Genomes and Genes
Experts and Doctors on caenorhabditis elegans in Philadelphia, Pennsylvania, United States
Locale: Philadelphia, Pennsylvania, United States
Topic: caenorhabditis elegans
- Dabbish N, Raizen D. GABAergic synaptic plasticity during a developmentally regulated sleep-like state in C. elegans. J Neurosci. 2011;31:15932-43 pubmed publisher..We propose that the synaptic plasticity regulated by a developmental clock in C. elegans is analogous to synaptic plasticity regulated by the circadian clock in other species. ..
- Wang Q, Du X, Cai Z, Greene M. Characterization of the structures involved in localization of the SUN proteins to the nuclear envelope and the centrosome. DNA Cell Biol. 2006;25:554-62 pubmed..Finally, we provide evidence indicating that SUN1 and SUN2 may form a physical interaction between the nuclear envelope and the centrosome. ..
- Massey H, Bhopale M, Li X, Castelletto M, Lok J. The fork head transcription factor FKTF-1b from Strongyloides stercoralis restores DAF-16 developmental function to mutant Caenorhabditis elegans. Int J Parasitol. 2006;36:347-52 pubmed..This indicates that, unlike FKTF-1b, the S. stercoralis transcription factor FKTF-1a cannot trigger the shift to dauer-specific gene expression in C. elegans. ..
- Ketschek A, Joseph R, Boston R, Ashton F, Schad G. Amphidial neurons ADL and ASH initiate sodium dodecyl sulphate avoidance responses in the infective larva of the dog hookworm Anclyostoma caninum. Int J Parasitol. 2004;34:1333-6 pubmed..caninum L3i, a strong backward avoidance response is triggered. However, when the ASH and ADL neurons are ablated, the nematodes demonstrate the opposite reaction, increasing their movement in a forward direction. ..
- Stein P, Svoboda P, Stumpo D, Blackshear P, Lombard D, Johnson B, et al. Analysis of the role of RecQ helicases in RNAi in mammals. Biochem Biophys Res Commun. 2002;291:1119-22 pubmed..Our results suggest that Wrn, Blm, and RecQ1 are not involved in sequence-specific mRNA degradation in mammals in response to dsRNA, suggesting potential differences in the mammalian RNAi pathway. ..
- Driver R, Lamb A, Wyner A, Raizen D. DAF-16/FOXO regulates homeostasis of essential sleep-like behavior during larval transitions in C. elegans. Curr Biol. 2013;23:501-6 pubmed publisher..These findings are relevant to clinical observations of altered metabolic signaling in response to sleep deprivation and suggest that these signaling pathways may act in nonneuronal tissue to regulate sleep behaviors. ..
- Li F, Zheng Q, Ryvkin P, Dragomir I, Desai Y, Aiyer S, et al. Global analysis of RNA secondary structure in two metazoans. Cell Rep. 2012;1:69-82 pubmed publisher..Overall, our findings provide a global assessment of RNA folding in animals. ..
- Pekarsky Y, Campiglio M, Siprashvili Z, Druck T, Sedkov Y, Tillib S, et al. Nitrilase and Fhit homologs are encoded as fusion proteins in Drosophila melanogaster and Caenorhabditis elegans. Proc Natl Acad Sci U S A. 1998;95:8744-9 pubmed
- Belfer S, Chuang H, Freedman B, Yuan J, Norton M, Bau H, et al. Caenorhabditis-in-drop array for monitoring C. elegans quiescent behavior. Sleep. 2013;36:689-698G pubmed publisher..Our observations also highlight the impact of environmental conditions on quiescent behavior and show that longevity is reduced in CiD in comparison to agar surfaces. ..
- Stone C, Hall D, Sundaram M. Lipocalin signaling controls unicellular tube development in the Caenorhabditis elegans excretory system. Dev Biol. 2009;329:201-11 pubmed publisher..These results reveal a novel signaling mechanism that controls unicellular tube formation, and provide a genetic model system for dissecting lipocalin signaling pathways. ..
