Genomes and Genes
Experts and Doctors on caenorhabditis elegans proteins in Boulder, Colorado, United States
Locale: Boulder, Colorado, United States
Topic: caenorhabditis elegans proteins
- Nakagawa A, Shi Y, Kage Nakadai E, Mitani S, Xue D. Caspase-dependent conversion of Dicer ribonuclease into a death-promoting deoxyribonuclease. Science. 2010;328:327-34 pubmed publisher..DCR-1 functions in fragmenting chromosomal DNA during apoptosis, in addition to processing of small RNAs, and undergoes a protease-mediated conversion from a ribonuclease to a deoxyribonuclease. ..
- Gu T, Orita S, Han M. Caenorhabditis elegans SUR-5, a novel but conserved protein, negatively regulates LET-60 Ras activity during vulval induction. Mol Cell Biol. 1998;18:4556-64 pubmed..SUR-5 also has some sequence similarity to acetyl coenzyme A synthetases and is predicted to contain ATP/GTP and AMP binding sites. Our results suggest that sur-5 gene function may be conserved through evolution. ..
- Cui M, Cohen M, Teng C, Han M. The tumor suppressor Rb critically regulates starvation-induced stress response in C. elegans. Curr Biol. 2013;23:975-80 pubmed publisher..These results may provide mechanistic insights into why cancer cells are often hypersensitive to starvation treatment...
- Zhou Q, Li H, Xue D. Elimination of paternal mitochondria through the lysosomal degradation pathway in C. elegans. Cell Res. 2011;21:1662-9 pubmed publisher..Our study indicates that C. elegans is an excellent animal model for understanding and dissecting this conserved biological process critical for animal development and reproduction. ..
- Parrish J, Li L, Klotz K, Ledwich D, Wang X, Xue D. Mitochondrial endonuclease G is important for apoptosis in C. elegans. Nature. 2001;412:90-4 pubmed..CPS-6 is the first mitochondrial protein identified to be involved in programmed cell death in C. elegans, underscoring the conserved and important role of mitochondria in the execution of apoptosis. ..
- Murakami S, Johnson T. The OLD-1 positive regulator of longevity and stress resistance is under DAF-16 regulation in Caenorhabditis elegans. Curr Biol. 2001;11:1517-23 pubmed..This study reveals a new system for specifying longevity and stress resistance and suggests possible mechanisms for mediating life extension by dietary restriction and hormesis. ..
- Tucker M, Han M. Muscle cell migrations of C. elegans are mediated by the alpha-integrin INA-1, Eph receptor VAB-1, and a novel peptidase homologue MNP-1. Dev Biol. 2008;318:215-23 pubmed publisher..Together these results suggest complex interactions between the adjacent epidermal, neuronal, and muscle cells are required to promote proper muscle cell migration during embryogenesis. ..
- Harris J, Kelley S, Spiegelman G, Pace N. The genetic core of the universal ancestor. Genome Res. 2003;13:407-12 pubmed..The analysis also identified several genes of unknown function with phylogenies that track with the ribosomal RNA genes. The products of these genes are likely to play fundamental roles in cellular processes. ..
- Park S, Link C, Johnson T. Life-span extension by dietary restriction is mediated by NLP-7 signaling and coelomocyte endocytosis in C. elegans. FASEB J. 2010;24:383-92 pubmed publisher..We conclude that two novel pathways, NLP-7 signaling and endocytosis by coelomocytes, are required for life extension under dietary restriction in C. elegans. ..
- Breckenridge D, Kang B, Kokel D, Mitani S, Staehelin L, Xue D. Caenorhabditis elegans drp-1 and fis-2 regulate distinct cell-death execution pathways downstream of ced-3 and independent of ced-9. Mol Cell. 2008;31:586-97 pubmed publisher..Our findings demonstrate that mitochondria dynamics do not regulate apoptosis activation in C. elegans and reveal distinct roles for drp-1 and fis-2 as mediators of cell-death execution downstream of caspase activation. ..
