Genomes and Genes
Experts and Doctors on caenorhabditis elegans in Vancouver, British Columbia, Canada
Locale: Vancouver, British Columbia, Canada
Topic: caenorhabditis elegans
- Tarailo M, Kitagawa R, Rose A. Suppressors of spindle checkpoint defect (such) mutants identify new mdf-1/MAD1 interactors in Caenorhabditis elegans. Genetics. 2007;175:1665-79 pubmed..elegans. The such-1/APC5-like mutation, h1960, significantly delays anaphase onset both in germline and in early embryonic cells. ..
- Fjell C, Bosdet I, Schein J, Jones S, Marra M. Internet Contig Explorer (iCE)--a tool for visualizing clone fingerprint maps. Genome Res. 2003;13:1244-9 pubmed..We are also using iCE as part of the Rat Genome Sequencing Project to manage our provision of rat BAC clones for sequencing at the Human Genome Sequencing Center at the Baylor College of Medicine. ..
- Flibotte S, Edgley M, Chaudhry I, Taylor J, Neil S, Rogula A, et al. Whole-genome profiling of mutagenesis in Caenorhabditis elegans. Genetics. 2010;185:431-41 pubmed publisher..We also present evidence of genetic drift among laboratory wild-type strains derived from the Bristol N2 strain. We make several suggestions for best practice using massively parallel short read sequencing to ensure mutation detection. ..
- Warner A, Qadota H, Benian G, Vogl A, Moerman D. The Caenorhabditis elegans paxillin orthologue, PXL-1, is required for pharyngeal muscle contraction and for viability. Mol Biol Cell. 2011;22:2551-63 pubmed publisher..In pharyngeal muscle it is essential for contraction, whereas in body wall muscle it is dispensable for filament assembly, sarcomere stability, and ultimately movement. ..
- Ebrahimi C, Rankin C. Early patterned stimulation leads to changes in adult behavior and gene expression in C. elegans. Genes Brain Behav. 2007;6:517-28 pubmed
- Park D, Jones K, Lee H, Snutch T, Taubert S, Riddle D. Repression of a potassium channel by nuclear hormone receptor and TGF-? signaling modulates insulin signaling in Caenorhabditis elegans. PLoS Genet. 2012;8:e1002519 pubmed publisher..elegans. NHR-69 and DAF-8 dependent regulation of exp-2 and DAF-28 also provides a novel molecular mechanism that contributes to the previously recognized link between insulin and TGF-? signaling in C. elegans. ..
- Kwasnicka D, Krakowiak A, Thacker C, Brenner C, Vincent S. Coordinate expression of NADPH-dependent flavin reductase, Fre-1, and Hint-related 7meGMP-directed hydrolase, DCS-1. J Biol Chem. 2003;278:39051-8 pubmed
- Flibotte S, Moerman D. Experimental analysis of oligonucleotide microarray design criteria to detect deletions by comparative genomic hybridization. BMC Genomics. 2008;9:497 pubmed publisher..elegans and humans with NimbleGen's CGH technology. Our oligonucleotide design recommendations should be applicable for CGH analysis in most species. ..
- Jensen V, Simonsen K, Lee Y, Park D, Riddle D. RNAi screen of DAF-16/FOXO target genes in C. elegans links pathogenesis and dauer formation. PLoS ONE. 2010;5:e15902 pubmed publisher..We propose that dauer larva formation is a behavioral response to pathogens mediated by increased dauer pheromone production. ..
- Mathews E, Garcia E, Santi C, Mullen G, Thacker C, Moerman D, et al. Critical residues of the Caenorhabditis elegans unc-2 voltage-gated calcium channel that affect behavioral and physiological properties. J Neurosci. 2003;23:6537-45 pubmed..Overall, our findings suggest that UNC-2 plays a pivotal role in mediating a number of physiological processes in the nematode and also defines a number of critical residues important for calcium channel function in vivo. ..
- Rogalski T, Mullen G, Gilbert M, Williams B, Moerman D. The UNC-112 gene in Caenorhabditis elegans encodes a novel component of cell-matrix adhesion structures required for integrin localization in the muscle cell membrane. J Cell Biol. 2000;150:253-64 pubmed..Furthermore, UNC-112 requires the presence of UNC-52/perlecan and PAT-3/beta-integrin, but not DEB-1/vinculin to become localized to the muscle cell membrane. ..