- Jackrel M, Desantis M, Martinez B, Castellano L, Stewart R, Caldwell K, et al. Potentiated Hsp104 variants antagonize diverse proteotoxic misfolding events. Cell. 2014;156:170-82 pubmed publisher..Our work establishes that disease-associated aggregates and amyloid are tractable targets and that enhanced disaggregases can restore proteostasis and mitigate neurodegeneration. ..
- Hong L, Elbl T, Ward J, Franzini Armstrong C, Rybicka K, Gatewood B, et al. MUP-4 is a novel transmembrane protein with functions in epithelial cell adhesion in Caenorhabditis elegans. J Cell Biol. 2001;154:403-14 pubmed..These findings support that MUP-4 is a junctional protein that functions in IF tethering, cell-matrix adherence, and mechanical coupling of tissues...
- Li X, Massey H, Nolan T, Schad G, Kraus K, Sundaram M, et al. Successful transgenesis of the parasitic nematode Strongyloides stercoralis requires endogenous non-coding control elements. Int J Parasitol. 2006;36:671-9 pubmed..This system has the potential to significantly advance the molecular and cellular biological study of S. stercoralis and of parasitic nematodes generally...
- Morton E, Lamitina T. Caenorhabditis elegans HSF-1 is an essential nuclear protein that forms stress granule-like structures following heat shock. Aging Cell. 2013;12:112-20 pubmed publisher..Our findings suggest that development, stress, and aging pathways may regulate HSF-1 function in distinct ways, and that HSF-1 nuclear stress granule formation is an evolutionarily conserved aspect of HSF-1 regulation in vivo. ..
- Moss E, Tang L. Conservation of the heterochronic regulator Lin-28, its developmental expression and microRNA complementary sites. Dev Biol. 2003;258:432-42 pubmed..elegans lin-4 and let-7 microRNAs, suggesting that microRNA regulation is a conserved feature of the Lin-28 gene in diverse animals. ..
- Palmitessa A, Benovic J. Arrestin and the multi-PDZ domain-containing protein MPZ-1 interact with phosphatase and tensin homolog (PTEN) and regulate Caenorhabditis elegans longevity. J Biol Chem. 2010;285:15187-200 pubmed publisher..Our results suggest that the ARR-1-MPZ-1-DAF-18 complex functions to regulate DAF-2 signaling in vivo and provide insight into a novel mechanism by which arrestin is able to regulate IGF-1R signaling and longevity. ..
- Dingley S, Polyak E, Lightfoot R, Ostrovsky J, Rao M, Greco T, et al. Mitochondrial respiratory chain dysfunction variably increases oxidant stress in Caenorhabditis elegans. Mitochondrion. 2010;10:125-36 pubmed publisher..elegans. This work highlights the utility of the C. elegans model as a tractable means to non-invasively monitor multi-dimensional in vivo consequences of primary mitochondrial dysfunction. ..
- Li L, Stoeckert C, Roos D. OrthoMCL: identification of ortholog groups for eukaryotic genomes. Genome Res. 2003;13:2178-89 pubmed..cbil.upenn.edu/gene-family). Analysis of clusters incorporating P. falciparum genes identifies numerous enzymes that were incompletely annotated in first-pass annotation of the parasite genome. ..
- Chendrimada T, Finn K, Ji X, Baillat D, Gregory R, Liebhaber S, et al. MicroRNA silencing through RISC recruitment of eIF6. Nature. 2007;447:823-8 pubmed..These results uncover an evolutionarily conserved function of the ribosome anti-association factor eIF6 in miRNA-mediated post-transcriptional silencing. ..
- Abdus Saboor I, Stone C, Murray J, Sundaram M. The Nkx5/HMX homeodomain protein MLS-2 is required for proper tube cell shape in the C. elegans excretory system. Dev Biol. 2012;366:298-307 pubmed publisher..These results reveal a novel interaction between the Nkx5/HMX family and the EGF-Ras pathway and implicate a transcription factor, MLS-2, as a regulator of cell shape...