- Eastburn D, Han M. A gain-of-function allele of cbp-1, the Caenorhabditis elegans ortholog of the mammalian CBP/p300 gene, causes an increase in histone acetyltransferase activity and antagonism of activated Ras. Mol Cell Biol. 2005;25:9427-34 pubmed..To our knowledge, this is the only such HAT activity mutation isolated in a CBP/p300 family protein, and this mutation may define a negative role of the HAT activity in antagonizing Ras function in a specific developmental event. ..
- Wang X, Wu Y, Fadok V, Lee M, Gengyo Ando K, Cheng L, et al. Cell corpse engulfment mediated by C. elegans phosphatidylserine receptor through CED-5 and CED-12. Science. 2003;302:1563-6 pubmed..Our findings suggest that PSR-1 is likely an upstream receptor for the signaling pathway containing CED-2, CED-5, CED-10, and CED-12 proteins and plays an important role in recognizing phosphatidylserine during phagocytosis. ..
- Geng X, Zhou Q, Kage Nakadai E, Shi Y, Yan N, Mitani S, et al. Caenorhabditis elegans caspase homolog CSP-2 inhibits CED-3 autoactivation and apoptosis in germ cells. Cell Death Differ. 2009;16:1385-94 pubmed publisher..elegans caspase homologs use the same mechanism to prevent caspase autoactivation and apoptosis in different tissues, suggesting that this could be a generally applicable strategy for regulating caspase activation and apoptosis. ..
- Park S, Tedesco P, Johnson T. Oxidative stress and longevity in Caenorhabditis elegans as mediated by SKN-1. Aging Cell. 2009;8:258-69 pubmed publisher..These findings showed that a transcriptional shift from growth and maintenance towards the activation of cellular defense mechanisms was caused by the oxidative stress; many of these transcriptional alterations are SKN-1 dependent. ..
- Rathore S, Bend E, Yu H, Hammarlund M, Jorgensen E, Shen J. Syntaxin N-terminal peptide motif is an initiation factor for the assembly of the SNARE-Sec1/Munc18 membrane fusion complex. Proc Natl Acad Sci U S A. 2010;107:22399-406 pubmed publisher..After association, Munc18-1 and the SNARE bundle together drive membrane merging without further involving the N-peptide. Thus, the syntaxin N-peptide is an initiation factor for the assembly of the SNARE-SM membrane fusion complex. ..
- Starr D, Han M. Role of ANC-1 in tethering nuclei to the actin cytoskeleton. Science. 2002;298:406-9 pubmed..Thus, ANC-1 may connect nuclei to the cytoskeleton by interacting with UNC-84 at the nuclear envelope and with actin in the cytoplasm. ..
- Fay D, Keenan S, Han M. fzr-1 and lin-35/Rb function redundantly to control cell proliferation in C. elegans as revealed by a nonbiased synthetic screen. Genes Dev. 2002;16:503-17 pubmed..We propose that lin-35, fzr-1, and lin-23 function redundantly to control cell cycle progression through the regulation of cyclin levels...
- Kim S, Johnson W, Chen C, Sewell A, Byström A, Han M. Allele-specific suppressors of lin-1(R175Opal) identify functions of MOC-3 and DPH-3 in tRNA modification complexes in Caenorhabditis elegans. Genetics. 2010;185:1235-47 pubmed publisher..Our genetic data suggest that the functional interaction of moc-3/urm-1 and dph-3 with the ELP complex is an evolutionarily conserved mechanism involved in tRNA functions that are important for accurate translation...
- Peden E, Kimberly E, Gengyo Ando K, Mitani S, Xue D. Control of sex-specific apoptosis in C. elegans by the BarH homeodomain protein CEH-30 and the transcriptional repressor UNC-37/Groucho. Genes Dev. 2007;21:3195-207 pubmed
- Powell Coffman J, Bradfield C, Wood W. Caenorhabditis elegans orthologs of the aryl hydrocarbon receptor and its heterodimerization partner the aryl hydrocarbon receptor nuclear translocator. Proc Natl Acad Sci U S A. 1998;95:2844-9 pubmed..The discovery of these genes in a simple, genetically tractable invertebrate should allow elucidation of AHR-1 function and identification of its endogenous regulators. ..