- Thacker C, Rose A. A look at the Caenorhabditis elegans Kex2/Subtilisin-like proprotein convertase family. Bioessays. 2000;22:545-53 pubmed..Studies of the C. elegans genes not only provide important information about the evaluation of this gene family but should help to illuminate the roles of these proteins in mammalian systems. BioEssays 22:545-553, 2000. ..
- Gilchrist E, Moerman D. Mutations in the sup-38 gene of Caenorhabditis elegans suppress muscle-attachment defects in unc-52 mutants. Genetics. 1992;132:431-42 pubmed..Putative null sup-38 mutations cause maternal-effect lethality which is rescued by a wild-type copy of the locus in the zygote. These loss-of-function mutations have no effect on the body wall muscle structure. ..
- Meissner B, Warner A, Wong K, Dube N, Lorch A, McKay S, et al. An integrated strategy to study muscle development and myofilament structure in Caenorhabditis elegans. PLoS Genet. 2009;5:e1000537 pubmed publisher..Many of the genes affecting sarcomere integrity have human homologs for which little or nothing is known...
- Kitagawa R, Rose A. Components of the spindle-assembly checkpoint are essential in Caenorhabditis elegans. Nat Cell Biol. 1999;1:514-21 pubmed..In the absence of mdf gene products, errors in chromosome segregation arise and accumulate, ultimately leading to genetic lethality. ..
- Simonsen K, Gallego S, Færgeman N, Kallipolitis B. Strength in numbers: "Omics" studies of C. elegans innate immunity. Virulence. 2012;3:477-84 pubmed publisher..Here, we provide an overview of key aspects of innate immunity in C. elegans revealed by recent whole-genome transcriptomics and proteomics studies of the global response of C. elegans to various bacterial and fungal pathogens. ..
- Maydan J, Okada H, Flibotte S, Edgley M, Moerman D. De Novo identification of single nucleotide mutations in Caenorhabditis elegans using array comparative genomic hybridization. Genetics. 2009;181:1673-7 pubmed publisher..This technique represents a powerful method for rapidly detecting novel homozygous single nucleotide mutations in any organism with a sequenced reference genome. ..
- Rogalski T, Williams B, Mullen G, Moerman D. Products of the unc-52 gene in Caenorhabditis elegans are homologous to the core protein of the mammalian basement membrane heparan sulfate proteoglycan. Genes Dev. 1993;7:1471-84 pubmed..elegans fail to stain embryos homozygous for a lethal unc-52 allele. We have mapped the epitopes recognized by both monoclonal antibodies to a region of domain IV in the unc-52-encoded protein sequence. ..
- Jensen V, Bialas N, Bishop Hurley S, Molday L, Kida K, Nguyen P, et al. Localization of a guanylyl cyclase to chemosensory cilia requires the novel ciliary MYND domain protein DAF-25. PLoS Genet. 2010;6:e1001199 pubmed publisher..In summary, we have discovered a novel ciliary protein that plays an important role in cGMP signaling by localizing a guanylyl cyclase to the sensory organelle. ..
- Park D, Estevez A, Riddle D. Antagonistic Smad transcription factors control the dauer/non-dauer switch in C. elegans. Development. 2010;137:477-85 pubmed publisher..In the adult, DAF-8 downregulates lag-2 expression in the distal tip cells, thus promoting germ line meiosis. This function does not involve DAF-3, thereby avoiding the feedback loop that functions in the dauer switch. ..
- McLellan J, O Neil N, Tarailo S, Stoepel J, Bryan J, Rose A, et al. Synthetic lethal genetic interactions that decrease somatic cell proliferation in Caenorhabditis elegans identify the alternative RFC CTF18 as a candidate cancer drug target. Mol Biol Cell. 2009;20:5306-13 pubmed publisher..elegans. Furthermore, the C. elegans assay system will contribute to our knowledge of genetic interactions in a multicellular animal and is a powerful approach to identify new cancer therapeutic targets. ..
- Sleumer M, Bilenky M, He A, Robertson G, Thiessen N, Jones S. Caenorhabditis elegans cisRED: a catalogue of conserved genomic elements. Nucleic Acids Res. 2009;37:1323-34 pubmed publisher..The annotated motifs provide novel binding site candidates for both characterized transcription factors and orthologues of characterized mammalian transcription factors. ..
- Leroux M, Candido E. Subunit characterization of the Caenorhabditis elegans chaperonin containing TCP-1 and expression pattern of the gene encoding CCT-1. Biochem Biophys Res Commun. 1997;241:687-92 pubmed..elegans cct-1 promoter is found to be mainly restricted to neuronal and muscle tissues, an observation which is consistent with the participation of CCT in actin and tubulin folding. ..