- He L, Skirkanich J, Moronetti L, Lewis R, Lamitina T. The cystic-fibrosis-associated ?F508 mutation confers post-transcriptional destabilization on the C. elegans ABC transporter PGP-3. Dis Model Mech. 2012;5:930-9 pubmed publisher..elegans epithelial cells. This model, combined with the power of C. elegans genetics, provides a new opportunity to genetically dissect metazoan ERQC...
- Nelson P, Kiriakidou M, Sharma A, Maniataki E, Mourelatos Z. The microRNA world: small is mighty. Trends Biochem Sci. 2003;28:534-40 pubmed..Small RNAs might also target and silence homologous DNA sequences. The immense potential of small RNAs as controllers of gene networks is just beginning to unfold. ..
- Rohlfing A, Miteva Y, Moronetti L, He L, Lamitina T. The Caenorhabditis elegans mucin-like protein OSM-8 negatively regulates osmosensitive physiology via the transmembrane protein PTR-23. PLoS Genet. 2011;7:e1001267 pubmed publisher..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. ..
- Vatamaniuk O, Bucher E, Ward J, Rea P. A new pathway for heavy metal detoxification in animals. Phytochelatin synthase is required for cadmium tolerance in Caenorhabditis elegans. J Biol Chem. 2001;276:20817-20 pubmed
- Vatamaniuk O, Bucher E, Sundaram M, Rea P. CeHMT-1, a putative phytochelatin transporter, is required for cadmium tolerance in Caenorhabditis elegans. J Biol Chem. 2005;280:23684-90 pubmed..elegans demonstrate PC-dependent, HMT-1-mediated heavy metal detoxification not only in S. pombe but also in some invertebrates while at the same time indicating that the action of CeHMT-1 does not depend exclusively on PC synthesis...
- Kao G, Tuck S, Baillie D, Sundaram M. C. elegans SUR-6/PR55 cooperates with LET-92/protein phosphatase 2A and promotes Raf activity independently of inhibitory Akt phosphorylation sites. Development. 2004;131:755-65 pubmed..In addition to their roles in Ras signaling, SUR-6/PR55 and LET-92/PP2A-C cooperate to control mitotic progression during early embryogenesis. ..
- Burdick J, Murray J. Deconvolution of gene expression from cell populations across the C. elegans lineage. BMC Bioinformatics. 2013;14:204 pubmed publisher..elegans embryo. These simulations suggest that a high-resolution map of expression in the C. elegans embryo may be possible with expression data from as few as 30 cell populations. ..
- Howard R, Sundaram M. C. elegans EOR-1/PLZF and EOR-2 positively regulate Ras and Wnt signaling and function redundantly with LIN-25 and the SUR-2 Mediator component. Genes Dev. 2002;16:1815-27 pubmed..Further studies of eor-1 and eor-2 may provide insight into the roles of PLZF in normal development and leukemogenesis. ..
- Eletto D, Eletto D, Dersh D, Gidalevitz T, Argon Y. Protein disulfide isomerase A6 controls the decay of IRE1? signaling via disulfide-dependent association. Mol Cell. 2014;53:562-576 pubmed publisher..Thus, PDIA6 activity provides a mechanism that limits UPR signaling and maintains it within a physiologically appropriate range...
- Lim M, Selak M, Xiang Z, Krainc D, Neve R, Kraemer B, et al. Reduced activity of AMP-activated protein kinase protects against genetic models of motor neuron disease. J Neurosci. 2012;32:1123-41 pubmed publisher..Altogether, these data suggest that bioenergetic abnormalities are likely to be pathophysiologically relevant to motor neuron disease...
- Myers C, Goh P, Allen T, Bucher E, Bogaert T. Developmental genetic analysis of troponin T mutations in striated and nonstriated muscle cells of Caenorhabditis elegans. J Cell Biol. 1996;132:1061-77 pubmed..Our findings demonstrate multiple essential functions for TnT and provide a basis to investigate the in vivo functions and protein interactions of TnT in striated and nonstriated muscles. ..