- Geng X, Harry B, Zhou Q, Skeen Gaar R, Ge X, Lee E, et al. Hepatitis B virus X protein targets the Bcl-2 protein CED-9 to induce intracellular Ca2+ increase and cell death in Caenorhabditis elegans. Proc Natl Acad Sci U S A. 2012;109:18465-70 pubmed publisher..Our results suggest that C. elegans could serve as an animal model for identifying crucial host factors and signaling pathways of HBx and aid in development of strategies to treat HBV-induced liver disorders. ..
- Killian D, Harvey E, Johnson P, Otori M, Mitani S, Xue D. SKR-1, a homolog of Skp1 and a member of the SCF(SEL-10) complex, regulates sex-determination and LIN-12/Notch signaling in C. elegans. Dev Biol. 2008;322:322-31 pubmed publisher..Our results suggest that SKR-1, CUL-1 and SEL-10 constitute an SCF E3 ligase complex that plays an important role in modulating sex-determination and LIN-12/Notch signaling in C. elegans. ..
- Morita K, Han M. Multiple mechanisms are involved in regulating the expression of the developmental timing regulator lin-28 in Caenorhabditis elegans. EMBO J. 2006;25:5794-804 pubmed
- Hanna Rose W, Han M. COG-2, a sox domain protein necessary for establishing a functional vulval-uterine connection in Caenorhabditis elegans. Development. 1999;126:169-79 pubmed..Thus, it appears that COG-2 is a transcription factor that regulates a late-stage aspect of uterine seam cell differentiation that specifically affects anchor cell-uterine seam cell fusion. ..
- Yoder J, Chong H, Guan K, Han M. Modulation of KSR activity in Caenorhabditis elegans by Zn ions, PAR-1 kinase and PP2A phosphatase. EMBO J. 2004;23:111-9 pubmed..Genetic analysis also indicates that PP2A phosphatase and PAR-1 kinase act downstream of Raf to positively and negatively regulate KSR activity, respectively...
- Wang X, Yang C, Chai J, Shi Y, Xue D. Mechanisms of AIF-mediated apoptotic DNA degradation in Caenorhabditis elegans. Science. 2002;298:1587-92 pubmed..Thus, AIF and EndoG define a single, mitochondria-initiated apoptotic DNA degradation pathway that is conserved between C. elegans and mammals. ..
- Tang H, Han M. Fatty Acids Regulate Germline Sex Determination through ACS-4-Dependent Myristoylation. Cell. 2017;169:457-469.e13 pubmed publisher..These findings, including a similar role of ACS-4 in a male/female species, uncover a likely conserved mechanism by which FA, an environmental factor, regulates sex determination and reproductive development. ..
- Starr D, Hermann G, Malone C, Fixsen W, Priess J, Horvitz H, et al. unc-83 encodes a novel component of the nuclear envelope and is essential for proper nuclear migration. Development. 2001;128:5039-50 pubmed..We favor a model in which UNC-84 directly recruits UNC-83 to the nuclear envelope where they help transfer force between the cytoskeleton and the nucleus...
- Bergmann D, Lee M, Robertson B, Tsou M, Rose L, Wood W. Embryonic handedness choice in C. elegans involves the Galpha protein GPA-16. Development. 2003;130:5731-40 pubmed..We will henceforth refer to this gene as gpa-16. These results demonstrate for the first time involvement of heterotrimeric G proteins in establishment of embryonic LR asymmetry and suggest how they might act. ..
- Seamen E, Blanchette J, Han M. P-type ATPase TAT-2 negatively regulates monomethyl branched-chain fatty acid mediated function in post-embryonic growth and development in C. elegans. PLoS Genet. 2009;5:e1000589 pubmed publisher..This work indicates a novel connection between a P-type ATPase and the critical regulatory function of a specific fatty acid. ..