- Zhao Y, Tarailo Graovac M, O Neil N, Rose A. Spectrum of mutational events in the absence of DOG-1/FANCJ in Caenorhabditis elegans. DNA Repair (Amst). 2008;7:1846-54 pubmed publisher..Thus, the range of mutational events caused by lack of DOG-1/FANCJ is much broader than previously described. ..
- Leroux M, Candido E. Characterization of four new tcp-1-related cct genes from the nematode Caenorhabditis elegans. DNA Cell Biol. 1995;14:951-60 pubmed..The most notable difference between the CCT/TF55 and the GroEL/Hsp60/RuBP families is in the presumed polypeptide binding domain. ..
- Zhao Y, O Neil N, Rose A. Poly-G/poly-C tracts in the genomes of Caenorhabditis. BMC Genomics. 2007;8:403 pubmed..briggsae suggest a role for G/C tracts in chromatin structure but not in the transcriptional regulation of specific genes. ..
- Leroux M, Ma B, Batelier G, Melki R, Candido E. Unique structural features of a novel class of small heat shock proteins. J Biol Chem. 1997;272:12847-53 pubmed..Interestingly, HSP12.6 does not function as a molecular chaperone in vitro, since it is unable to prevent the thermally induced aggregation of a test substrate. The structural and functional implications of these findings are discussed. ..
- Kalchman M, Koide H, McCutcheon K, Graham R, Nichol K, Nishiyama K, et al. HIP1, a human homologue of S. cerevisiae Sla2p, interacts with membrane-associated huntingtin in the brain. Nat Genet. 1997;16:44-53 pubmed..This provides the first molecular link between huntingtin and the neuronal cytoskeleton and suggests that, in HD, loss of normal huntingtin-HIP1 interaction may contribute to a defect in membrane-cytoskeletal integrity in the brain. ..
- Stankunas K, Berger J, Ruse C, Sinclair D, Randazzo F, Brock H. The enhancer of polycomb gene of Drosophila encodes a chromatin protein conserved in yeast and mammals. Development. 1998;125:4055-66 pubmed
- Norman K, Moerman D. The let-268 locus of Caenorhabditis elegans encodes a procollagen lysyl hydroxylase that is essential for type IV collagen secretion. Dev Biol. 2000;227:690-705 pubmed..These observations indicate that type IV collagen is required in the basement membrane for mechanical support and not for organogenesis of the body wall muscle. ..
- Leprivier G, Remke M, Rotblat B, Dubuc A, Mateo A, Kool M, et al. The eEF2 kinase confers resistance to nutrient deprivation by blocking translation elongation. Cell. 2013;153:1064-79 pubmed publisher..Our data highlight a conserved role for eEF2K in protecting cells from nutrient deprivation and in conferring tumor cell adaptation to metabolic stress. PAPERCLIP:..
- Youds J, O Neil N, Rose A. Homologous recombination is required for genome stability in the absence of DOG-1 in Caenorhabditis elegans. Genetics. 2006;173:697-708 pubmed..Our data support the hypothesis that absence of DOG-1 leads to replication fork stalling that can be repaired by deletion-free or deletion-prone mechanisms. ..
- O Neil N, Martin J, Youds J, Ward J, Petalcorin M, Rose A, et al. Joint molecule resolution requires the redundant activities of MUS-81 and XPF-1 during Caenorhabditis elegans meiosis. PLoS Genet. 2013;9:e1003582 pubmed publisher..We propose that the MUS-81 and XPF-1 endonucleases act redundantly to process late recombination intermediates to form crossovers during C. elegans meiosis. ..
- Flibotte S, Edgley M, Maydan J, Taylor J, Zapf R, Waterston R, et al. Rapid high resolution single nucleotide polymorphism-comparative genome hybridization mapping in Caenorhabditis elegans. Genetics. 2009;181:33-7 pubmed publisher..This method will be particularly powerful when applied to difficult or hard-to-map low-penetrance phenotypes. It should also be possible to map polygenic traits using this method. ..
- Cheung I, Schertzer M, Rose A, Lansdorp P. Disruption of dog-1 in Caenorhabditis elegans triggers deletions upstream of guanine-rich DNA. Nat Genet. 2002;31:405-9 pubmed..We propose that DOG-1 is required to resolve the secondary structures of guanine-rich DNA that occasionally form during lagging-strand DNA synthesis. ..