- Garbe D, Doto J, Sundaram M. Caenorhabditis elegans lin-35/Rb, efl-1/E2F and other synthetic multivulva genes negatively regulate the anaphase-promoting complex gene mat-3/APC8. Genetics. 2004;167:663-72 pubmed..Loss-of-function alleles of lin-35/Rb and other SynMuv B genes suppress mat-3(ku233) defects by restoring mat-3 mRNA to wild-type levels. Therefore, Rb/E2F complexes appear to repress mat-3 expression. ..
- Ryan K, Chin A. T-box genes and cardiac development. Birth Defects Res C Embryo Today. 2003;69:25-37 pubmed..These developments prompted us to review the current understanding of the contribution of T-box genes to cardiovascular morphogenesis. ..
- Sundaram M. Vulval development: the battle between Ras and Notch. Curr Biol. 2004;14:R311-3 pubmed
- Seggerson K, Tang L, Moss E. Two genetic circuits repress the Caenorhabditis elegans heterochronic gene lin-28 after translation initiation. Dev Biol. 2002;243:215-25 pubmed..The role of lin-4 may be to initiate or potentiate the lin-4-independent circuit. We speculate that a parallel lin-4-independent regulatory mechanism regulates the expression of lin-14. ..
- Garrigues J, Sidoli S, Garcia B, Strome S. Defining heterochromatin in C. elegans through genome-wide analysis of the heterochromatin protein 1 homolog HPL-2. Genome Res. 2015;25:76-88 pubmed publisher..Our work defines heterochromatin in an important model organism and uncovers both shared and distinctive properties of heterochromatin relative to other systems. ..
- Huyen Y, Jeffrey P, Derry W, Rothman J, Pavletich N, Stavridi E, et al. Structural differences in the DNA binding domains of human p53 and its C. elegans ortholog Cep-1. Structure. 2004;12:1237-43 pubmed..Thus, during evolution there have been considerable changes in the structure of the p53 DNA binding domain. ..
- Palmitessa A, Hess H, Bany I, Kim Y, Koelle M, Benovic J. Caenorhabditus elegans arrestin regulates neural G protein signaling and olfactory adaptation and recovery. J Biol Chem. 2005;280:24649-62 pubmed
- Rohlfing A, Miteva Y, Hannenhalli S, Lamitina T. Genetic and physiological activation of osmosensitive gene expression mimics transcriptional signatures of pathogen infection in C. elegans. PLoS ONE. 2010;5:e9010 pubmed publisher..Together, our data suggest infection and osmotic adaptation share previously unappreciated transcriptional similarities which might be controlled via regulation of tissue-specific GATA transcription factors. ..
- Abdus Saboor I, Mancuso V, Murray J, Palozola K, NORRIS C, Hall D, et al. Notch and Ras promote sequential steps of excretory tube development in C. elegans. Development. 2011;138:3545-55 pubmed publisher..The relative simplicity of the excretory system makes it an attractive model for addressing basic questions about how cells gain or lose epithelial character and organize into tubular networks. ..
- Churgin M, McCloskey R, Peters E, Fang Yen C. Antagonistic Serotonergic and Octopaminergic Neural Circuits Mediate Food-Dependent Locomotory Behavior in Caenorhabditis elegans. J Neurosci. 2017;37:7811-7823 pubmed publisher..Understanding the molecular pathways through which biogenic amines function in model organisms may improve our understanding of dysfunctions of appetite and behavior found in mammals, including humans. ..
- Morais V, Crystal A, Pijak D, Carlin D, Costa J, Lee V, et al. The transmembrane domain region of nicastrin mediates direct interactions with APH-1 and the gamma-secretase complex. J Biol Chem. 2003;278:43284-91 pubmed
- Kumaraswamy E, Shiekhattar R. Activation of BRCA1/BRCA2-associated helicase BACH1 is required for timely progression through S phase. Mol Cell Biol. 2007;27:6733-41 pubmed..These results point to a critical role for BACH1 helicase activity not only in the timely progression through the S phase but also in maintaining genomic stability. ..