- Hanna Rose W, Han M. The Caenorhabditis elegans EGL-26 protein mediates vulval cell morphogenesis. Dev Biol. 2002;241:247-58 pubmed..EGL-26 is localized at the apical edge of the vulE cell. It is thus possible that vulE acts to instruct morphological changes in the neighboring cell, vulF, in an interaction mediated by EGL-26. ..
- Starr D, Han M. ANChors away: an actin based mechanism of nuclear positioning. J Cell Sci. 2003;116:211-6 pubmed..Syne/ANC-1 anchors nuclei by directly tethering the nuclear envelope to the actin cytoskeleton, and UNC-84/SUN functions at the nuclear envelope to recruit Syne/ANC-1. ..
- Cui M, Fay D, Han M. lin-35/Rb cooperates with the SWI/SNF complex to control Caenorhabditis elegans larval development. Genetics. 2004;167:1177-85 pubmed..Our results suggest that LIN-35/Rb and a certain class B synMuv proteins collaborate with the SWI/SNF protein complex to regulate the T cell division as well as other events essential for larval growth...
- Chen Z, Han M. C. elegans Rb, NuRD, and Ras regulate lin-39-mediated cell fusion during vulval fate specification. Curr Biol. 2001;11:1874-9 pubmed
- Kahn N, Rea S, Moyle S, Kell A, Johnson T. Proteasomal dysfunction activates the transcription factor SKN-1 and produces a selective oxidative-stress response in Caenorhabditis elegans. Biochem J. 2008;409:205-13 pubmed
- Arum O, Johnson T. Reduced expression of the Caenorhabditis elegans p53 ortholog cep-1 results in increased longevity. J Gerontol A Biol Sci Med Sci. 2007;62:951-9 pubmed..This study clarifies the inverse relationship between cep-1 expression and C. elegans life span, and, by extrapolation, that between p53 expression and mammalian life span. ..
- Chen Z, Eastburn D, Han M. The Caenorhabditis elegans nuclear receptor gene nhr-25 regulates epidermal cell development. Mol Cell Biol. 2004;24:7345-58 pubmed..Additionally, our data suggest that nhr-25 may also function with another Hox gene, nob-1, during embryogenesis. Overall, our results indicate that nhr-25 plays an integral role in regulating cellular processes of epidermal cells. ..
- Weaver B, Weaver Y, Mitani S, Han M. Coupled Caspase and N-End Rule Ligase Activities Allow Recognition and Degradation of Pluripotency Factor LIN-28 during Non-Apoptotic Development. Dev Cell. 2017;41:665-673.e6 pubmed publisher..The interdependence of these proteolytic activities provides a paradigm for non-apoptotic caspase-mediated protein inactivation. ..
- Zhang L, Ding L, Cheung T, Dong M, Chen J, Sewell A, et al. Systematic identification of C. elegans miRISC proteins, miRNAs, and mRNA targets by their interactions with GW182 proteins AIN-1 and AIN-2. Mol Cell. 2007;28:598-613 pubmed..Our results demonstrate an effective biochemical approach to systematically identify miRNA targets and provide valuable insights regarding the properties of miRNA effector complexes. ..
- Kapulkin W, Kapulkin V, Hiester B, Link C. Compensatory regulation among ER chaperones in C. elegans. FEBS Lett. 2005;579:3063-8 pubmed..We show that this compensatory regulation is specific for ER chaperones, not dependent on RNA interference, and required for maintaining viability in worms containing a deletion of the hsp-3 gene. ..