- El Husseini A, Fretier P, Vincent S. Cloning and characterization of a gene (RNF22) encoding a novel brain expressed ring finger protein (BERP) that maps to human chromosome 11p15.5. Genomics. 2001;71:363-7 pubmed..Chromosome region 11p15 is thought to harbor tumor suppressor genes, and deletions of this region occur frequently in several types of human cancers. These observations indicate that BERP may be a novel tumor suppressor gene. ..
- Jones D, Candido E. The NED-8 conjugating system in Caenorhabditis elegans is required for embryogenesis and terminal differentiation of the hypodermis. Dev Biol. 2000;226:152-65 pubmed..Vulval defects were also produced by RNAi directed at C. elegans ula-1. This is the first demonstration of a requirement for NED-8 conjugation in metazoan development. ..
- Rose A, O Neil N, Bilenky M, Butterfield Y, Malhis N, Flibotte S, et al. Genomic sequence of a mutant strain of Caenorhabditis elegans with an altered recombination pattern. BMC Genomics. 2010;11:131 pubmed publisher..In this study, we observed no evidence of a mutator effect at the nucleotide level attributable to the Rec-1 mutation. ..
- Timbers T, Rankin C. Tap withdrawal circuit interneurons require CREB for long-term habituation in Caenorhabditis elegans. Behav Neurosci. 2011;125:560-6 pubmed publisher..Here we show for the first time that CREB is required for long-term habituation and show that the interneurons of the tap withdrawal response circuit are the locus of plasticity for long-term mechanosensory habituation in C. elegans. ..
- Chung G, O Neil N, Rose A. CHL-1 provides an essential function affecting cell proliferation and chromosome stability in Caenorhabditis elegans. DNA Repair (Amst). 2011;10:1174-82 pubmed publisher..Our results demonstrate a role for CHL-1 in cell proliferation and maintaining normal chromosome numbers, and implicate CHL-1 in chromosome stability and repair of unresolved secondary structures during replication. ..
- Rogalski T, Gilchrist E, Mullen G, Moerman D. Mutations in the unc-52 gene responsible for body wall muscle defects in adult Caenorhabditis elegans are located in alternatively spliced exons. Genetics. 1995;139:159-69 pubmed..This result suggests that reversion of the mutant phenotype in these strains may be the result of exon-skipping. ..
- Leggett D, Jones D, Candido E. Caenorhabditis elegans UBC-1, a ubiquitin-conjugating enzyme homologous to yeast RAD6/UBC2, contains a novel carboxy-terminal extension that is conserved in nematodes. DNA Cell Biol. 1995;14:883-91 pubmed..Both cis and trans splicing are involved in the maturation of the ubc-1 transcript. The presence of the SL2 trans-splice leader in the ubc-1 transcript suggests that ubc-1 may be co-transcribed as part of a polycistronic message. ..
- Gilchrist E, O Neil N, Rose A, Zetka M, Haughn G. TILLING is an effective reverse genetics technique for Caenorhabditis elegans. BMC Genomics. 2006;7:262 pubmed..For eight of the 10 target genes screened, TILLING has provided the first genetically heritable mutations which can be used to study their functions in vivo. ..
- Mullen G, Rogalski T, Bush J, Gorji P, Moerman D. Complex patterns of alternative splicing mediate the spatial and temporal distribution of perlecan/UNC-52 in Caenorhabditis elegans. Mol Biol Cell. 1999;10:3205-21 pubmed..Neither short isoforms nor isoforms containing the C-terminal agrin-like region are essential for sarcomere assembly or muscle cell attachment, and their role in development remains unclear. ..
- Rankin C, Wicks S. Mutations of the caenorhabditis elegans brain-specific inorganic phosphate transporter eat-4 affect habituation of the tap-withdrawal response without affecting the response itself. J Neurosci. 2000;20:4337-44 pubmed..Our results suggest that neurotransmitter regulation plays a role in habituation and may play a role in dishabituation. ..
- Rogalski T, Gilbert M, Devenport D, Norman K, Moerman D. DIM-1, a novel immunoglobulin superfamily protein in Caenorhabditis elegans, is necessary for maintaining bodywall muscle integrity. Genetics. 2003;163:905-15 pubmed
- Gallo M, Park D, Luciani D, Kida K, Palmieri F, Blacque O, et al. MISC-1/OGC links mitochondrial metabolism, apoptosis and insulin secretion. PLoS ONE. 2011;6:e17827 pubmed publisher..Our results suggest that controlling MISC-1/OGC function allows regulation of mitochondrial morphology and cell survival decisions by the metabolic needs of the cell. ..