- Pepper A, McCane J, Kemper K, Yeung D, Lee R, Ambros V, et al. The C. elegans heterochronic gene lin-46 affects developmental timing at two larval stages and encodes a relative of the scaffolding protein gephyrin. Development. 2004;131:2049-59 pubmed..Our findings suggest that the LIN-46 protein acts as a scaffold for a multiprotein assembly that controls developmental timing, and expand the known roles of gephyrin-related proteins to development. ..
- Junio A, Li X, Massey H, Nolan T, Todd Lamitina S, Sundaram M, et al. Strongyloides stercoralis: cell- and tissue-specific transgene expression and co-transformation with vector constructs incorporating a common multifunctional 3' UTR. Exp Parasitol. 2008;118:253-65 pubmed..We have developed a vector "toolkit" for S. stercoralis including constructs with the Ss era-1 3' UTR and each of the promoters described above...
- Raizen D, Zimmerman J, Maycock M, Ta U, You Y, Sundaram M, et al. Lethargus is a Caenorhabditis elegans sleep-like state. Nature. 2008;451:569-72 pubmed publisher..The association of this C. elegans sleep-like state with developmental changes that occur with larval moults suggests that sleep may have evolved to allow for developmental changes. ..
- Smith R, Pontiggia L, Waterman C, Lichtenwalner M, Wasserman J. Comparison of motility, recovery, and methyl-thiazolyl-tetrazolium reduction assays for use in screening plant products for anthelmintic activity. Parasitol Res. 2009;105:1339-43 pubmed publisher..Activity of the A. leiocarpus extract also varied with solvent. In conclusion, plant extracts can be screened using motility assays that include both HPLC grade water and M9 salts...
- Zhang Y, Lindblom T, Chang A, Sudol M, Sluder A, Golemis E. Evidence that dim1 associates with proteins involved in pre-mRNA splicing, and delineation of residues essential for dim1 interactions with hnRNP F and Npw38/PQBP-1. Gene. 2000;257:33-43 pubmed..These results parallel the arrest phenotypes associated with global disruption of zygotic gene expression, suggesting that Dim1 proteins maintain an essential function in gene expression in higher eukaryotes. ..
- Kim E, Sun L, Gabel C, Fang Yen C. Long-term imaging of Caenorhabditis elegans using nanoparticle-mediated immobilization. PLoS ONE. 2013;8:e53419 pubmed publisher..We use our method to quantify calcium transients and long-term regrowth in single neurons following axotomy by a femtosecond laser. ..
- Pace H, Hodawadekar S, Draganescu A, Huang J, Bieganowski P, Pekarsky Y, et al. Crystal structure of the worm NitFhit Rosetta Stone protein reveals a Nit tetramer binding two Fhit dimers. Curr Biol. 2000;10:907-17 pubmed..Residence in the NitFhit complex does not alter the nucleotide specificity of Fhit dimers, which are oriented with ApppA-binding surfaces away from Nit. ..
- Tanis J, Ma Z, Foskett J. The NH2 terminus regulates voltage-dependent gating of CALHM ion channels. Am J Physiol Cell Physiol. 2017;313:C173-C186 pubmed publisher..We conclude that the NT plays critical roles modulating voltage dependence and stabilizing the closed states of CALHM channels. ..
- Fernandes Alnemri T, Litwack G, Alnemri E. CPP32, a novel human apoptotic protein with homology to Caenorhabditis elegans cell death protein Ced-3 and mammalian interleukin-1 beta-converting enzyme. J Biol Chem. 1994;269:30761-4 pubmed..The apoptotic activity of CPP32 and its high expression in lymphocytes suggest that CPP32 is an important mediator of apoptosis in the immune system. ..
- Krajacic P, Hermanowski J, Lozynska O, Khurana T, Lamitina T. C. elegans dysferlin homolog fer-1 is expressed in muscle, and fer-1 mutations initiate altered gene expression of muscle enriched genes. Physiol Genomics. 2009;40:8-14 pubmed publisher..elegans muscle. Therefore, C. elegans may be an attractive model system in which to explore new muscle-specific functions of the dysferlin protein and gain insights into the molecular pathogenesis of LGMD2B. ..
