doi:10.1038/ncb3071
View AbstractDAF-16/FOXO and EGL-27/GATA promote developmental growth in response to persistent somatic DNA damage
1Institute for Genome Stability in Ageing and Disease, Medical Faculty, University of Cologne, Joseph-Stelzmann-Str. 26 50931 Cologne, Germany
2Cologne Excellence Cluster for Cellular Stress Responses in Aging-Associated Diseases (CECAD) Research Center and Systems Biology of Ageing Cologne, University of Cologne, Joseph-Stelzmann-Str. 26 50931 Cologne, Germany
Bioactivity of nanosilver in Caenorhabditis elegans: Effects of size, coat, and shape
Piper Reid Hunta,, Zachary Keltnera, Xiugong Gaoa, Steven J. Oldenburg, Priyanka Bushanaa, Nicholas Olejnika, Robert L. Sprandoa November 05, 2014 www.elsevier.com/locate/toxrep
View AbstractBioactivity of nanosilver in Caenorhabditis elegans: Effects of size, coat, and shape
aCenter for Food Safety and Applied Nutrition, FDA, Laurel, MD, United States
COPASutils: An R Package for Reading, Processing, and Visualizing Data from COPAS Large-Particle Flow Cytometers
Tyler C. Shimko, Erik C. Andersen October 20, 2014 PLoS ONE 9(10): e111090. doi:10.1371/journal.pone.0111090
View AbstractCOPASutils: An R Package for Reading, Processing, and Visualizing Data from COPAS Large-Particle Flow Cytometers
Department of Molecular Biosciences, Northwestern University, Evanston, Illinois, United States of America
Activation of a G protein-coupled receptor by its endogenous ligand triggers the innate immune response of Caenorhabditis elegans.
Zugasti O¹, Bose N Squiban B, Belougne J¹, Kurz CL, Schroeder FC, Pujol N¹, Ewbank JJ¹ September 15, 2014 Nat Immunol. 2014 Sep;15(9):833-8. doi: 10.1038/ni.2957. Epub 2014 Aug 3.
View AbstractActivation of a G protein-coupled receptor by its endogenous ligand triggers the innate immune response of Caenorhabditis elegans.
11] Centre d'Immunologie de Marseille-Luminy, UM2 Aix-Marseille Université, Case 906, Marseille, France. [2] INSERM, U1104, 13288 Marseille, France. [3] CNRS, UMR7280, Marseille, France.
Backbone-independent nucleic acid binding by splicing factor SUP-12 reveals key aspects of molecular recognition
Samir Amrane, Karine Rebora, Ilyass Zniber, Denis Dupuy & Cameron D Mackereth September 03, 2014 Nature Communications 5, Article number: 4595 doi:10.1038/ncomms5595
View AbstractBackbone-independent nucleic acid binding by splicing factor SUP-12 reveals key aspects of molecular recognition
Institut Européen de Chimie et Biologie, IECB, Univ. Bordeaux, 2 rue Robert Escarpit, F-33607 Pessac, France
Inserm, U869, ARNA Laboratory, 146 rue Léo Saignat, F-33076 Bordeaux, France
ICeE: An Interface for C. elegans Experiments
Montañana F, Julien RA, Vaglio P, Matthews LR, Tichit L, Ewbank JJ. August 15, 2014 Worm 2014; 3:e32160; http://dx.doi.org/10.4161/worm.32160
ICeE: An Interface for C. elegans Experiments
A high-content assay for identifying small molecules that reprogram C. elegans germ cell fate.
Benson JA¹, Cummings EE¹, O'Reilly LP¹, Lee MH, Pak SC¹. August 01, 2014 Methods. 2014 Aug 1;68(3):529-535. doi: 10.1016/j.ymeth.2014.05.011. Epub 2014 Jun 2.
View AbstractA high-content assay for identifying small molecules that reprogram C. elegans germ cell fate.
1Department of Pediatrics, University of Pittsburgh School of Medicine, Children's Hospital of Pittsburgh of UPMC, 4401 Penn Avenue, Pittsburgh, PA 15224, USA.
Genome evolution and plasticity of Serratia marcescens, an important multidrug resistant nosocomial pathogen
Atsushi Iguchi1, Yutaka Nagaya, Elizabeth Pradel, Tadasuke Ooka2, Yoshitoshi Ogura2,3, Keisuke Katsura3, Ken Kurokawa, Kenshiro Oshima, Masahira Hattori, Julian Parkhill, Mohamed Sebaihia, Sarah Coulthurst, Naomasa Gotoh, Nicholas R. Thomson, Jonathan J. Ewbank, Tetsuya Hayashi,2, 3 July 28, 2014 Genome Biology and Evolution Advance Access published July 28, 2014 doi:10.1093/gbe/evu160
View AbstractGenome evolution and plasticity of Serratia marcescens, an important multidrug resistant nosocomial pathogen
1 Interdisciplinary Research Organization, University of Miyazaki, Miyazaki, Japan
2Department of Infectious Diseases, Faculty of Medicine, University of Miyazaki, Miyazaki, Japan
3Department of Genomics and Bioenvironmental Science, Frontier Science Research Center, University of Miyazaki, Miyazaki, Japan
A pair of RNA-binding proteins controls networks of splicing events contributing to specialization of neural celltypes.
Norris AD1, Gao S, Norris ML1, Ray D, Ramani AK, Fraser AG, Morris Q, Hughes TR, Zhen M, Calarco JA1 June 19, 2014 Mol Cell. 2014 Jun 19;54(6):946-59. doi: 10.1016/j.molcel.2014.05.004. Epub 2014 Jun 5.
View AbstractA pair of RNA-binding proteins controls networks of splicing events contributing to specialization of neural celltypes.
· 1FAS Center for Systems Biology, Harvard University, 52 Oxford Street, Cambridge, MA 02138, USA.
·
A genome-wide RNAi screen identifies potential drug targets in a C. elegans model of a1-antitrypsin deficiency.
O'Reilly LP¹, Long OS¹, Cobanoglu MC, Benson JA, Luke CJ¹, Miedel MT¹, Hale P¹, Perlmutter DH¹, Bahar I, Silverman GA¹, Pak SC¹. May 16, 2014 Hum Mol Genet. 2014 May 16. pii: ddu236. [Epub ahead of print]
View AbstractA genome-wide RNAi screen identifies potential drug targets in a C. elegans model of a1-antitrypsin deficiency.
· 1Department of Pediatrics, Cell Biology, University of Pittsburgh School of Medicine, Children's Hospital of Pittsburgh of UPMC and Magee-Womens Hospital Research Institute, 4401 Penn Avenue, Pittsburgh, PA 15224, USA.
·
Control of Metazoan Heme Homeostasis by a Conserved Multidrug Resistance Protein.
Korolnek T¹, Zhang J¹, Beardsley S¹, Scheffer GL, Hamza I¹ May 14, 2014 Cell Metab. 2014 May 14. pii: S1550-4131(14)00168-5. doi: 10.1016/j.cmet.2014.03.030. [Epub ahead of print]
View AbstractControl of Metazoan Heme Homeostasis by a Conserved Multidrug Resistance Protein.
· 1Department of Animal and Avian Sciences and Department of Cell Biology and Molecular Genetics, University of Maryland, College Park, MD 20742, USA.
·
Progressive Degeneration of Dopaminergic Neurons through TRP Channel-Induced Cell Death.
Nagarajan A¹, Ning Y, Reisner K, Buraei Z, Larsen JP, Hobert O, Doitsidou M. April 23, 2014 J Neurosci. 2014 Apr 23;34(17):5738-46. doi: 10.1523/JNEUROSCI.4540-13.2014.
View AbstractProgressive Degeneration of Dopaminergic Neurons through TRP Channel-Induced Cell Death.
1Center for Organelle Research, University of Stavanger, 4036 Stavanger, Norway, Norwegian Center for Movement Disorders, Stavanger University Hospital, 4011 Stavanger, Norway
The C. elegans lifespan assay toolkit.
Amrit FR¹, Ratnappan R¹, Keith SA¹, Ghazi A². April 13, 2014 Methods. 2014 Apr 13. pii: S1046-2023(14)00146-7. doi: 10.1016/j.ymeth.2014.04.002. [Epub ahead of print]
View AbstractThe C. elegans lifespan assay toolkit.
1Department of Pediatrics, University of Pittsburgh School of Medicine, 7129 Rangos Research Centre, Children's Hospital of Pittsburgh, 4401 Penn Avenue, Pittsburgh, PA 15224, United States.
2Department of Pediatrics, University of Pittsburgh School of Medicine, 7129 Rangos Research Centre, Children's Hospital of Pittsburgh, 4401 Penn Avenue, Pittsburgh, PA 15224, United States. Electronic address: arjumand.ghazi@chp.edu.
Comparative toxicity of silver nanoparticles on oxidative stress and DNA damage in the nematode,Caenorhabditis elegans.
Ahn JM¹, Eom HJ¹, Yang X², Meyer JN², Choi J¹. April 09, 2014 Chemosphere. 2014 Apr 9. pii: S0045-6535(14)00169-6. doi: 10.1016/j.chemosphere.2014.01.078. [Epub ahead of print]
View AbstractComparative toxicity of silver nanoparticles on oxidative stress and DNA damage in the nematode,Caenorhabditis elegans.
· 1School of Environmental Engineering, University of Seoul, Seoul 130-743, Republic of Korea; Graduate School of Energy and Environmental system Engineering, University of Seoul, Seoul 130-743, Republic of Korea.
· 2Nicholas School of the Environment and Center for the Environmental Implications of Nanotechnology, Duke University, Durham, NC, USA.
·
Automated Separation of C. elegans Variably Colonized by a Bacterial Pathogen
Kwame Twumasi-Boateng¹, Maureen Berg¹, Michael Shapira¹ March 21, 2014 JOVE 3/21/2014, Issue 85; doi: 10.3791/51090 1) Department of Integrative Biology, University of California, Berkeley
View AbstractAutomated Separation of C. elegans Variably Colonized by a Bacterial Pathogen
The wormsorter is an instrument analogous to a FACS machine that is used in studies of Caenorhabditis elegans, typically to sort worms based on expression of a fluorescent reporter. Here, we highlight an alternative usage of this instrument, for sorting worms according to their degree of colonization by a GFP-expressing pathogen. This new usage allowed us to address the relationship between colonization of the worm intestine and induction of immune responses. While C. elegans immune responses to different pathogens have been documented, it is still unknown what initiates them. The two main possibilities (which are not mutually exclusive) are recognition of pathogen-associated molecular patterns, and detection of damage caused by infection. To differentiate between the two possibilities, exposure to the pathogen must be dissociated from the damage it causes. The wormsorter enabled separation of worms that were extensively-colonized by the Gram-negative pathogen Pseudomonas aeruginosa, with the damage likely caused by pathogen load, from worms that were similarly exposed, but not, or marginally, colonized. These distinct populations were used to assess the relationship between pathogen load and the induction of transcriptional immune responses. The results suggest that the two are dissociated, supporting the possibility of pathogen recognition.
Defects in the C. elegans acyl-CoA Synthase, acs-3, and Nuclear Hormone Receptor, nhr-25, Cause Sensitivity to Distinct, but Overlapping Stresses.
Ward JD¹, Mullaney B², Schiller BJ¹, He le D³, Petnic SE¹, Couillault C³, Pujol N³, Bernal TU¹, Van Gilst MR4, Ashrafi K², Ewbank JJ³, Yamamoto KR¹. March 20, 2014 PLoS One. 2014 Mar 20;9(3):e92552. doi: 10.1371/journal.pone.0092552. eCollection 2014. 1) Department of Cellular and Molecular Pharmacology, University of California San Francisco, San Francisco, California, United States of America 2) Department of Physiology, University of California San Francisco, San Francisco, California, United States of America 3) Centre d'Immunologie de Marseille-Luminy (CIML), UM2 Aix-Marseille Université, Marseille, France; Institut National de la Santé et de la Recherche Médicale (INSERM), Marseille, France; Centre National de la Recherche Scientifique (CNRS), UMR7280, Marseille, France 4) Division of Basic Sciences, Fred Hutchinson Cancer Research Center, Seattle, Washington, United States of America.
View AbstractDefects in the C. elegans acyl-CoA Synthase, acs-3, and Nuclear Hormone Receptor, nhr-25, Cause Sensitivity to Distinct, but Overlapping Stresses.