- Thacker C, Peters K, Srayko M, Rose A. The bli-4 locus of Caenorhabditis elegans encodes structurally distinct kex2/subtilisin-like endoproteases essential for early development and adult morphology. Genes Dev. 1995;9:956-71 pubmed..No RNA transcript corresponding to exon 13 is detectable in the blistered mutants. These findings suggest that blisterase A is required for the normal function of the adult cuticle.(ABSTRACT TRUNCATED AT 250 WORDS) ..
- Grants J, Ying L, Yoda A, You C, Okano H, Sawa H, et al. The Mediator Kinase Module Restrains Epidermal Growth Factor Receptor Signaling and Represses Vulval Cell Fate Specification in Caenorhabditis elegans. Genetics. 2016;202:583-99 pubmed publisher..Collectively, these data offer an explanation for CKM repression of EGFR signaling output and ectopic vulva formation and provide the first evidence of Mediator CKM-tail module subunit crosstalk in animals. ..
- Warner A, Xiong G, Qadota H, Rogalski T, Vogl A, Moerman D, et al. CPNA-1, a copine domain protein, is located at integrin adhesion sites and is required for myofilament stability in Caenorhabditis elegans. Mol Biol Cell. 2013;24:601-16 pubmed publisher..We propose that CPNA-1 acts as a linker between an integrin-associated protein, PAT-6, and membrane-distal components of integrin adhesion complexes in the muscle of C. elegans. ..
- Kitagawa R, Law E, Tang L, Rose A. The Cdc20 homolog, FZY-1, and its interacting protein, IFY-1, are required for proper chromosome segregation in Caenorhabditis elegans. Curr Biol. 2002;12:2118-23 pubmed..IFY-1 accumulates in one-cell-arrested emb-30/APC4 embryos and interacts with SEP-1, a C. elegans separase, suggesting that IFY-1 functions as a C. elegans securin. ..
- Rose J, Kaun K, Chen S, Rankin C. GLR-1, a non-NMDA glutamate receptor homolog, is critical for long-term memory in Caenorhabditis elegans. J Neurosci. 2003;23:9595-9 pubmed..Thus, long-term memory in C. elegans is dependent on glr-1 and likely involves changes in the expression or localization of glutamate receptors. ..
- Tarailo M, Tarailo S, Rose A. Synthetic lethal interactions identify phenotypic "interologs" of the spindle assembly checkpoint components. Genetics. 2007;177:2525-30 pubmed
- Jones M, Huang J, Chua S, Baillie D, Rose A. The atm-1 gene is required for genome stability in Caenorhabditis elegans. Mol Genet Genomics. 2012;287:325-35 pubmed publisher..Our study establishes C. elegans as a model for the study of ATM as a mutator potentially leading to the development of screens to identify therapeutic targets in humans. ..
- Thacker C, Sheps J, Rose A. Caenorhabditis elegans dpy-5 is a cuticle procollagen processed by a proprotein convertase. Cell Mol Life Sci. 2006;63:1193-204 pubmed..Mutation of this site cause a dominant dumpy phenotype suggesting Dpy-5 procollagen requires processing for normal cuticle production. ..
- Ruzanov P, Riddle D, Marra M, McKay S, Jones S. Genes that may modulate longevity in C. elegans in both dauer larvae and long-lived daf-2 adults. Exp Gerontol. 2007;42:825-39 pubmed..We propose a model for enhanced longevity through a cytochrome c oxidase-mediated reduction in reactive oxygen species commonly held to be a major contributor to aging. ..
- Frøkjær Jensen C, Davis M, Sarov M, Taylor J, Flibotte S, LaBella M, et al. Random and targeted transgene insertion in Caenorhabditis elegans using a modified Mos1 transposon. Nat Methods. 2014;11:529-34 pubmed publisher..We also generated two collections of strains: a set of bright fluorescent insertions that are useful as dominant, genetic balancers and a set of lacO insertions to track genome position. ..
- Sleumer M, Mah A, Baillie D, Jones S. Conserved elements associated with ribosomal genes and their trans-splice acceptor sites in Caenorhabditis elegans. Nucleic Acids Res. 2010;38:2990-3004 pubmed publisher..elegans trans-splice acceptor site. One motif group was tested for regulatory function in a series of green fluorescent protein expression experiments and was shown to be involved in pharyngeal expression. ..