- Cui M, Chen J, Myers T, Hwang B, Sternberg P, Greenwald I, et al. SynMuv genes redundantly inhibit lin-3/EGF expression to prevent inappropriate vulval induction in C. elegans. Dev Cell. 2006;10:667-72 pubmed
- Kniazeva M, Crawford Q, Seiber M, Wang C, Han M. Monomethyl branched-chain fatty acids play an essential role in Caenorhabditis elegans development. PLoS Biol. 2004;2:E257 pubmed..This study exposes unexpected and crucial physiological functions of C15ISO and C17ISO in C. elegans and suggests a potentially important role for mmBCFAs in other eukaryotes. ..
- Parrish J, Yang C, Shen B, Xue D. CRN-1, a Caenorhabditis elegans FEN-1 homologue, cooperates with CPS-6/EndoG to promote apoptotic DNA degradation. EMBO J. 2003;22:3451-60 pubmed..Our results suggest that CRN-1/FEN-1 may play a critical role in switching the state of cells from DNA replication/repair to DNA degradation during apoptosis. ..
- Breckenridge D, Kang B, Xue D. Bcl-2 proteins EGL-1 and CED-9 do not regulate mitochondrial fission or fusion in Caenorhabditis elegans. Curr Biol. 2009;19:768-73 pubmed publisher..elegans. Taken together, our results argue against an evolutionarily conserved role for Bcl-2 proteins in regulating mitochondrial fission and fusion. ..
- Van Auken K, Weaver D, Robertson B, Sundaram M, Saldi T, Edgar L, et al. Roles of the Homothorax/Meis/Prep homolog UNC-62 and the Exd/Pbx homologs CEH-20 and CEH-40 in C. elegans embryogenesis. Development. 2002;129:5255-68 pubmed
- Dostal V, Roberts C, Link C. Genetic mechanisms of coffee extract protection in a Caenorhabditis elegans model of ?-amyloid peptide toxicity. Genetics. 2010;186:857-66 pubmed publisher..These results suggest that the reported protective effects of coffee in multiple neurodegenerative diseases may result from a general activation of the Nrf2 phase II detoxification pathway. ..
- Henderson S, Johnson T. daf-16 integrates developmental and environmental inputs to mediate aging in the nematode Caenorhabditis elegans. Curr Biol. 2001;11:1975-80 pubmed..We suggest that changes in the subcellular localization of DAF-16 by environmental cues allows for rapid reallocation of resources in response to a changing environment at all stages of life. ..
- Parrish J, Metters H, Chen L, Xue D. Demonstration of the in vivo interaction of key cell death regulators by structure-based design of second-site suppressors. Proc Natl Acad Sci U S A. 2000;97:11916-21 pubmed..The structure-based design of second-site suppressors via homology modeling should be widely applicable for probing important molecular interactions that are implicated in fundamental biological processes. ..
- Suzuki Y, Han M. Genetic redundancy masks diverse functions of the tumor suppressor gene PTEN during C. elegans development. Genes Dev. 2006;20:423-8 pubmed..We provide evidence that daf-18 elicits some functions independent of the downstream gene daf-16...
- Van Auken K, Weaver D, Edgar L, Wood W. Caenorhabditis elegans embryonic axial patterning requires two recently discovered posterior-group Hox genes. Proc Natl Acad Sci U S A. 2000;97:4499-503 pubmed..K.) 126, 1537-1546]. Therefore, essential embryonic patterning in C. elegans requires only Hox genes of the anterior and posterior paralog groups, raising interesting questions about evolution of the medial-group genes. ..
- Johnson T. 25 years after age-1: genes, interventions and the revolution in aging research. Exp Gerontol. 2013;48:640-3 pubmed publisher..This area has been fascinating to those studying the sociology of science as modern aging research has moved to replace the simplistic, poorly controlled and outright fictitious approaches seen in much of the previous aging research. ..
- Yu H, Lai H, Lin T, Lo S. Autonomous and non-autonomous roles of DNaseÂ II during cell death in C. elegans embryos. Biosci Rep. 2015;35: pubmed publisher..Collectively, we demonstrate that the ToLFP method can be used to differentiate the locations of blastomeres where DNase II acts autonomously or non-autonomously in degrading apoptotic DNA. ..