Metazoan transcription factors control distinct networks of genes in specific tissues, yet understanding how these networks are integrated into physiology, development, and homeostasis remains challenging. Inactivation of the nuclear hormone receptor nhr-25 ameliorates developmental and metabolic phenotypes associated with loss of function of an acyl-CoA synthetase gene, acs-3. ACS-3 activity prevents aberrantly high NHR-25 activity. Here, we investigated this relationship further by examining gene expression patterns following acs-3 and nhr-25 inactivation. Unexpectedly, we found that the acs-3 mutation or nhr-25 RNAi resulted in similar transcriptomes with enrichment in innate immunity and stress response gene expression. Mutants of either gene exhibited distinct sensitivities to pathogens and environmental stresses. Only nhr-25 was required for wild-type levels of resistance to the bacterial pathogen P. aeruginosa and only acs-3 was required for wild-type levels of resistance to osmotic stress and the oxidative stress generator, juglone. Inactivation of either acs-3 or nhr-25 compromised lifespan and resistance to the fungal pathogen D. coniospora. Double mutants exhibited more severe defects in the lifespan and P. aeruginosa assays, but were similar to the single mutants in other assays. Finally, acs-3 mutants displayed defects in their epidermal surface barrier, potentially accounting for the observed sensitivities. Together, these data indicate that inactivation of either acs-3 or nhr-25 causes stress sensitivity and increased expression of innate immunity/stress genes, most likely by different mechanisms. Elevated expression of these immune/stress genes appears to abrogate the transcriptional signatures relevant to metabolism and development.
Silver Nanoparticle Behavior, Uptake, and Toxicity in Caenorhabditis elegans: Effects of Natural Organic Matter.
Yang X¹, Jiang C, Hsu-Kim H, Badireddy AR, Dykstra M, Wiesner M, Hinton DE, Meyer JN. March 18, 2014 Environ Sci Technol. 2014 Mar 18;48(6):3486-95. doi: 10.1021/es404444n. Epub 2014 Mar 10.
View AbstractSilver Nanoparticle Behavior, Uptake, and Toxicity in Caenorhabditis elegans: Effects of Natural Organic Matter.
1) Nicholas School of the Environment and ‡Department of Civil and Environmental Engineering, Center for the Environmental Implications of Nanotechnology, Duke University , Durham, North Carolina 27708-0328, United States.
High-Throughput Screening for Novel Anti-Infectives Using a C. elegans Pathogenesis Model.
Conery AL¹, Larkins-Ford J, Ausubel FM, Kirienko NV. March 14, 2014 Curr Protoc Chem Biol. 2014 Mar 14;6(1):25-37. doi: 10.1002/9780470559277.ch130160.
View AbstractHigh-Throughput Screening for Novel Anti-Infectives Using a C. elegans Pathogenesis Model.
1) Department of Molecular Biology, Massachusetts General Hospital, Boston, Massachusetts; Department of Genetics, Harvard Medical School, Boston, Massachusetts.
The dsRBP and inactive editor ADR-1 utilizes dsRNA binding to regulate A-to-I RNA editing across the C. elegans transcriptome.
Washburn MC¹, Kakaradov B, Sundararaman B, Wheeler E, Hoon S, Yeo GW, Hundley HA2 February 27, 2014 Cell Rep. 2014 Feb 27;6(4):599-607. doi: 10.1016/j.celrep.2014.01.011. Epub 2014 Feb 6. 1) Department of Biology, Indiana University, Bloomington, IN 47405, USA. Bioinformatics and Systems Biology Program, University of California, San Diego, La Jolla, CA 92093-0419, USA; 2) Medical Sciences Program, Indiana University, Bloomington, IN 47405, USA. Electronic address: hahundle@indiana.edu
View AbstractThe dsRBP and inactive editor ADR-1 utilizes dsRNA binding to regulate A-to-I RNA editing across the C. elegans transcriptome.
Inadequate adenosine-to-inosine editing of noncoding regions occurs in disease but is often uncorrelated with ADAR levels, underscoring the need to study deaminase-independent control of editing. C. elegans have two ADAR proteins, ADR-2 and the theoretically catalytically inactive ADR-1. Using high-throughput RNA sequencing of wild-type and adr mutant worms, we expand the repertoire of C. elegans edited transcripts over 5-fold and confirm that ADR-2 is the only active deaminase in vivo. Despite lacking deaminase function, ADR-1 affects editing of over 60 adenosines within the 3' UTRs of 16 different mRNAs. Furthermore, ADR-1 interacts directly with ADR-2 substrates, even in the absence of ADR-2, and mutations within its double-stranded RNA (dsRNA) binding domains abolish both binding and editing regulation. We conclude that ADR-1 acts as a major regulator of editing by binding ADR-2 substrates in vivo. These results raise the possibility that other dsRNA binding proteins, including the inactive human ADARs, regulate RNA editing through deaminase-independent mechanisms.
A comparative study into alterations of coenzyme Q redox status in ageing pigs, mice, and worms.
Onur S¹, Niklowitz P, Fischer A, Metges CC, Grune T, Menke T, Rimbach G, Döring F. February 27, 2014 Biofactors. 2014 Feb 27. doi: 10.1002/biof.1160. [Epub ahead of print]
View AbstractA comparative study into alterations of coenzyme Q redox status in ageing pigs, mice, and worms.
1) Division of Molecular Prevention, Institute of Human Nutrition and Food Science, Christian Albrechts University Kiel, Kiel, Germany.
A Variant in the Neuropeptide Receptor npr-1 is a Major Determinant of Caenorhabditis elegans Growth and Physiology
Erik C. Andersen¹, Joshua S. Bloom², Justin P. Gerke³, Leonid Kruglyak4 February 27, 2014 DOI: 10.1371/journal.pgen.1004156
View AbstractA Variant in the Neuropeptide Receptor npr-1 is a Major Determinant of Caenorhabditis elegans Growth and Physiology
1) Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey, United States of America 2) Department of Molecular Biology, Princeton University, Princeton, New Jersey, United States of America 3) Departments of Human Genetics and Biological Chemistry, David Geffen School of Medicine, University of California Los Angeles, Los Angeles, California, United States of America 4) Howard Hughes Medical Institute, Chevy Chase, Maryland, United States of America
PRDE-1 is a nuclear factor essential for the biogenesis of Ruby motif-dependent piRNAs in C. elegans
Eva-Maria Weick¹, Peter Sarkies¹, Nicola Silva², Ron A. Chen¹, Sylviane M.M. Moss¹, Amy C. Cording¹, Julie Ahringer¹, Enrique Martinez-Perez² and Eric A. Miska¹ February 27, 2014 doi: 10.1101/gad.238105.114 Genes & Dev. 2014. 28: 783-796
View AbstractPRDE-1 is a nuclear factor essential for the biogenesis of Ruby motif-dependent piRNAs in C. elegans
1) Wellcome Trust Cancer Research UK Gurdon Institute, Department of Genetics, University of Cambridge, Cambridge CB2 1QN, United Kingdom; 2) MRC Clinical Sciences Centre, Imperial College Faculty of Medicine, London W12 0NN, United Kingdom
Evaluation of The Mitochondrial Redox Status in Caenorhabditis elegans: An Assay Based on The COPAS Biosort Flow Cytometer
HU Mingxi¹,², XU Tao¹, CHEN Chang¹ February 20, 2014 Acta Biophysica Sinica 2014, 30(2) 110-116 DOI: 10.3724/SP.J.1260.2014.40021 ISSN: 1000-6737 CN: 11-1992/Q
View AbstractEvaluation of The Mitochondrial Redox Status in Caenorhabditis elegans: An Assay Based on The COPAS Biosort Flow Cytometer
1Institute of Biophysics, Chinese Academy of Sciences, Beijing 100101, China
2University of the Chinese Academy of Sciences, Beijing 100049, China
S-Adenosyl methionine synthetase 1 limits fat storage in Caenorhabditis elegans
Madeleine Ehmke, Katharina Luthe, Ralf Schnabel, and Frank Döring February 08, 2014 Genes Nutr. Mar 2014; 9(2): 386. Published online Feb 8, 2014. doi: 10.1007/s12263-014-0386-6
View AbstractS-Adenosyl methionine synthetase 1 limits fat storage in Caenorhabditis elegans
Department of Molecular Prevention, Institute of Human Nutrition and Food Sciences, University of Kiel, Heinrich-Hecht-Platz 10, 24118 Kiel, Germany Department of Developmental Genetics, Institute of Genetics, TU Braunschweig, Spielmannstr. 7, 38106 Brunswick, Germany
Comparative RNAi Screens in C. elegans and C. briggsae Reveal the Impact of Developmental System Drift on Gene Function
Adrian J. Verster¹,² Arun K. Ramani,¹,²2 Sheldon J. McKay,³ and Andrew G. Fraser¹,²,* February 06, 2014 Published online Feb 6, 2014. doi: 10.1371/journal.pgen.1004077
View AbstractComparative RNAi Screens in C. elegans and C. briggsae Reveal the Impact of Developmental System Drift on Gene Function
1) The Donnelly Centre, University of Toronto, Toronto, Ontario, Canada 2) Department of Molecular Genetics, University of Toronto, Toronto, Ontario, Canada 3) Cold Spring Harbor Laboratory, Cold Spring Harbor, New York, United States of America 4) University of California Davis, United States of America
Fluphenazine Reduces Proteotoxicity in C. elegans and Mammalian Models of Alpha-1-Antitrypsin Deficiency
Jie Li¹, Stephen C. Pak¹, Linda P. O’Reilly¹, Joshua A. Benson¹, Yan Wang¹, Tunda Hidvegi¹, Pamela Hale¹, Christine Dippold¹, Michael Ewing¹, Gary A. Silverman¹, David H. Perlmutter¹ January 31, 2014 Published: January 31, 2014 • DOI: 10.1371/journal.pone.0087260 1) Department of Pediatrics, University of Pittsburgh School of Medicine, Pittsburgh, Pennsylvania, United States of America ; Children's Hospital of Pittsburgh of University of Pittsburgh Medical Center, Pittsburgh, Pennsylvania, United States of America.
View AbstractFluphenazine Reduces Proteotoxicity in C. elegans and Mammalian Models of Alpha-1-Antitrypsin Deficiency
The classical form of α1-antitrypsin deficiency (ATD) is associated with hepatic fibrosis and hepatocellular carcinoma. It is caused by the proteotoxic effect of a mutant secretory protein that aberrantly accumulates in the endoplasmic reticulum of liver cells. Recently we developed a model of this deficiency in C. elegans and adapted it for high-content drug screening using an automated, image-based array scanning. Screening of the Library of Pharmacologically Active Compounds identified fluphenazine (Flu) among several other compounds as a drug which reduced intracellular accumulation of mutant α1-antitrypsin Z (ATZ). Because it is representative of the phenothiazine drug class that appears to have autophagy enhancer properties in addition to mood stabilizing activity, and can be relatively easily re-purposed, we further investigated its effects on mutant ATZ. The results indicate that Flu reverses the phenotypic effects of ATZ accumulation in the C. elegans model of ATD at doses which increase the number of autophagosomes in vivo. Furthermore, in nanomolar concentrations, Flu enhances the rate of intracellular degradation of ATZ and reduces the cellular ATZ load in mammalian cell line models. In the PiZ mouse model Flu reduces the accumulation of ATZ in the liver and mediates a decrease in hepatic fibrosis. These results show that Flu can reduce the proteotoxicity of ATZ accumulation in vivo and, because it has been used safely in humans, this drug can be moved rapidly into trials for liver disease due to ATD. The results also provide further validation for drug discovery using C. elegans models that can be adapted to high-content drug screening platforms and used together with mammalian cell line and animal models.
Forward and reverse mutagenesis in C. elegans.
Lena M. Kutscher¹, and Shai Shaham¹ January 17, 2014 Kutscher L. M., Shaham S. Forward and reverse mutagenesis in C. elegans (January 17, 2014), WormBook, ed. The C. elegans Research Community, WormBook, doi/10.1895/wormbook.1.167.1, http://www.wormbook.org.
View AbstractForward and reverse mutagenesis in C. elegans.
1) Laboratory of Developmental Genetics, The Rockefeller University, New York NY 10065, USA
Sulfidation of silver nanoparticles: natural antidote to their toxicity.
Levard C, Hotze EM, Colman BP, Dale AL, Truong L, Yang XY, Bone AJ, Brown GE Jr, Tanguay RL, Di Giulio RT, Bernhardt ES, Meyer JN, Wiesner MR, Lowry GV. December 03, 2013 Environ Sci Technol. 2013 Dec 3;47(23):13440-8. doi: 10.1021/es403527n. Epub 2013 Nov 15.
Sulfidation of silver nanoparticles: natural antidote to their toxicity.
RNA-binding protein GLD-1/quaking genetically interacts with the mir-35 and the let-7 miRNA pathways in Caenorhabditis elegans
Alper Akay 1,2, Ashley Craig1, Nicolas Lehrbach2, Mark Larance1, Ehsan Pourkarimi1, Jane E. Wright3, Angus Lamond1, Eric Miska2, and Anton Gartner1 November 20, 2013 Open Biol. 2013 3, 130151. http://dx.doi.org/10.1098/rsob.130151
View AbstractRNA-binding protein GLD-1/quaking genetically interacts with the mir-35 and the let-7 miRNA pathways in Caenorhabditis elegans
1)Centre for Gene Regulation and Expression, University of Dundee, Dundee DD1 5EH, UK 2)Wellcome Trust Cancer Research UK Gurdon Institute, University of Cambridge, Cambridge CB2 1QN, UK 3)Friedrich Miescher Institute for Biomedical Research, Basel 4002, Switzerland
Modular Control of Glutamatergic Neuronal Identity in C. elegans by Distinct Homeodomain Proteins.