- Tanis J, Ma Z, Krajacic P, He L, Foskett J, Lamitina T. CLHM-1 is a functionally conserved and conditionally toxic Ca2+-permeable ion channel in Caenorhabditis elegans. J Neurosci. 2013;33:12275-86 pubmed publisher..Our data show that CLHM-1 is a functionally conserved ion channel that plays an important but potentially toxic role in excitable cell function...
- Stoltzfus J, Minot S, Berriman M, Nolan T, Lok J. RNAseq analysis of the parasitic nematode Strongyloides stercoralis reveals divergent regulation of canonical dauer pathways. PLoS Negl Trop Dis. 2012;6:e1854 pubmed publisher..stercoralis and may play a role in L3i development, there are significant differences between the two species. Understanding the mechanisms governing L3i development may lead to novel treatment and control strategies...
- Mancuso V, Parry J, Storer L, Poggioli C, Nguyen K, Hall D, et al. Extracellular leucine-rich repeat proteins are required to organize the apical extracellular matrix and maintain epithelial junction integrity in C. elegans. Development. 2012;139:979-90 pubmed publisher..We propose that eLRRon-dependent apical ECM organization contributes to cell-cell adhesion and may modulate epithelial junction dynamics in both normal and disease situations. ..
- McArdle K, Allen T, Bucher E. Ca2+-dependent muscle dysfunction caused by mutation of the Caenorhabditis elegans troponin T-1 gene. J Cell Biol. 1998;143:1201-13 pubmed
- Koh K, Bernstein Y, Sundaram M. The nT1 translocation separates vulval regulatory elements from the egl-18 and elt-6 GATA factor genes. Dev Biol. 2004;267:252-63 pubmed..By examining the fusion state and division patterns of the cells in the developing vulva of nT1 mutants, we demonstrate that egl-18/elt-6 prevent fusion and promote cell proliferation at multiple steps of vulval development. ..
- Nelson M, Raizen D. A sleep state during C. elegans development. Curr Opin Neurobiol. 2013;23:824-30 pubmed publisher..publications have shed light on key questions in sleep biology: First, How is sleep regulated? Second, How is sensory information gated during sleep? Third, How is sleep homeostasis mediated? Fourth, What is the core function of sleep? ..
- Kishore R, Sundaram M. ced-10 Rac and mig-2 function redundantly and act with unc-73 trio to control the orientation of vulval cell divisions and migrations in Caenorhabditis elegans. Dev Biol. 2002;241:339-48 pubmed..We discuss the similarities and differences between the cellular defects seen in Rac mutants and let-60 Ras or lin-17 Frizzled mutants. ..
- Loher P, Rigoutsos I. Interactive exploration of RNA22 microRNA target predictions. Bioinformatics. 2012;28:3322-3 pubmed publisher..RNA22-GUI is currently available for Homo sapiens, Mus musculus, Drosophila melanogaster and Caenorhabditis elegans. ..
- Rocheleau C, Rönnlund A, Tuck S, Sundaram M. Caenorhabditis elegans CNK-1 promotes Raf activation but is not essential for Ras/Raf signaling. Proc Natl Acad Sci U S A. 2005;102:11757-62 pubmed..Our data are consistent with a model in which CNK promotes Raf phosphorylation/activation through membrane localization, oligomerization, or association with an activating kinase. ..
- Raizen D, Cullison K, Pack A, Sundaram M. A novel gain-of-function mutant of the cyclic GMP-dependent protein kinase egl-4 affects multiple physiological processes in Caenorhabditis elegans. Genetics. 2006;173:177-87 pubmed..In a genetic screen we have identified extragenic suppressors of this gain-of-function mutant. Thus, this mutant promises to be a useful tool for identifying downstream targets of PKG. ..
- Falk M, Rosenjack J, Polyak E, Suthammarak W, Chen Z, Morgan P, et al. Subcomplex Ilambda specifically controls integrated mitochondrial functions in Caenorhabditis elegans. PLoS ONE. 2009;4:e6607 pubmed publisher..We demonstrate that functional consequences of complex I deficiency vary with the particular subunit that is defective. ..