- Geng X, Shi Y, Nakagawa A, Yoshina S, Mitani S, Shi Y, et al. Inhibition of CED-3 zymogen activation and apoptosis in Caenorhabditis elegans by caspase homolog CSP-3. Nat Struct Mol Biol. 2008;15:1094-101 pubmed publisher..However, CSP-3 does not block CED-3 activation induced by CED-4, nor does it inhibit the activity of the activated CED-3 protease. Therefore CSP-3 uses a previously unreported mechanism to protect cells from apoptosis. ..
- Tucker M, Sieber M, Morphew M, Han M. The Caenorhabditis elegans aristaless orthologue, alr-1, is required for maintaining the functional and structural integrity of the amphid sensory organs. Mol Biol Cell. 2005;16:4695-704 pubmed..Genetic interaction tests also suggest that ALR-1 may function cooperatively with the cell adhesion processes in maintaining the amphid sensory organs...
- Parrish J, Xue D. Functional genomic analysis of apoptotic DNA degradation in C. elegans. Mol Cell. 2003;11:987-96 pubmed..It should now be possible to systematically decipher the mechanisms of apoptotic DNA degradation. ..
- Mapes J, Chen Y, Kim A, Mitani S, Kang B, Xue D. CED-1, CED-7, and TTR-52 regulate surface phosphatidylserine expression on apoptotic and phagocytic cells. Curr Biol. 2012;22:1267-75 pubmed publisher..In addition, some living cells such as macrophages also express exPS...
- Wang X, Li W, Zhao D, Liu B, Shi Y, Chen B, et al. Caenorhabditis elegans transthyretin-like protein TTR-52 mediates recognition of apoptotic cells by the CED-1 phagocyte receptor. Nat Cell Biol. 2010;12:655-64 pubmed publisher..TTR-52 is therefore the first bridging molecule identified in C. elegans that mediates recognition of apoptotic cells by crosslinking the PtdSer 'eat me' signal with the phagocyte receptor CED-1. ..
- Wang X, Wang J, Gengyo Ando K, Gu L, Sun C, Yang C, et al. C. elegans mitochondrial factor WAH-1 promotes phosphatidylserine externalization in apoptotic cells through phospholipid scramblase SCRM-1. Nat Cell Biol. 2007;9:541-9 pubmed..Thus WAH-1, after its release from mitochondria during apoptosis, promotes plasma membrane phosphatidylserine externalization through its downstream effector, SCRM-1. ..
- Hassan W, Merin D, Fonte V, Link C. AIP-1 ameliorates beta-amyloid peptide toxicity in a Caenorhabditis elegans Alzheimer's disease model. Hum Mol Genet. 2009;18:2739-47 pubmed publisher..Our results implicate AIP-1 in the regulation of protein turnover and protection against Abeta toxicity and point at AIRAPL as the functional mammalian homologue of AIP-1. ..
- Darland Ransom M, Wang X, Sun C, Mapes J, Gengyo Ando K, Mitani S, et al. Role of C. elegans TAT-1 protein in maintaining plasma membrane phosphatidylserine asymmetry. Science. 2008;320:528-31 pubmed publisher..Thus, tat-1 appears to function in preventing appearance of PS in the outer leaflet of plasma membrane, and ectopic exposure of PS on the cell surface may result in removal of living cells by neighboring phagocytes. ..
- Chen Z, Han M. Role of C. elegans lin-40 MTA in vulval fate specification and morphogenesis. Development. 2001;128:4911-21 pubmed..This inhibitory function of lin-40 might be carried out by downregulating lin-39 Hox expression. We also show that lin-40 is specifically required for cell divisions along the transverse orientation during vulval morphogenesis. ..
- Kell A, Ventura N, Kahn N, Johnson T. Activation of SKN-1 by novel kinases in Caenorhabditis elegans. Free Radic Biol Med. 2007;43:1560-6 pubmed..Inhibition of two of these kinases results in shorter life span and increased sensitivity to stress. ..