Serrano-Saiz E, Poole RJ, Felton T, Zhang F, De La Cruz ED, Hobert O. October 24, 2013 Cell. 2013 Oct 24;155(3):659-73. doi: 10.1016/j.cell.2013.09.052. Epub 2013 Oct 24.
View AbstractModular Control of Glutamatergic Neuronal Identity in C. elegans by Distinct Homeodomain Proteins.
Department of Biochemistry and Molecular Biophysics, HHMI, Columbia University Medical Center, New York, NY 10032, USA. Electronic address: es2754@columbia.edu.
Comparative toxicogenomic responses of mercuric and methyl-mercury.
Matthew K McElwee1, Lindsey A Ho2, Jeff W Chou3, 4, Marjolein V Smith2, and Jonathan H Freedman1,* October 11, 2013 McElwee et al. BMC Genomics 2013, 14:698. http://www.biomedcentral.com/1471-2164/14/698
View AbstractComparative toxicogenomic responses of mercuric and methyl-mercury.
* Corresponding author: Jonathan H Freedman freedma1@niehs.nih.gov Author Affiliations 1)Laboratory of Toxicology and Pharmacology, National Institute of Environmental Health Sciences, NIH, 111 T.W Alexander Drive, Research Triangle Park, P.O. Box 12233, 27709 Durham, NC, USA 2)SRA International, Inc., Durham, NC, USA 3)Microarray and Genome Informatics Group, National Institute of Environmental Health Sciences, NIH, Research Triangle Park, Durham, NC, USA 4)Current address: Department of Biostatistical Sciences, Wake Forest University School of Medicine, Medical Center Boulevard, 27157 Winston-Salem, NC, USA
Comparison of the toxicity of fluoridation compounds in the nematode C. elegans.
Rice JR, Boyd WA, Chandra D, Smith MV, Den Besten PK, Freedman JH. September 16, 2013 Environ Toxicol Chem. 2013 Sep 16. doi: 10.1002/etc.2394.
View AbstractComparison of the toxicity of fluoridation compounds in the nematode C. elegans.
Biomolecular Screening Branch, Division of the National Toxicology Program, National Institute of Environmental Health Sciences, National Institutes of Health, Research Triangle Park, North Carolina, USA.
A Pro-Cathepsin L Mutant Is a Luminal Substrate for Endoplasmic-Reticulum-Associated Degradation in C.elegans
Mark T. Miedel, Nathan J. Graf, Kate E. Stephen, Olivia S. Long, Stephen C. Pak, David H. Perlmutter, Gary A. Silverman, Cliff J. Luke July 02, 2013 PLoS ONE 7(7): e40145. doi:10.1371/journal.pone.0040145
View AbstractA Pro-Cathepsin L Mutant Is a Luminal Substrate for Endoplasmic-Reticulum-Associated Degradation in C.elegans
Department of Pediatrics, Cell Biology and Physiology, University of Pittsburgh School of Medicine, Children’s Hospital of Pittsburgh of UPMC and Magee-Womens Hospital of UPMC, Pittsburgh, Pennsylvania, United States of America
EGL-13/SoxD specifies distinct O2 and CO2 sensory neuron fates in Caenorhabditis elegans.
Gramstrup Petersen J, Rojo Romanos T, Juozaityte V, Redo Riveiro A, Hums I, Traunmüller L, Zimmer M, Pocock R. May 09, 2013 PLoS Genet. 2013 May;9(5):e1003511. doi: 10.1371/journal.pgen.1003511. Epub 2013 May 9.
View AbstractEGL-13/SoxD specifies distinct O2 and CO2 sensory neuron fates in Caenorhabditis elegans.
Biotech Research and Innovation Centre, University of Copenhagen, Copenhagen, Denmark.
EGL-13/SoxD specifies distinct O2 and CO2 sensory neuron fates in Caenorhabditis elegans.
Gramstrup et al. May 09, 2013 PLoS Genet. 2013 May;9(5):e1003511. doi: 10.1371/journal.pgen.1003511. Epub 2013 May 9.
EGL-13/SoxD specifies distinct O2 and CO2 sensory neuron fates in Caenorhabditis elegans.
Active transcriptomic and proteomic reprogramming in the C. elegans nucleotide excision repair mutant xpa-1.
Arczewska, K.D., Tomazella, G.G., Lindvall, J.M., Kassahun, H., Maglioni, S., Torgovnick, A., Henriksson, J., Matilainen, O., Marquis, B.J., Babaie, E., Holmberg, C.I., Bürglin, T.R., Ventura, N., Thiede, B., Nilsen, H. May 01, 2013 Nucl. Acids Res., 41, 5368-5381.
Active transcriptomic and proteomic reprogramming in the C. elegans nucleotide excision repair mutant xpa-1.
piRNAs can trigger a multigenerational epigenetic memory in the germline of C. elegans.
Ashe A, Sapetschnig A, Weick EM, Mitchell J, Bagijn MP, Cording AC, Doebley AL, Goldstein LD, Lehrbach NJ, Le Pen J, Pintacuda G, Sakaguchi A, Sarkies P, Ahmed S, Miska EA. July 06, 2012 Cell. 2012 Jul 6;150(1):88-99. Epub 2012 Jun 25.
View AbstractpiRNAs can trigger a multigenerational epigenetic memory in the germline of C. elegans.
Wellcome Trust Cancer Research UK Gurdon Institute,
Toxicity ranking of heavy metals with screening method using adult Caenorhabditis elegans and propidium iodide replicates toxicity ranking in rat
Piper Reid Hunt *, Nicholas Olejnik ¹, Robert L. Sprando ², July 04, 2012 Food Chem Toxicol. 2012 Sep;50(9):3280-90. Epub 2012 Jul 4.
View AbstractToxicity ranking of heavy metals with screening method using adult Caenorhabditis elegans and propidium iodide replicates toxicity ranking in rat
United States Food and Drug Administration, Center for Food Safety and Applied Nutrition, Office of Applied Research and Safety Assessment, Division of Toxicology,8301 Muirkirk Road, Laurel, MD 20708, United States
* Corresponding author. Address: Mod. 1, Room 2002, 8301 Muirkirk Road,Laurel, MD 20708-2476, USA. Tel.: +1 301 210 8897.1) Address: Mod. 1, Room 2011, 8301 Muirkirk Road, Laurel, MD 20708-2476, USA. Tel.: +1 301 210 6375. 2) Address: Mod. 1, Room 2017, 8301 Muirkirk Road, Laurel, MD 20708-2476, USA. Tel.: +1 301 210 6329.
E-mail addresses: Piper.Hunt@fda.hhs.gov (P.R. Hunt), Nicholas.Olejnik@fda.hhs.gov (N. Olejnik), Sprando@fda.hhs.gov (R.L. Sprando).
Caenorhabditis elegans as a model in developmental toxicology.
Boyd WA, Smith MV, Freedman JH. May 31, 2012 Methods Mol Biol. 2012;889:15-24.
View AbstractCaenorhabditis elegans as a model in developmental toxicology.
Biomolecular Screening Branch, National Toxicology Program, National Institute of Environmental Health Sciences, NIH,
The Pseudokinase NIPI-4 Is a Novel Regulator of Antimicrobial Peptide Gene Expression
Labed et al. March 21, 2012 PLoS ONE(Vol. 7, Issue 3); Public Library of Science
The Pseudokinase NIPI-4 Is a Novel Regulator of Antimicrobial Peptide Gene Expression
Daf-2 signaling modifies mutant SOD1 toxicity in C. elegans
Boccitto M, Lamitina T, Kalb RG. March 20, 2012 PLoS One. 2012;7(3):e33494. Epub 2012 Mar 20. Department of Pediatrics, Division of Neurology, Children's Hospital of Philadelphia Research Institute, Philadelphia, Pennsylvania, United States of America. boccitto@mail.med.upenn.edu
View AbstractDaf-2 signaling modifies mutant SOD1 toxicity in C. elegans
The DAF-2 Insulin/IGF-1 signaling (IIS) pathway is a strong modifier of Caenorhabditis elegans longevity and healthspan. As aging is the greatest risk factor for developing neurodegenerative diseases such as Amyotrophic Lateral Sclerosis (ALS), we were interested in determining if DAF-2 signaling modifies disease pathology in mutant superoxide dismutase 1 (SOD1) expressing C. elegans. Worms with pan-neuronal G85R SOD1 expression demonstrate significantly impaired locomotion as compared to WT SOD1 expressing controls and they develop insoluble SOD1 aggregates. Reductions in DAF-2 signaling, either through a hypomorphic allele or neuronally targeted RNAi, decreases the abundance of aggregated SOD1 and results in improved locomotion in a DAF-16 dependant manner. These results suggest that manipulation of the DAF-2 Insulin/IGF-1 signaling pathway may have therapeutic potential for the treatment of ALS.
Quantitative and Automated High-throughput Genome-wide RNAi Screens in C. elegans
Barbara Squiban, Jérôme Belougne, Jonathan Ewbank, Olivier Zugasti February 27, 2012 http://www.jove.com/video/3448
View AbstractQuantitative and Automated High-throughput Genome-wide RNAi Screens in C. elegans
Centre d’Immunologie de Marseille-Luminy, Université de la Méditerranée
Topologically conserved residues direct heme transport in HRG-1-related proteins.
Yuan X, Protchenko O, Philpott CC, Hamza I. February 10, 2012 J Biol Chem. 2012 Feb 10;287(7):4914-24. doi: 10.1074/jbc.M111.326785. Epub 2011 Dec 15.
View AbstractTopologically conserved residues direct heme transport in HRG-1-related proteins.
Department of Animal & Avian Sciences and Department of Cell Biology & Molecular Genetics, University of Maryland, College Park, Maryland 20742, USA.
A Genome-Wide Collection of Mos1 Transposon InsertionMutants for the C. elegans Research Community
Elodie Vallin¹,²·, Joseph Gallagher³·, Laure Granger¹,², Edwige Martin¹,², Jérôme Belougne4,5,6, Julien Maurizio4,5,6, Yohann Duverger4,5,6¤a, Sarah Scaglione4,5,6¤b, Caroline Borrel¹,², Elisabeth Cortier¹,²,Karima Abouzid¹,²¤c, Maite´ Carre-Pierrat¹,², 7¤d, Kathrin Gieseler¹,², Laurent Ségalat¹,²", Patricia E.Kuwabara³", Jonathan J. Ewbank4,5,6*" February 08, 2012 PLoS ONE 7(2): e30482. doi:10.1371/journal.pone.0030482
View AbstractA Genome-Wide Collection of Mos1 Transposon InsertionMutants for the C. elegans Research Community
1)Centre de Génétique et de Physiologie Moléculaires et Cellulaires, CNRS UMR 5534, Campus de la Doua, Villeurbanne, France, 2) Université Claude Bernard Lyon 1,Villeurbanne, France, 3) School of Biochemistry, University of Bristol, Bristol, United Kingdom, 4) Centre d’Immunologie de Marseille-Luminy, Aix-Marseille University,Marseille, France, 5) INSERM, U1104, Marseille, France, 6) CNRS, UMR7280, Marseille, France, 7) Plateforme ‘‘Biologie de Caenorhabditis elegans’’, CNRS UMS3421, Campus dela Doua, Villeurbanne, France
* E-mail: ewbank@ciml.univ-mrs.fr
The Majority of Animal Genes Are Required for Wild-Type Fitness
Arun K. Ramani,¹,² Tungalag Chuluunbaatar,¹,² Adrian J. Verster,¹,² Hong Na,¹,² Victoria Vu,¹,² Nadège Pelte,¹,² Nattha Wannissorn,¹,² Alan Jiao,¹,² and Andrew G. Fraser,¹,²,* January 19, 2012 DOI 10.1016/j.cell.2012.01.019; Cell. 2012 Feb 17;148(4):792-802.
View AbstractThe Majority of Animal Genes Are Required for Wild-Type Fitness
1) The Donnelly Centre, University of Toronto, 160 College Street, Toronto, Ontario M5S 3E1, Canada 2) Department of Molecular Genetics, University of Toronto, 1 King’s College Circle, Toronto, Ontario M5S 1A8, Canada
*Correspondence: andyfraser.utoronto@gmail.com
HIF-1 Regulates Iron Homeostasis in Caenorhabditis elegans by Activation and Inhibition of Genes Involved in Iron Uptake and Storage
Steven Joshua Romney, Ben S. Newman, Colin Thacker, Elizabeth A. Leibold December 15, 2011 PLoS Genet 7(12): e1002394. doi:10.1371/journal.pgen.1002394
View AbstractHIF-1 Regulates Iron Homeostasis in Caenorhabditis elegans by Activation and Inhibition of Genes Involved in Iron Uptake and Storage
An intercellular heme-trafficking protein delivers maternal heme to the embryo during development in C. elegans.
Chen C, Samuel TK, Sinclair J, Dailey HA, Hamza I. May 27, 2011 Cell. 2011 May 27;145(5):720-31. doi: 10.1016/j.cell.2011.04.025.
View AbstractAn intercellular heme-trafficking protein delivers maternal heme to the embryo during development in C. elegans.
Department of Animal & Avian Sciences and Department of Cell Biology & Molecular Genetics, University of Maryland, College Park, MD 20742, USA.
Fluorescence-based fixative and vital staining of lipid droplets in Caenorhabditis elegans eveal fat stores using microscopy and flow cytometry approaches
Klapper M, Ehmke M, Palgunow D, Böhme M, Matthäus C, Bergner G, Dietzek B, Popp J, Döring F March 18, 2011 J Lipid Res. 2011 Jun;52(6):1281-93. Epub 2011 Mar 18.
View AbstractFluorescence-based fixative and vital staining of lipid droplets in Caenorhabditis elegans eveal fat stores using microscopy and flow cytometry approaches
Institute of Human Nutrition and Food Science, Research Group Molecular Prevention,
The Caenorhabditis elegans mucin-like protein OSM-8 negatively regulates osmosensitive physiology via the transmembrane protein PTR-23.
Rohlfing AK, Miteva Y, Moronetti L, He L, Lamitina T. January 06, 2011 PLoS Genet. 2011 Jan 6;7(1):e1001267. Department of Physiology, University of Pennsylvania, Philadelphia, Pennsylvania, United States of America.
View AbstractThe Caenorhabditis elegans mucin-like protein OSM-8 negatively regulates osmosensitive physiology via the transmembrane protein PTR-23.
The molecular mechanisms of animal cell osmoregulation are poorly understood. Genetic studies of osmoregulation in yeast have identified mucin-like proteins as critical regulators of osmosensitive signaling and gene expression. Whether mucins play similar roles in higher organisms is not known. Here, we show that mutations in the Caenorhabditis elegans mucin-like gene osm-8 specifically disrupt osmoregulatory physiological processes. In osm-8 mutants, normal physiological responses to hypertonic stress, such as the accumulation of organic osmolytes and activation of osmoresponsive gene expression, are constitutively activated. As a result, osm-8 mutants exhibit resistance to normally lethal levels of hypertonic stress and have an osmotic stress resistance (Osr) phenotype. To identify genes required for Osm-8 phenotypes, we performed a genome-wide RNAi osm-8 suppressor screen. After screening ~18,000 gene knockdowns, we identified 27 suppressors that specifically affect the constitutive osmosensitive gene expression and Osr phenotypes of osm-8 mutants. We found that one suppressor, the transmembrane protein PTR-23, is co-expressed with osm-8 in the hypodermis and strongly suppresses several Osm-8 phenotypes, including the transcriptional activation of many osmosensitive mRNAs, constitutive glycerol accumulation, and osmotic stress resistance. Our studies are the first to show that an extracellular mucin-like protein plays an important role in animal osmoregulation in a manner that requires the activity of a novel transmembrane protein. Given that mucins and transmembrane proteins play similar roles in yeast osmoregulation, our findings suggest a possible evolutionarily conserved role for the mucin-plasma membrane interface in eukaryotic osmoregulation.
Proteome changes of Caenorhabditis elegans upon a Staphylococcus aureus infection
Annelies Bogaerts*, Isabel Beets, Liesbet Temmerman, Liliane Schoofs, Peter Verleyen January 05, 2011 Bogaerts et al. Biology Direct 2010, 5:11; http://www.biology-direct.com/content/5/1/11
Proteome changes of Caenorhabditis elegans upon a Staphylococcus aureus infection
Automated High-Content Live Animal Drug Screening Using C. elegans Expressing the Aggregation Prone Serpin a1-antitrypsin Z.
Sager J. Gosai¹, Joon Hyeok Kwak¹, Cliff J. Luke¹, Olivia S. Long¹, Dale E. King¹, Kevin J. Kovatch¹, Paul A. Johnston², Tong Ying Shun², John S. Lazo², David H. Perlmutter¹, Gary A. Silverman¹*, Stephen C. Pak¹* November 01, 2010 PLoS ONE 5(11): e15460. doi:10.1371/journal.pone.0015460
View AbstractAutomated High-Content Live Animal Drug Screening Using C. elegans Expressing the Aggregation Prone Serpin a1-antitrypsin Z.
1) Department of Pediatrics, Cell Biology and Physiology, University of Pittsburgh School of Medicine, Children's Hospital of Pittsburgh of UPMC and Magee-Womens Hospital Research Institute, Pittsburgh, Pennsylvania, United States of America, 2) Department of Pharmacology and Chemical Biology, University of Pittsburgh Drug Discovery Institute, University of Pittsburgh, Pennsylvania, United States of America
Insulin-like signaling determines survival during stress via posttranscriptional mechanisms in C. elegans .
McColl G, Rogers AN, Alavez S, Hubbard AE, Melov S, Link CD, Bush AI, Kapahi P, Lithgow GJ. September 08, 2010 Cell Metab. 2010 Sep 8;12(3):260-72.
View AbstractInsulin-like signaling determines survival during stress via posttranscriptional mechanisms in C. elegans .
The Mental Health Research Institute, Parkville, Victoria, Australia. gmccoll@mhri.edu.au
An antibiotic selection marker for nematode transgenesis.
Rosina Giordano-Santini¹, Stuart Milstein2,4, Nenad Svrzikapa4, Domena Tu5, Robert Johnsen2, David Baillie 5, Marc Vidal2,4 & Denis Dupuy¹ September 01, 2010 Nature America, Inc. 2010
View AbstractAn antibiotic selection marker for nematode transgenesis.
1) Genome Regulation and Evolution, INSERM U869, Institut Européen de Chimie et Biologie, Pessac, France. 2) Center for Cancer Systems Biology, Dana-Farber Cancer Institute, Boston, Massachusetts, USA. 3) Department of Cancer Biology, Dana-Farber Cancer Institute, Boston, Massachusetts, USA. 4) Department of Genetics, Harvard Medical School, Boston, Massachusetts, USA. 5) Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, British Columbia, Canada.
Caenorhabditis elegans as a screening tool to find active compounds and targets in rare neuromuscular diseases.
Aging, Metabolism, Stress, Pathogenesis, and Small RNAs University of Wisconsin-Madison, Madison, WI, USA, August 1-4, 2010
Maïté Carre-Pierrat, Jean Giacomotto, Jessica Cisek and Laurent Ségalat
August 01, 2010
Caenorhabditis elegans as a screening tool to find active compounds and targets in rare neuromuscular diseases.
CNRS UMR5534 – Centre de Génétique Moléculaire et Cellulaire, 16 rue Raphaël Dubois – bâtiment Mendel, Campus de La Doua – 69100 Villeurbanne - FRANCE
Optimizing analysis of high-throughput screens with the UBI Biosort
Aging, Metabolism, Stress, Pathogenesis, and Small RNA's in C. elegans, August 1-4, 2010, University of Wisconsin, Madison, WI
Frédéric Montanana¹, Jérôme Belougne¹, Aurélie Autret¹, Barbara Squiban¹, C. Leopold Kurz¹, Olivier Zugasti¹, Renaud Julien², Fabien Cavasino², Jonathan Ewbank¹
June 16, 2010
Optimizing analysis of high-throughput screens with the UBI Biosort
1) Centre d'Immunologie de Marseille Luminy, Case 906, 13288 Marseille Cedex 9, France, 2) Modul-Bio, Parc Scientifique Luminy Biotech II, Case 935,13288 Marseille Cedex 9
A suite of MATLAB-based computational tools for automated analysis of COPAS Biosort data
Elizabeth Morton and Todd Lamitina June 01, 2010 BioTechniques 48:xxv-xxx (The RNA World June 2010) doi 10.2144/000113427
View AbstractA suite of MATLAB-based computational tools for automated analysis of COPAS Biosort data
Department of Physiology, University of Pennsylvania, Philadelphia, PA, USA
A differential proteomics study of Caenorhabditis elegans: infected with Aeromonas hydrophila.
Bogaerts A, Temmerman L, Boerjan B, Husson SJ, Schoofs L, Verleyen P. June 01, 2010 Copyright 2010 Elsevier Ltd. All rights reserved.
View AbstractA differential proteomics study of Caenorhabditis elegans: infected with Aeromonas hydrophila.
Research Group of Functional Genomics and Proteomics, K.U. Leuven, Naamsestraat 59, 3000 Leuven, Belgium. annelies.bogaerts@bio.kuleuven.be
The fatty acid synthase fasn-1 acts upstream of WNK and Ste20/GCK-VI kinases to modulate anitmicrobial peptide expression in C. elegans epidermis
Kwang-Zin Lee¹,³, Marina Kniazeva 4, Min Han4, Nathalie Pujol¹,³, and Jonathan J. Ewbank¹,³ May 31, 2010 Landes Bioscience, Virulence 1:3, 113-122; May/June 2010
View AbstractThe fatty acid synthase fasn-1 acts upstream of WNK and Ste20/GCK-VI kinases to modulate anitmicrobial peptide expression in C. elegans epidermis
1) Centre d’Immunologie de Marseille-Luminy; Université de la Méditerranée; Marseille, France; 2) INSERM; U631; Marseille, France; 3) CNRS; UMR6102; Marseille, France; 4)Howard Hughes Medical Institute and Dept of MCDB; University of Colorado at Boulder; Colorado, USA
High-throughput screening and small animal models, where are we?
Giacomotto J, Ségalat L. May 01, 2010 Br J Pharmacol. 2010 May;160(2):204-16. Université Claude Bernard Lyon, Villeurbanne, France. giacomottojean@gmail.com
View AbstractHigh-throughput screening and small animal models, where are we?
Current high-throughput screening methods for drug discovery rely on the existence of targets. Moreover, most of the hits generated during screenings turn out to be invalid after further testing in animal models. To by-pass these limitations, efforts are now being made to screen chemical libraries on whole animals. One of the most commonly used animal model in biology is the murine model Mus musculus. However, its cost limit its use in large-scale therapeutic screening. In contrast, the nematode Caenorhabditis elegans, the fruit fly Drosophila melanogaster, and the fish Danio rerio are gaining momentum as screening tools. These organisms combine genetic amenability, low cost and culture conditions that are compatible with large-scale screens. Their main advantage is to allow high-throughput screening in a whole-animal context. Moreover, their use is not dependent on the prior identification of a target and permits the selection of compounds with an improved safety profile. This review surveys the versatility of these animal models for drug discovery and discuss the options available at this day.
A Conserved PMK-1/p38 MAPK Is Required in Caenorhabditis elegans: Tissue-specific Immune Response to Yersinia pestis Infection*
Devin D. Bolz, Jennifer L. Tenor, and Alejandro Aballay¹ February 04, 2010 Received for publication, December 3, 2009, and in revised form, January 22, 2010 Published, JBC Papers in Press, February 4, 2010, DOI 10.1074/jbc.M109.091629 1) From the Department of Molecular Genetics and Microbiology, Duke University Medical Center, Durham, North Carolina 27710
A Conserved PMK-1/p38 MAPK Is Required in Caenorhabditis elegans: Tissue-specific Immune Response to Yersinia pestis Infection*
LIN-28 and the poly(U) polymerase PUP-2 regulate let-7 microRNA processing in Caenorhabditis elegans .
Lehrbach NJ, Armisen J, Lightfoot HL, Murfitt KJ, Bugaut A, Balasubramanian S, Miska EA. October 16, 2009 Nat Struct Mol Biol. 2009 Oct;16(10):1016-20. Epub 2009 Aug 27.
View AbstractLIN-28 and the poly(U) polymerase PUP-2 regulate let-7 microRNA processing in Caenorhabditis elegans .
Wellcome Trust Cancer Research UK Gurdon Institute, University of Cambridge, The Henry Wellcome Building of Cancer and Developmental Biology, Cambridge, UK.
Identification of Antifungal Compounds Active against Candida albicans Using an Improved High-Throughput Caenorhabditis elegans Assay
Ikechukwu Okoli1, Jeffrey J. Coleman1, Emmanouil Tempakakis1, W. Frank An2, Edward Holson2, Florence Wagner2, Annie L. Conery3, Jonah Larkins-Ford3, Gang Wu3, Andy Stern2, Frederick M. Ausubel3, Eleftherios Mylonakis1* September 14, 2009 PLoS ONE 4(9): e7025. doi:10.1371/journal.pone.0007025
View AbstractIdentification of Antifungal Compounds Active against Candida albicans Using an Improved High-Throughput Caenorhabditis elegans Assay
1 Division of Infectious Diseases, Massachusetts General Hospital, Boston, Massachusetts, United States of America, 2 Broad Institute of Massachusetts Institute of Technology and Harvard, Cambridge, Massachusetts, United States of America,
Automated screening for mutants affecting dopaminergic-neuron specification in C. elegans
Doitsidou, M., Flames, N., Lee, A.C., Boyanov, A. & Hobert, O. Howard Hughes Medical Institute, Department of Biochemistry and Molecular Biophysics, Columbia University Medical Center, 701 W. 168th Street, New York, New York 10032, USA August 31, 2009 Nature Methods 5, 869 - 872 (2008). Published online: 31 August 2008 | doi:10.1038/nmeth.1250
View AbstractAutomated screening for mutants affecting dopaminergic-neuron specification in C. elegans
We describe an automated method to isolate mutant Caenorhabditis elegans that do not appropriately execute cellular differentiation programs. We used a fluorescence-activated sorting mechanism implemented in the COPAS Biosort machine to isolate mutants with subtle alterations in the cellular specificity of GFP expression. This methodology is considerably more efficient than comparable manual screens and enabled us to isolate mutants in which dopamine neurons do not differentiate appropriately.
High-Throughput Screen for Novel Antimicrobials using a Whole Animal Infection Model
Terence I. Moy†,‡,§, Annie L. Conery‡,§, Jonah Larkins-Ford‡,§, Gang Wu‡,§, Ralph Mazitschek¶, Gabriele Casadei_, Kim Lewis_, Anne E. Carpenter_, and Frederick M. Ausubel†,‡,§,* June 29, 2009 Published on June 29, 2009 on http://pubs.acs.org | doi: 10.1021/cb900084v
View AbstractHigh-Throughput Screen for Novel Antimicrobials using a Whole Animal Infection Model
†Department of Genetics, Harvard Medical School, Boston, Massachusetts 02115, ‡Department of Molecular Biology, §Center for Computational and Integrative Biology, and Center for Systems Biology, Massachusetts General Hospital,Boston, Massachusetts 02114, _Department of Biology, Northeastern University, Boston, Massachusetts 02115, and_Imaging Platform, Broad Institute of MIT and Harvard, Cambridge, Massachusetts 02142
Whole-Animal High-Throughput Screens: The C. elegans Model
Eyleen J. O’Rourke , Annie L. Conery , and Terence I. Moy June 01, 2009 P.A. Clemons et al. (eds.), Cell-Based Assays for High-Throughput Screening, Methods in Molecular Biology, Vol. 486 © Humana Press a part of Springer Science + Business Media, LLC 2009DOI: 10.1007/978-1-60327-545-3_5
Whole-Animal High-Throughput Screens: The C. elegans Model
Antifungal Innate Immunity in :C. elegans PKCdelta Links G Protein Signaling and a Conserved p38 MAPK Cascade.
Ziegler K, Kurz CL, Cypowyj S, Couillault C, Pophillat M, Pujol N, et al. April 23, 2009 Cell host & microbe. 2009 Apr;5(4):341-52.
Antifungal Innate Immunity in :C. elegans PKCdelta Links G Protein Signaling and a Conserved p38 MAPK Cascade.
A method to rank order water soluble compounds according to their toxicity using Caenorhabditis elegans: a Complex Object Parametric Analyzer and Sorter, and axenic liquid media.
Sprando RL, Olejnik N, Cinar HN, Ferguson M. April 01, 2009 Food Chem Toxicol. 2009 Apr;47(4):722-8. Epub 2009 Jan 8.
View AbstractA method to rank order water soluble compounds according to their toxicity using Caenorhabditis elegans: a Complex Object Parametric Analyzer and Sorter, and axenic liquid media.
Division of
Neuroimmune regulation of antimicrobial peptide expression by a noncanonical TGF-beta signaling pathway in Caenorhabditis elegans epidermis.
Zugasti O and Ewbank JJ. February 08, 2009 Nature Immunology. 2009 10:249-256.
Neuroimmune regulation of antimicrobial peptide expression by a noncanonical TGF-beta signaling pathway in Caenorhabditis elegans epidermis.
Negative regulation of Caenorhabditis elegans epidermal damage responses by death-associated protein kinase.
Tong A, Lynn G, Ngo V, Wong D, Moseley SL, Ewbank JJ, et al. February 01, 2009 Proceedings of the National Academy of Sciences of the United States of America. 2009 Feb;106(5):1457-61.
Negative regulation of Caenorhabditis elegans epidermal damage responses by death-associated protein kinase.
A C. elegans -based, whole animal, in vivo screen for the identification of antifungal compounds
Emmanouil Tampakakis, Ikechukwu Okoli & Eleftherios Mylonakis November 20, 2008 Published online 20 November 2008; doi:10.1038/nprot.2008.193
View AbstractA C. elegans -based, whole animal, in vivo screen for the identification of antifungal compounds
Division of Infectious Diseases, Massachusetts General Hospital, Gray-Jackson 504, 55 Fruit Street, Boston, Massachusetts 02114, USA.
Anti-Fungal Innate Immunity in C. elegans Is Enhanced by Evolutionary Diversification of Antimicrobial Peptides
Nathalie Pujol 1, 2, 3, #, Olivier Zugasti 1, 2, 3, #, Daniel Wong 1, 2, 3 #, Carole Couillault 1, 2, 3, C. Léopold Kurz 1, 2, 3, Hinrich Schulenburg 4, Jonathan J. Ewbank 1, 2, 3, * July 01, 2008 PLoS Pathogens 4(7): e1000105 doi:10.1371/journal.ppat.1000105.
View AbstractAnti-Fungal Innate Immunity in C. elegans Is Enhanced by Evolutionary Diversification of Antimicrobial Peptides
1 Centre d'Immunologie de Marseille-Luminy, Université de la Méditerranée, Case 906, Marseille, France 2 INSERM, U631, Marseille, France 3 CNRS, UMR6102, Marseille, France 4 Department of Animal Evolutionary Ecology, Zoological Institute, University of Tuebingen, Tuebingen, Germany
Distinct Innate Immune Responses to Infection and Wounding in the C. elegans Epidermis.
Pujol N, Cypowyj S, Ziegler K, Millet A, Astrain A, Goncharov A, Jin Y, Chisholm AD, Ewbank JJ. April 08, 2008 Curr Biol. 2008 Apr 8;18(7):481-489.
View AbstractDistinct Innate Immune Responses to Infection and Wounding in the C. elegans Epidermis.
Centre d'Immunologie de Marseille-Luminy, Université de la Méditerranée, Case 906, 13288 Marseille cedex 9, France.
Discovery of a cholecystokinin-gastrin-like signaling system in nematodes.
Janssen T, Meelkop E, Lindemans M, Verstraelen K, Husson SJ, Temmerman L, Nachman RJ, Schoofs L. March 13, 2008 Endocrinology. 2008 Jun;149(6):2826-39. Epub 2008 Mar 13.
Discovery of a cholecystokinin-gastrin-like signaling system in nematodes.
Effects of Genetic Mutations and Chemical Exposures on Caenorhabditis elegans Feeding: Evaluation of a Novel, High-Throughput Screening Assay
Windy A. Boyd1, Sandra J. McBride2, Jonathan H. Freedman1, 2 * December 05, 2007 PLoS ONE 2(12): e1259 doi:10.1371/journal.pone.0001259
View AbstractEffects of Genetic Mutations and Chemical Exposures on Caenorhabditis elegans Feeding: Evaluation of a Novel, High-Throughput Screening Assay
1 Laboratory of Molecular Toxicology, National Toxicology Program, National Institute of Environmental Health Sciences, National Institutes of Health, Research Triangle Park, North Carolina, United States of America 2 Nicholas School of the Environment and Earth Sciences, Duke University, Durham, North Carolina, United States of America
Abstract
Government agencies have defined a need to reduce, refine or replace current mammalian-based bioassays with testing methods that use alternative species. Invertebrate species, such as Caenorhabditis elegans, provide an attractive option because of their short life cycles, inexpensive maintenance, and high degree of evolutionary conservation with higher eukaryotes. The C. elegans pharynx is a favorable model for studying neuromuscular function, and the effects of chemicals on neuromuscular activity, i.e., feeding. Current feeding methodologies, however, are labor intensive and only semi-quantitative.
Here a high-throughput assay is described that uses flow cytometry to measure C. elegans feeding by determining the size and intestinal fluorescence of hundreds of nematodes after exposure to fluorescent-labeled microspheres. . . .
A global analysis of genetic interactions in Caenorhabditis elegans
Alexandra B Byrne*†, Matthew T Weirauch‡, Victoria Wong*, Martina Koeva‡, Scott J Dixon*†, Joshua M Stuart‡ and Peter J Roy* September 26, 2007 Journal of Biology, 2007, 6:8
View AbstractA global analysis of genetic interactions in Caenorhabditis elegans
Addresses: *Department of Medical Genetics and Microbiology, The Terrence Donnelly Centre for Cellular and Biomolecular Research, 160 College St, University of Toronto, Toronto, ON, M5S 3E1, Canada. †Collaborative Program in Developmental Biology, University of Toronto, Toronto, ON, M5S 3E1, Canada. ‡Department of Biomolecular Engineering, 1156 High Street, Mail Stop SOE2, University of California, Santa Cruz, CA 95064, USA.
Correspondence: Peter J Roy. Email: peter.roy@utoronto.ca; Joshua M Stuart. Email: jstuart@soe.ucsc.edu
16th International C. elegans Conference 2007 June 27 - 30
June 27, 2007
View Abstract16th International C. elegans Conference 2007 June 27 - 30
Click on the titles of the following posters to view an abstract:
Genome-scale analysis of in vivo spatiotemporal promoter activity in C. elegans.
Denis Dupuy, Nicolas Bertin, César Hidalgo, Kavitha Venkatesan, Domena Tu, David Lee, Nenad Svrzikapa, Anne-Ruxandra Carvunis, Rock Pulak, Ian Hope, John Reece-Hoyes, Rebecca Hunt-Newbury, Ryan Viveiros, William Mohler, Murat Tasan, Frederick Roth, Donald Moerman, Albert-László Barabási, David Baillie, Marc Vidal.
Genetic dissection of the transcriptional response to wounding and fungal infection.
Nathalie Pujol, C. Leopold Kurz, Sophie Cypowyj, Daniel Wong, Andrew Chisholm, Jonathan Ewbank.
A high throughput screen for novel anti-infective compounds.
Terence I. Moy, Annie L. Conery, Anne E. Carpenter, Anthony R. Ball, Kim Lewis, Frederick M. Ausubel.
Characterization of the role of peni( fr8) in innate immunity against fungal infection.
Kwang-Zin Lee, Nathalie Pujol, Andrew Chisholm, Jonathan Ewbank.
Automated drug screening and chemical genetics in C. elegans models of rare diseases.
Jean Giacomotto, Maité Carre-Pierrat, Laurent Segalat.
Isolation and characterization of C. elegans mutants deficient in PMK-1-dependent immunity.
Robert Shivers, Tristan Kooistra, Bethany Redding, Dennis H. Kim.
A Sodium: Neurotransmitter symporter Family protein required for the induction of antimicrobial peptides in C. elegans.
Katja Ziegler, Jonathan Ewbank, Nathalie Pujol.
High-throughput chemical screening using C. elegans growth and development.
Windy A. Boyd, Sandra J. McBride, Marjolein V. Smith, Grace E. Kissling, Julie R. Rice, Daniel W. Snyder, Christopher J. Portier, Jonathan H. Freedman.
Using a C. elegans feeding response assay in high-throughput chemical and genetic screening.
Windy A. Boyd, Sandra J. McBride, Jonathan H. Freedman.
Genetic dissection of Spinal Muscular Atrophy in Drosophila and C. elegans.
Jevede D. Harris, Tom Barsby, Amy K. Walker, Anne C. Hart. Gelsomino, Paolo Bazzicalupo.
Large scale genetic screens for cell fate mutants using worm sorter technology.
Vincent Bertrand, Nuria Flames, Maria Doitsidou, Richard Poole, Janine Recio, Oliver Hobert.
Semi-automated genetic screen for temperature sensitive mutations that abolish the early embryonic expression of the hox gene ceh-13.
Stephan Knierer, Adrian Streit.
The C. elegans dysferlin homolog fer-1 is expressed in muscle.
Todd Lamitina, Olga Lozynska, Tejvir Khurana.
Toward the development of a database for the storage and integration of COPAS™ BioSorter™ data.
Lisa R. Matthews, Philippe Vaglio, Jonathan Ewbank.
A French functional genomics platform.
Yohann Duverger, Sarah Scaglione, Daniel Wong, Jérôme Reboul, Jonathan Ewbank.
A semi-automated high-throughput approach to the generation of transposon insertion mutants.
Yohann Duverger, Jérôme Belougne, Sarah Scaglione, Dominique Brandli, Christophe Beclin, Jonathan Ewbank.
A green light to expression in time and space.
Mango SE. June 25, 2007 Nat Biotechnol. 2007 Jun;25(6):645-6. No abstract available.
A green light to expression in time and space.
Genome-scale analysis of in vivo spatiotemporal promoter activity in Caenorhabditis elegans.
Denis Dupuy1,10, Nicolas Bertin1,2,10, César A Hidalgo1,3, 10, Kavitha Venkatesan1, Domena Tu4, David Lee4, Jennifer Rosenberg1, Nenad Svrzikapa1, Aurélie Blanc1, Alain Carnec1, Anne-Ruxandra Carvunis1, Rock Pulak5, Jane Shingles6, John Reece-Hoyes6, Rebecca Hunt-Newbury7, Ryan Viveiros7, William A Mohler8, Murat Tasan9, Frederick P Roth9, Christian Le Peuch2, Ian A Hope6, Robert Johnsen4, Donald G Moerman7, Albert-László Barabási1,3, David Baillie4 & Marc Vidal1 May 07, 2007 Nature Biotechnology 25, 663 - 668 (2007) 1) Center for Cancer Systems Biology (CCSB), and Department of Cancer Biology, Dana-Farber Cancer Institute and Department of Genetics, Harvard Medical School, 44 Binney Street, Boston, Massachusetts 02115, USA. 2) Centre de Recherche en Biochimie Macromole´culaire, Centre National de la Recherche Scientifique FRE 2593, 1919 Route de Mende, 34293 Montpellier Cedex 5, France. 3) Center for Complex Network Research, Department of Physics, University of Notre Dame, 225 Nieuwland Science Hall, Notre Dame, Indiana 46556, USA. 4) Department of Molecular Biology and Biochemistry, Simon Fraser University, 8888 University Drive, Burnaby, British Columbia V5A 1S6, Canada. 5) Union Biometrica, 84 October Hill Road, Holliston, Massachusetts 01746, USA. 6) Institute of Integrative and Comparative Biology, University of Leeds, Clarendon Way, Leeds LS2 9JT, West Yorkshire, UK. 7) Department of Zoology, The University of British Columbia, 6270 University Boulevard, Vancouver, British Columbia V6T 1Z4, Canada. 8) Department of Genetics and Developmental Biology and Center for Cell Analysis and Modeling, University of Connecticut Health Center, 263 Farmington Avenue, Farmington, Connecticut 06030, USA. 9) Center for Cancer Systems Biology (CCSB), Dana-Farber Cancer Institute, and Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, Massachusetts 02115, USA. 10) These authors contributed equally to this work. Correspondence should be addressed to M.V. (marc_vidal@dfci.harvard.edu), D.B. (baillie@sfu.ca) or A.-L.B. (alb@nd.edu).
View AbstractGenome-scale analysis of in vivo spatiotemporal promoter activity in Caenorhabditis elegans.
Differential regulation of gene expression is essential for cell fate specification in metazoans. Characterizing the transcriptional activity of gene promoters, in time and in space, is therefore a critical step toward understanding complex biological systems. Here we present an in vivo spatiotemporal analysis for approximately 900 predicted C. elegans promoters (approximately 5% of the predicted protein-coding genes), each driving the expression of green fluorescent protein (GFP). Using a flow-cytometer adapted for nematode profiling, we generated 'chronograms', two-dimensional representations of fluorescence intensity along the body axis and throughout development from early larvae to adults. Automated comparison and clustering of the obtained in vivo expression patterns show that genes coexpressed in space and time tend to belong to common functional categories. Moreover, integration of this data set with C. elegans protein-protein interactome data sets enables prediction of anatomical and temporal interaction territories between protein partners.
A semi-automated high-throughput approach to the generation of transposon insertion mutants in the nematode Caenorhabditis elegans
Yohann Duverger1,2,3, Jérôme Belougne4, Sarah Scaglione1,2,3, Dominique Brandli4, Christophe Beclin4 and Jonathan J. Ewbank 1,2,3* November 03, 2006 Nucleic Acids Research, 2006, Vol. 00, No. 00 e1–8 1) Centre d’Immunologie de Marseille-Luminy, Université de la Méditerranée, Case 906, 13288 Marseille cedex 9, France, 2) INSERM, U631, 13288 Marseille, France, 3CNRS, UMR6102, 13288 Marseille, France and 4CNRS, Institut de Biologie du Développement de Marseille-Luminy, Marseille, France. Received September 5, 2006; Revised October 18, 2006; Accepted November 3, 2006.
View AbstractA semi-automated high-throughput approach to the generation of transposon insertion mutants in the nematode Caenorhabditis elegans
The generation of a large collection of defined transposon insertion mutants is of general interest to the Caenorhabditis elegans research community and has been supported by the European Union. We describe here a semi-automated high-throughput method for mutant production and screening, using the heterologous transposon Mos1 . The procedure allows routine culture of several thousand independent nematode strains in parallel for multiple generations before stereotyped molecular analyses. Using this method, we have already generated >17 500 individual strains carrying Mos1 insertions. It could be easily adapted to forward and reverse genetic screens and may influence researchers faced with making a choice of model organism.
Transgenic alternative-splicing reporters reveal tissue-specific expression profiles and regulation mechanisms in vivo
Hidehito Kuroyanagi1,2, Tetsuo Kobayashi3,4, Shohei Mitani3,4, & Masatoshi Hagiwara1,2 November 01, 2006 Nature Methods 3, 909 - 915 (01 Nov 2006) Article
View AbstractTransgenic alternative-splicing reporters reveal tissue-specific expression profiles and regulation mechanisms in vivo
1School of Biomedical Science and 2Medical Research Institute, Tokyo Medical and Dental University, Yushima, Bunkyo-ku, Tokyo 113-8510, Japan. 3Department of Physiology, Tokyo Women’s Medical University School of Medicine, Kawada-cho, Shinjuku-ku, Tokyo 162-8666, Japan. 4CREST, JST, Hon-cho, Kawaguchi, Saitama 332-0012, Japan.
A small-molecule screen in C. elegans yields a new calcium channel antagonist.
Kwok TC, Ricker N, Fraser R, Chan AW, Burns, Stanley EF, McCourt P, Cutler SR, Roy PJ May 04, 2006 Nature. 2006 May 4;441(7089):91-5.
View AbstractA small-molecule screen in C. elegans yields a new calcium channel antagonist.
Department of Medical Genetics and Microbiology, and The Terrence Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, 160 College Street, Toronto, Ontario M5S 3E1, Canada.
Genome-wide RNAi screening identifies protein damage as a regulator of osmoprotective gene expression.
Lamitina T, Huang CG, Strange K April 12, 2006 Proc Natl Acad Sci U S A.
View AbstractGenome-wide RNAi screening identifies protein damage as a regulator of osmoprotective gene expression.
Departments of Anesthesiology and Pharmacology, Vanderbilt University, T4208 Medical Center North, 1161 21st Avenue South, Nashville, TN 37232.
The detection, stabilization, and repair of stress-induced damage are essential requirements for cellular life. All cells respond to osmotic stress-induced water loss with increased expression of genes that mediate accumulation of organic osmolytes, solutes that function as chemical chaperones and restore osmotic homeostasis. The signals and signaling mechanisms that regulate osmoprotective gene expression in animal cells are poorly understood. Here, we show that gpdh-1 and gpdh-2, genes that mediate the accumulation of the organic osmolyte glycerol, are essential for survival of the nematode Caenorhabditis elegans during osmotic stress. Expression of GFP driven by the gpdh-1 promoter (Pgpdh-1::GFP) is detected only during hypertonic stress but is not induced by other stressors. Using Pgpdh-1::GFP expression as a phenotype, we screened approximately 16,000 genes by RNAi feeding and identified 122 that cause constitutive activation of gpdh-1 expression and glycerol accumulation. Many of these genes function to regulate protein translation and cotranslational protein folding and to target and degrade denatured proteins, suggesting that the accumulation of misfolded proteins functions as a signal to activate osmoprotective gene expression and organic osmolyte accumulation in animal cells. Consistent with this hypothesis, 73% of these protein-homeostasis genes have been shown to slow age-dependent protein aggregation in C. elegans. Because diverse environmental stressors and numerous disease states result in protein misfolding, mechanisms must exist that discriminate between osmotically induced and other forms of stress-induced protein damage. Our findings provide a foundation for understanding how these damage-selectivity mechanisms function.
PMID: 16880390 [PubMed - as supplied by publisher]
A stress-sensitive reporter predicts longevity in isogenic populations of Caenorhabditis elegans
Shane L Rea1,4, Deqing Wu1,4, James R Cypser1, James W Vaupel2 & Thomas E Johnson1,3 July 24, 2005 Nature Genetics Vol. 37, pgs. 894 - 898 (2005)
View AbstractA stress-sensitive reporter predicts longevity in isogenic populations of Caenorhabditis elegans
1) Institute for Behavioral Genetics, University of Colorado at Boulder, Box 447, Boulder, Colorado 80309, USA. 2) Max Planck Institute for Demographic Research, Konrad-Zuse-Strasse 1, D-18057, Rostock, Germany. 3) Department of Integrative Biology, University of Colorado at Boulder, Box 447, Boulder, Colorado 80309, USA. 4) These authors contributed equally to this work. Published online: 24 July 2005.
A non-biased, in vivo genetic screen for genes that protect against necrosis. (Poster 758A)
15th International C. elegans Meeting 2005, June 25 - 29
Wenying Zhang, Monica Driscoll
June 25, 2005
A non-biased, in vivo genetic screen for genes that protect against necrosis. (Poster 758A)
Dept Mol Biol & Biochem, Rutgers Univ, Piscataway, NJ.
Multi-parameter axial profiling of transgenic C. elegans expressing fluorescent proteins from various cell-specific, tissue specific and developmentally regulated promoters. (Poster 1172A)
15th International C. elegans Meeting 2005, June 25 - 29
Bo Wang1, Julia Thompson1, Yanping Zhang2, Michael Herman2, Mariya Lomakina1, Bruce Holcombe1, Rock Pulak1
June 25, 2005
Multi-parameter axial profiling of transgenic C. elegans expressing fluorescent proteins from various cell-specific, tissue specific and developmentally regulated promoters. (Poster 1172A)
1) Union Biometrica, Holliston, MA; 2) Division of Biology, Kansas State University, Manhattan, Kansas.
A French functional genomics platform. (Poster 1294C)
15th International C. elegans Meeting 2005, June 25 - 29
Aurélie Blanc1, Yohann Duverger1 Jérôme Reboul2, Daniel Wong1, Jonathan Ewbank1
June 25, 2005
A French functional genomics platform. (Poster 1294C)
1) Centre d’Immunologie de Marseille-Luminy, INSERM/CNRS/Université de la Méditerranée, Marseille, France; 2) INSERM UMR 599, Institut Paoli Calmette, Marseille, France.
The C. elegans Localizome Project: a beginning. (Plenary Session 212)
15th International C. elegans Meeting 2005, June 25 - 29
Denis Dupuy1, Nicolas Bertin1, Qianru Li1, Alain Carnec1, Jennifer Rosenberg1, Rock Pulak2, Jane Shingles3, John Reece-Hoyes3, Domena Tu4, David Lee4, Rebecca Newbury5, Ryan Viveiros5, William A. Mohler6, Ian A. Hope3, Don Moerman5, Robert Johnsen4, David Baillie4, Marc Vidal1
June 25, 2005
The C. elegans Localizome Project: a beginning. (Plenary Session 212)
1) Center for Cancer Systems Biology (CCSB)/Dana-Farber Cancer Institute/Harvard Medical school, Boston, MA; 2) Union Biometrica, Holliston, MA; 3) University of Leeds, Leeds, UK; 4) Department Molecular Biology and Biochemistry, Simon Fraser University, Vancouver, BC; 5) Department of Zoology, The University of British Columbia, BC; 6) Dept. of Genetics and Developmental Biology University of Connecticut Health Center, Farmington, CT.
Identification of new innate immunity genes. (Parallel Session 294)
15th International C. elegans Meeting 2005, June 25 - 29
Anne Millet, Nathalie Pujol, Jonathan Ewbank.
June 25, 2005
Identification of new innate immunity genes. (Parallel Session 294)
Centre d’Immunologie de Marseille-Luminy, INSERM/CNRS/Univ. de la Méditerranée, Marseille, France.
Stochastic Effects Make a Big Difference in How Long You Will Live (If You Are a Worm). (Plenary session 311)
15th International C. elegans Meeting 2005, June 25 - 29
Thomas E. Johnson, Shane Rea, Deqing Wu, Jim Cypser
June 25, 2005
Stochastic Effects Make a Big Difference in How Long You Will Live (If You Are a Worm). (Plenary session 311)
Inst Behavioral Genetics, University of Colorado, Boulder, CO.
A novel method of quantifying C. elegans feeding. (Poster 408B)
15th International C. elegans Meeting 2005, June 25 - 29
Windy A. Boyd, Sandra J. McBride, Jonathan H. Freedman
June 25, 2005
A novel method of quantifying C. elegans feeding. (Poster 408B)
Nicholas School of the Environment and Earth Sciences, Duke University, Durham, NC.
Development of medium-throughput toxicity screens using C. elegans. (Poster 409C)
15th International C. elegans Meeting 2005, June 25 - 29
Windy A. Boyd, Sandra J. McBride, Jonathan H. Freedman
June 25, 2005
Development of medium-throughput toxicity screens using C. elegans. (Poster 409C)
Nicholas School of the Environment and Earth Sciences, Duke University, Durham, NC.
Studies of Interactions between PAR Proteins. (Poster 1105C)
15th International C. elegans Meeting 2005, June 25 - 29
Jin Li1, Tak-Jun Hung2, Donato Aceto1, Shinya Aono3, Melissa Beers1, Kenneth J Kemphues1
June 25, 2005
Studies of Interactions between PAR Proteins. (Poster 1105C)
1) Dept Molecular Biol & Genetics, Cornell Univ, Ithaca, NY; 2) Union Biometrica, Holliston, MA; 3) Department of Morphoregulaltion, Institute for Frontier Medical Sciences, Kyoto Univ, Kyoto, Japan.
Genetic analysis of osmotically regulated gene expression in C. elegans
Experimental Biology 2005, April 2 - 6, 2005
S. Todd Lamitina, Kevin Strange
April 02, 2005
Genetic analysis of osmotically regulated gene expression in C. elegans
Department of Anesthesiology, Vanderbilt University, 1161 21st Avenue South, MCN T4208, Nashville, TN, 37232.
XNP-1/ATR-X acts with RB, HP1 and the NuRD complex during larval development in C. elegans
H. Carlos Cardosoa, Carole Couillaultb, Cecile Mignon-Ravixa, Anne Milletb, Jonathan J. Ewbankb, Michel Fonte´sa, Nathalie Pujolb,* February 01, 2005 Developmental Biology, Volume 278, Issue 1, Pages 49- 59
View AbstractXNP-1/ATR-X acts with RB, HP1 and the NuRD complex during larval development in C. elegans
aINSERM U491, Faculte´ de Me´decine la Timone, 27, Bd Jean Moulin, 13385 Marseille Cedex 5, France bCentre d'Immunologie de Marseille Luminy, INSERM/CNRS/Universite´ de la Me´diterrane´e, Campus Luminy Case 906, 13288 Marseille Cedex 9, France.
Diversity and specificity in the interaction between Caenorhabditis elegans and the pathogen Serratia marcescens
Hinrich Schulenburg*1 and Jonathan J Ewbank2 November 22, 2004 BMC Evolutionary Biology, 4:49 1) Department of Evolutionary Biology, Institute for Animal Evolution and Ecology, Westphalian Wilhelms-University, Hüfferstr. 1, 48149 Münster, Germany and 2) Centre d'Immunologie de Marseille Luminy, INSERM/CNRS/Université de la Méditerranée, Case 906, 13288 Marseille Cedex 9, France. Published: 22 November 2004. doi:10.1186/1471-2148-4-49.
View AbstractDiversity and specificity in the interaction between Caenorhabditis elegans and the pathogen Serratia marcescens
Co-evolutionary arms races between parasites and hosts are considered to be of immense importance in the evolution of living organisms, potentially leading to highly dynamic life-history changes. The outcome of such arms races is in many cases thought to be determined by frequency dependent selection, which relies on genetic variation in host susceptibility and parasite virulence, and also genotype-specific interactions between host and parasite. Empirical evidence for these two prerequisites is scarce, however, especially for invertebrate hosts. We addressed this topic by analysing the interaction between natural isolates of the soil nematode Caenorhabditis elegans and the pathogenic soil bacterium Serratia marcescens.
High-throughput sublethal toxicity tests using the nematode Caenorhabditis elegans.
SETAC (Soc. of Environmental Toxicology & Chemistry) 2004, Nov 14-18, 2004
Boyd, Windy1, McBride, Sandra1, Rice, Julie1, Freedman, Jonathan1
November 14, 2004
High-throughput sublethal toxicity tests using the nematode Caenorhabditis elegans.
1) Duke University, Durham, NC, USA
Automated assays to study longevity in C. elegans
Maren Hertweck(1), and Ralf Baumeister October 20, 2004 Mechanisms of Ageing and Development
View AbstractAutomated assays to study longevity in C. elegans
Maren Hertweck(1), and Ralf Baumeister, Bio3/Bioinformatics and Molecular Genetics, Albert-Ludwigs University of Freiburg, Schänzlestr. 1, D-79104 Freiburg, Germany.
An Unlikely Star of Science: Jonathan Freedman Looks to Microscopic Roundworms to Document the Effects of Toxic Chemicals.
Jonathan Freedman September 21, 2004 DukeEnvironment Magazine, Fall 2004
An Unlikely Star of Science: Jonathan Freedman Looks to Microscopic Roundworms to Document the Effects of Toxic Chemicals.
Long-term effects of sterol depletion in C. elegans : Sterol content of synchronized wild-type and mutant populations.
Mark Merris*, Jessica Kraeft*, G. S. Tint†.§ and John Lenard1* August 16, 2004 Journal of Lipid Research, Volume 45 (2004) *Department of Physiology and Biophysics, University of Medicine and Dentistry of New Jersey, Robert Wood Johnson Medical School, 675 Hoes Lane, Piscataway, NJ 08854; †Department of Veterans Affairs New Jersey Health Care System, 385 Tremont Avenue, East Orange, NJ 07018; §Department of Medicine, University of Medicine and Dentistry of New Jersey, New Jersey Medical School, Newark, NJ 07101
View AbstractLong-term effects of sterol depletion in C. elegans : Sterol content of synchronized wild-type and mutant populations.
Three major long-term effects of sterol deprivation in Caenorhabditis elegans are described. 1) The life expectancy of sterol-deprived wild-type animals is decreased by more than 40%. Similar decreases are found in animals carrying mutations in the daf-9, daf-12, daf-16, and clk-1 genes, suggesting that previously described aging pathways involving these genes are not involved in the life-extending effects of sterols. 2) There is a premature loss of motility, measured by response to mild touch. 3) There is a rapid postreproductive onset of sarcopenia (muscle wasting) as measured by total body fluorescence in a myo3::GFP-expressing strain. We also report that five sterols (the desmethylsterols cholesterol, 7-dehydrocholesterol, and lathosterol and the 4α-methyl sterols lophenol and 4α-methyl-cholesta-Δ8(14)-en-3β-ol) are found in significant amounts at all stages of development and aging in cholesterol-fed animals. Supplying any one of these as the sole sterol confers similar protection from the long-term effects of sterol deprivation.
These findings suggest that sterols are required continuously throughout the animal's life.
Chapter 4: Practical applications of RNAi in C. elegans, "RNA interference: From Basic Biology to Drug Development,"
Stephens, K.E., O. Zugasti, N.J. O'Neil, P.E. Kuwabara June 21, 2004 Cambridge University Press
View AbstractChapter 4: Practical applications of RNAi in C. elegans, "RNA interference: From Basic Biology to Drug Development,"
Discusses the use of the COPAS BIOSORT to score RNAi phenotypes complete with illustrations and pictures. SUMMER, 2004
TLR-independent control of innate immunity in Caenorhabditis elegans by the TIR domain adaptor protein TIR-1, an ortholog of human SARM
Carole Couillault1, Nathalie Pujol1, Jérôme Reboul2, Laurence Sabatier3, Jean-François Guichou4, Yuji Kohara5 & Jonathan J Ewbank1 March 28, 2004 Nature Immunology 5, 488 - 494 (2004) 1) Centre d'Immunologie de Marseille-Luminy, Institut National de la Santé et de la Recherche Médicale/Centre National de la Recherche Scientifique/Université de la Méditerranée, Case 906, 13288 Marseille Cedex 9, France. 2) Institut National de la Santé et de la Recherche Médicale U119, Institut Paoli Calmette, 13009 Marseille, France. 3) Institut de Biologie Moléculaire et Cellulaire, UPR 9022, Centre National de la Recherche Scientifique, 15 rue Descartes, 67084 Strasbourg Cedex, France. 4) Centre de Biochimie Structurale, Centre National de la Recherche Scientifique UMR 5048, Institut National de la Santé et de la Recherche Médicale UMR 554, Université de Montpellier 1, 29, rue de Navacelles, 34090 Montpellier Cedex, France. 5) National Institute of Genetics, Mishima 411, Japan.
View AbstractTLR-independent control of innate immunity in Caenorhabditis elegans by the TIR domain adaptor protein TIR-1, an ortholog of human SARM
Both plants and animals respond to infection by synthesizing compounds that directly inhibit or kill invading pathogens. We report here the identification of infection-inducible antimicrobial peptides in Caenorhabditis elegans. Expression of two of these peptides, NLP-29 and NLP-31, was differentially regulated by fungal and bacterial infection and was controlled in part by tir-1, which encodes an ortholog of SARM, a Toll–interleukin 1 receptor (TIR) domain protein. Inactivation of tir-1 by RNA interference caused increased susceptibility to infection. We identify protein partners for TIR-1 and show that the small GTPase Rab1 and the f subunit of ATP synthase participate specifically in the control of antimicrobial peptide gene expression. As the activity of tir-1 was independent of the single nematode Toll-like receptor, TIR-1 may represent a component of a previously uncharacterized, but conserved, innate immune signaling pathway.
Model Organisms in Drug Discovery (2003): Chapter 3: Caenorhabditis elegans Functional Genomics in Drug Discovery: Expanding Paradigms.
Titus Kaletta, Lynn Butler, Thierry Bogaert December 31, 2003 John Wiley & Sons, Ltd
View AbstractModel Organisms in Drug Discovery (2003): Chapter 3: Caenorhabditis elegans Functional Genomics in Drug Discovery: Expanding Paradigms.
Devgen NV, Technologiepark 9, B-9052 Ghent-Zwijnaarde, Belgium
Book Editor(s): Pamela M. Carroll, Kevin Fitzgerald Copyright © 2003 John Wiley & Sons, Ltd
Published Online: 05 Jan 2005
Print ISBN: 0470848936; Online ISBN: 0470014067
A worm's life [Med Sci Paris]
Pujol, N. and Ewbank, J.J. December 28, 2003 Med Sci (Paris) 19, 1209-17 (2003)
View AbstractA worm's life [Med Sci Paris]
Centre d'Immunologie de Marseille Luminy, Cnrs UMR 6102, Inserm U. 136, Universite de la Mediterranee, Case 906, 13288 Marseille Cedex 09, France.
Use of the COPAS Biosort in a hi-throughput screen for genes that regulate lifespan.
Lunch Seminar at Drug Discovery Technology Conference, August 11-13, 2003
Douglas Crawford and Cynthia Kenyon
August 11, 2003
Use of the COPAS Biosort in a hi-throughput screen for genes that regulate lifespan.
Department of Biochemistry and Biophysics, University of California, San Francisco.
Imaging strategies and data types for genome-wide comparison and pattern-matching of GFP expression patterns: GLO-Worm, Program #41.
The 14th Biennial C. elegans Conference, June 29-July 3, 2003
William A. Mohler
June 29, 2003
Imaging strategies and data types for genome-wide comparison and pattern-matching of GFP expression patterns: GLO-Worm, Program #41.
Genetics and Dev. Bio., UConn Health Center, Farmington USA.
Isolation of Long-Lived Individuals Within an Isogenic Population, Program # 145.
The 14th Biennial C. elegans Conference, June 29-July 3, 2003
Shane L. Rea, Deqing Wu, Abigail Smith, Thomas E. Johnson
June 29, 2003
Isolation of Long-Lived Individuals Within an Isogenic Population, Program # 145.
Institute for Behavioral Genetics, University of Colorado at Boulder, Boulder, CO USA.
Anti-fungal innate immune defence in C. elegans, Program #287.
The 14th Biennial C. elegans Conference, June 29-July 3, 2003
Carole Couillault1, Nathalie Pujol1, Laurence Sabatier2, Jean-Francois Guichou3, Yuji Kohara4, Jonathan Ewbank1
June 29, 2003
Anti-fungal innate immune defence in C. elegans, Program #287.
1) CIML, Marseille, France; 2) IBMC, Strasbourg, France; 3) CBS, Montpellier, France; 4) NIG, Mishima, Japan.
GFP screens for regulators of motor neuron differentiation, Program #520A.
The 14th Biennial C. elegans Conference, June 29-July 3, 2003
Joseph D. Watson, David M. Miller
June 29, 2003
GFP screens for regulators of motor neuron differentiation, Program #520A.
Neuroscience Program Cell and Developmental Biology, Vanderbilt University, Nashville, TN USA.
Applications of the COPAS (Complex Object Parametric Analysis and Sorting) Biosort to functional genomic studies, Program #1111A.
The 14th Biennial C. elegans Conference, June 29-July 3, 2003
Judith S. Gordon, Nigel J. O'Neil, Patricia E. Kuwabara
June 29, 2003
Applications of the COPAS (Complex Object Parametric Analysis and Sorting) Biosort to functional genomic studies, Program #1111A.
The Wellcome Trust Sanger Institute, Cambridge, UK.
Mos1 mutagenesis and the Union Biometrica worm sorter: complementary tools for a genetic screen for worms that resist bacterial infection, Program #314B.
The 14th Biennial C. elegans Conference, June 29-July 3, 2003
Anne Millet, Jonathan Ewbank
June 29, 2003
Mos1 mutagenesis and the Union Biometrica worm sorter: complementary tools for a genetic screen for worms that resist bacterial infection, Program #314B.
CIML, Marseille, FRANCE.
A high throughput screening method to detect youthful nematodes, Program #356B.
The 14th Biennial C. elegans Conference, June 29-July 3, 2003
Peter J. Schmeissner, Suzhen Guo, Laura A. Herndon, Monica Driscoll
June 29, 2003
A high throughput screening method to detect youthful nematodes, Program #356B.
Molecular Biology and Biochem, Rutgers University, Piscataway, NJ USA.
Measurement and analysis of stress induced responses in transgenic Caenorhabditis elegans, Program #389B.
The 14th Biennial C. elegans Conference, June 29-July 3, 2003
Rock Pulak, Britta Moellers, Julia Thompson
June 29, 2003
Measurement and analysis of stress induced responses in transgenic Caenorhabditis elegans, Program #389B.
Union Biometrica, Holliston, MA USA.
Developing an automating worm-based screen for bacterial virulence factors using the Union Biometrica sorter, Program #312C.
The 14th Biennial C. elegans Conference, June 29-July 3, 2003
C. Lèopold Kurz, Aurèlie Blanc, Elizabeth Pradel, Jonathan Ewbank
June 29, 2003
Developing an automating worm-based screen for bacterial virulence factors using the Union Biometrica sorter, Program #312C.
CIML, Marseille, FRANCE.
Genetic analysis of IFT and ARPKD: Isolating osm-5 suppressors, Program #510C.
The 14th Biennial C. elegans Conference, June 29-July 3, 2003
Renee L. Engle1, Hongmin Qin2, Joel Rosenbaum2, Maureen M. Barr3
June 29, 2003
Genetic analysis of IFT and ARPKD: Isolating osm-5 suppressors, Program #510C.
1) Laboratory of Genetics, University of Wisconsin, Madison, WI USA; 2) Department of Molecular, Cellular, and Developmental Biology, Yale University, New Haven, CT USA; 3) School of Pharmacy, University of Wisconsin, Madison, WI, USA.
An Automationed High-Throughput Assay for Survival of the Nematode Caenorhabditis elegans
Matthew S. Gill, Anders Olsen, James N. Sampayo, and Gordon J. Lithgow May 23, 2003 Free Radical Biology & Medicine Vol. 35, No. 6, pp. 558-565
View AbstractAn Automationed High-Throughput Assay for Survival of the Nematode Caenorhabditis elegans
Buck Institute, Novato, CA (USA). PII: S0891-5849(03)00328-9. SEPTEMBER, 2003
Caenorhabditis elegans: an emerging genetic model for the study of innate immunity
C. Léopold Kurz and Jonathan J. Ewbank May 01, 2003 Nature Reviews Genetics 4, 380 -390 (2003) Centre d'Immunologie de Marseille Luminy, INSERM/CNRS/Université de la Méditerranée, Case 906, 13288 Marseille Cedex 9, France.
View AbstractCaenorhabditis elegans: an emerging genetic model for the study of innate immunity
Invaluable insights into how animals, humans included, defend themselves against infection have been provided by more than a decade of genetic studies that have used fruitflies. In the past few years, attention has also turned to another simple animal model, the nematode worm Caenorhabditis elegans. What exactly have we learned from the work in Drosophila? And will research with C. elegans teach us anything new about our response to pathogen attack?
Measurement and analysis of stress induced responses in transgenic Caenorhabditis elegans, #L340.
American Society of Cell Biology 42nd Annual Meeting, December 14-18, 2002
R. Pulak, J. Thompson, B. Moellers
December 14, 2002
Measurement and analysis of stress induced responses in transgenic Caenorhabditis elegans, #L340.
Life Sciences, Union Biometrica, Inc., Holliston, MA.
GFP screens for regulators of motor neuron differentiation, #242.
West Coast C. elegans Meeting, August 10 - 13, 2002
Joseph Watson, David M. Miller, III
August 10, 2002
GFP screens for regulators of motor neuron differentiation, #242.
Dept. of Cell and Developmental Biology, Vanderbilt University Med. Ctr., Nashville, TN
Check out my Profile! Isolation of chemotaxis defective mutants with altered str-1 expression levels using automated, high-sensitivity fluorescence Profiling, #12
West Coast C. elegans Meeting, August 10 - 13, 2002
Anthony A. Ferrante1, Britta Moellers1, Jennifer Kean1, Gregory O'Connor1, Vance Chang1, Bruce Holcombe1,
Peter Van Osta2, Steven Alam1
August 10, 2002
Check out my Profile! Isolation of chemotaxis defective mutants with altered str-1 expression levels using automated, high-sensitivity fluorescence Profiling, #12
1) Union Biometrica, Inc., 35 Medford St, Holliston, MA 01746, 2) Union Biometrica, GMBH, Cipalstraat 3, B-2440, Geel, Belgium
The application of scale space and the spatial color model in microscopy.
Microscience 2002, London, July 9-11, 2002
P. Van Osta, Union Biometrica N.V., European Scientific Operations; Additional authors: K. Ver Donck*, J.M. Geusebroek**, L. Bols*, J.Geysen*, B.M. ter; Haar Romeny***
July 09, 2002
The application of scale space and the spatial color model in microscopy.
* Union Biometrica N.V., European Scientific Operations, Geel, Belgium. ** ISIS, Faculty of Science, University of Amsterdam, Amsterdam, the Netherlands. *** TU Eindhoven, Faculty Biomedical Technology, Biomedical Imageprocessing, Den Dolech, Eindhoven, the Netherlands
The Multi-Mode Mosaic framework for automated microscopy and analysis.
Microscience 2002, London, July 9-11, 2002
P. Van Osta, Union Biometrica N.V., European Scientific Operations, Additional authors: K. Ver Donck*, J.M. Geusebroek**, L. Bols*, J.Geysen*
July 09, 2002
The Multi-Mode Mosaic framework for automated microscopy and analysis.
* Union Biometrica N.V., European Scientific Operations. ** ISIS, Faculty of Science, University of Amsterdam, Amsterdam, the Netherlands
Suppressors of gon-1, #626415
Midwest Worm Meeting, June 28-30, 2002
Dan Hesselson1, Judith Kimble2, 3
June 28, 2002
Suppressors of gon-1, #626415
1) Department of Genetics, University of Wisconsin-Madison, Madison, WI; 2) Department of Biochemistry, University of Wisconsin-Madison, Madison, WI; 3) Howard Hughes Medical Institute, University of Wisconsin-Madison, 433 Babcock Drive, Madison, WI
Isolation of chemotaxis defective mutants with altered str-1 expression levels using automated, high-sensitivity fluorescence profiling, #496373.
Midwest Worm Meeting, June 28-30, 2002
Anthony A. Ferrante, Britta Moellers, Jennifer Kean, Gregory O'Connor, Vance Chang, Bruce Holcombe, Steve Alam, Peter Van Osta
June 28, 2002
Isolation of chemotaxis defective mutants with altered str-1 expression levels using automated, high-sensitivity fluorescence profiling, #496373.
Union Biometrica, Inc., Holliston, MA.
Application of linear scale space and the spatial color model in microscopy
Joint Microscopy Meeting, Lille, France, June 24-28, 2002
P. Van Osta*, K. Ver Donck*, L. Bols*, J.Geysen*, J.M. Geusebroek**, B.M. ter Haar Romeny***
June 24, 2002
Application of linear scale space and the spatial color model in microscopy
* Union Biometrica N.V., European Scientific Operations, Cipalstraat 3, B-2440 Geel, Belgium, ** Intelligent Sensory Information Systems, Faculty of Science, UvA, Amsterdam, The Netherlands, *** BioMedische Technologie, Technische Universiteit Eindhoven, Eindhoven, The Netherlands.
Post-embryonic Developmental Expression Chronograms: a new functional genomics data type generated using a nematode fluorescence sorting system, #178.
2002 East Coast Worm Meeting, June 14-16, 2002
William A. Mohler1, Rock Pulak2, Anthony Ferrante2
June 14, 2002
Post-embryonic Developmental Expression Chronograms: a new functional genomics data type generated using a nematode fluorescence sorting system, #178.
1) University of Connecticut Health Center, Farmington CT, 2) Union Biometrica, Holliston MA
Check out my Profile! Isolation of mutants with altered str-1 expression levels using automated, high-sensitivity fluorescence profiling, #112.
2002 East Coast Worm Meeting, June 14-16, 2002
Anthony A. Ferrante, Britta Moellers, Vance Chang, Bruce Holcombe, Steve Alam
June 14, 2002
Check out my Profile! Isolation of mutants with altered str-1 expression levels using automated, high-sensitivity fluorescence profiling, #112.
Union Biometrica, Inc., Holliston, MA
Multi-parameter & Dual Color Fluorescence Analysis and Flow Sorting of C. elegans, #199.
2002 East Coast Worm Meeting, June 14-16, 2002
Rock Pulak, Jen Kean, Britta Moellers
June 14, 2002
Multi-parameter & Dual Color Fluorescence Analysis and Flow Sorting of C. elegans, #199.
Union Biometrica, Inc., Holliston, MA
Enhanced Analytical Performance of the C. elegans Flow Sorter COPAS BIOSORT: Automated Re-analysis of Populations in Multi-well Plates and Reading of Axially Distributed Positional Fluorescent Signals, #32.
European Worm Meeting, May 18-21, 2002
Johan Geysen*, Steve Alam, Anthony Ferrante, Peter Kalutkewitz, Peter Van Osta*, Susan Zusman
May 18, 2002
Enhanced Analytical Performance of the C. elegans Flow Sorter COPAS BIOSORT: Automated Re-analysis of Populations in Multi-well Plates and Reading of Axially Distributed Positional Fluorescent Signals, #32.
Union Biometrica Inc. & European Scientific Operations(*)
Enhanced One-step Nematode Recognition on micrographs of Living C. elegans Cultures in 384-well Plates using Linear Scale Space Mathematics.
European Worm Meeting, May 18-21, 2002
Peter Van Osta*, Kris Ver Donck*, Jan-Mark Geusebroek**, Luc Bols* and Johan Geysen*
May 18, 2002
Enhanced One-step Nematode Recognition on micrographs of Living C. elegans Cultures in 384-well Plates using Linear Scale Space Mathematics.
*Union Biometrica, European Scientific Operations, Geel, Belgium; **Intelligent Sensory Information Systems, UvA, Amsterdam, the Netherlands.
Multi-parametric & dual color fluorescent analysis and flow sorting of C. elegans.
European Worm Meeting, May 18-21, 2002
Rico Bongaarts*, Luc Bols*, Johan Geysen*, Anthony Ferrante**, Brian Dell'Orfano**, Susan Zusman**
May 18, 2002
Multi-parametric & dual color fluorescent analysis and flow sorting of C. elegans.
*Union Biometrica, European Scientific Operations, Geel, Belgium; **Union Biometrica, Holliston, MA, USA.
Fully Automated Instrumentation for Analysis in C elegans, #1089.
2001 International Worm Meeting, June 22-26, 2001
Rock Pulak, Peter Kalutkiewicz, Anthony Ferrante, Greg O'Connor, Jennifer Kean, Ralph Clover
June 22, 2001
Fully Automated Instrumentation for Analysis in C elegans, #1089.
Union Biometrica, Inc., Holliston, MA.
Application of the COPAS (Complex Object Parametric Analysis and Sorting) dispenser to functional genomic studies, #1096.
2001 International Worm Meeting, June 22-26, 2001
GL Bell, NJ O'Neil, A Coulson, PE Kuwabara
June 22, 2001
Application of the COPAS (Complex Object Parametric Analysis and Sorting) dispenser to functional genomic studies, #1096.
The Sanger Centre, Wellcome Trust Genome Campus, Hinxton, UK
Automated Sorting of C. elegans Muv Mutants According to Pseudovulva Number, #1097.
2001 International Worm Meeting, June 22-26, 2001
Anthony A. Ferrante, Peter Kalutkiewicz, Steve Alam, Russell Gershman, W. Peter Hansen
June 22, 2001
Automated Sorting of C. elegans Muv Mutants According to Pseudovulva Number, #1097.
Union Biometrica, Inc., Holliston, MA
Boy Is My Bursa Red: Automated Detection and Sorting of Fluorescent Stained C. elegans Males From a Mixed Population, #89.
2000 East Coast Worm Meeting, June 9-11, 2000
A Ferrante, L Thibodeau, G O'Connor, WP Hansen
June 09, 2000
Boy Is My Bursa Red: Automated Detection and Sorting of Fluorescent Stained C. elegans Males From a Mixed Population, #89.
Union Biometrica, Inc. (Holliston, MA).
Adapting a manual clonal screen to semi-automation, #858.
1999 International Worm Meeting, June 2 - 6, 1999
BT Tsung1, AA Ferrante2, WP Hansen2, PB Krauledat2, C Johnson3, CP Hunter1
June 02, 1999
Adapting a manual clonal screen to semi-automation, #858.
1) MCB, Harvard University, Cambridge, MA, 02138., 2) Union Biometrica, 19 Ward St., Holliston, MA 01746, 3) Axys, Nemapharm Group, South San Francisco, CA
Automated sorting and dispensing of C. elegans to wells of microtiter plates, #443.
1999 International Worm Meeting, June 2 - 6, 1999
CD Johnson1, R Clover1, B Reardon1, PB Krauledat2, AA Ferrante2, WP Hansen2
June 02, 1999
Automated sorting and dispensing of C. elegans to wells of microtiter plates, #443.
1) Axys Pharmaceuticals, NemaPharm Group, South San Francisco, CA, 2) Union Biometrica, Inc., Holliston, MA.
Commentary: Classical genetics goes high-tech
David S Fay doi:10.1038/nmeth1008-863