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Volumn 13, Issue 1, 2012, Pages

A survey of putative secreted and transmembrane proteins encoded in the C. elegans genome

Author keywords

Caenorhabditis elegans; Genome; Protein domain; Secretome, Transmembrane proteins; Signal peptide

Indexed keywords

CARRIER PROTEIN; MEMBRANE PROTEIN; RECEPTOR PROTEIN; SIGNAL PEPTIDE;

EID: 84871809827     PISSN: None     EISSN: 14712164     Source Type: Journal    
DOI: 10.1186/1471-2164-13-333     Document Type: Article
Times cited : (23)

References (55)
  • 1
    • 0032509302 scopus 로고    scopus 로고
    • Genome sequence of the nematode C. elegans: a platform for investigating biology
    • Consortium CeS:
    • Consortium CeS: Genome sequence of the nematode C. elegans: a platform for investigating biology. Science 1998, 282:2012-2018. Consortium CeS:.
    • (1998) Science , vol.282 , pp. 2012-2018
  • 2
    • 55349096514 scopus 로고    scopus 로고
    • The Caenorhabditis chemoreceptor gene families
    • 10.1186/1741-7007-6-42, 2576165, 18837995
    • Thomas JH, Robertson HM. The Caenorhabditis chemoreceptor gene families. BMC Biol 2008, 6:42. 10.1186/1741-7007-6-42, 2576165, 18837995.
    • (2008) BMC Biol , vol.6 , pp. 42
    • Thomas, J.H.1    Robertson, H.M.2
  • 3
    • 0034568688 scopus 로고    scopus 로고
    • The F-box protein family
    • REVIEWS3002, 138887, 11178263
    • Kipreos ET, Pagano M. The F-box protein family. Genome Biol 2000, 1:REVIEWS3002. 138887, 11178263.
    • (2000) Genome Biol , vol.1
    • Kipreos, E.T.1    Pagano, M.2
  • 4
    • 41649104468 scopus 로고    scopus 로고
    • Specificity of the innate immune system and diversity of C-type lectin domain (CTLD) proteins in the nematode Caenorhabditis elegans
    • 10.1016/j.imbio.2007.12.004, 18406370
    • Schulenburg H, Hoeppner MP, Weiner J, Bornberg-Bauer E. Specificity of the innate immune system and diversity of C-type lectin domain (CTLD) proteins in the nematode Caenorhabditis elegans. Immunobiology 2008, 213:237-250. 10.1016/j.imbio.2007.12.004, 18406370.
    • (2008) Immunobiology , vol.213 , pp. 237-250
    • Schulenburg, H.1    Hoeppner, M.P.2    Weiner, J.3    Bornberg-Bauer, E.4
  • 5
    • 38449116228 scopus 로고    scopus 로고
    • Nuclear hormone receptors in C. elegans
    • Antebi A. Nuclear hormone receptors in C. elegans. WormBook 2006, 1-13.
    • (2006) WormBook , pp. 1-13
    • Antebi, A.1
  • 8
    • 48949116726 scopus 로고    scopus 로고
    • Large-scale gene expression pattern analysis, in situ, in Caenorhabditis elegans
    • Bamps S, Hope IA. Large-scale gene expression pattern analysis, in situ, in Caenorhabditis elegans. Brief Funct Genomics Proteomics 2008, 7:175-183.
    • (2008) Brief Funct Genomics Proteomics , vol.7 , pp. 175-183
    • Bamps, S.1    Hope, I.A.2
  • 10
  • 11
    • 59149102602 scopus 로고    scopus 로고
    • Phylogenetic and functional assessment of orthologs inference projects and methods
    • 10.1371/journal.pcbi.1000262, 2612752, 19148271
    • Altenhoff AM, Dessimoz C. Phylogenetic and functional assessment of orthologs inference projects and methods. PLoS Comput Biol 2009, 5:e1000262. 10.1371/journal.pcbi.1000262, 2612752, 19148271.
    • (2009) PLoS Comput Biol , vol.5
    • Altenhoff, A.M.1    Dessimoz, C.2
  • 12
    • 54849436208 scopus 로고    scopus 로고
    • The quest for orthologs: finding the corresponding gene across genomes
    • 10.1016/j.tig.2008.08.009, 18819722
    • Kuzniar A, van Ham RC, Pongor S, Leunissen JA. The quest for orthologs: finding the corresponding gene across genomes. Trends Genet 2008, 24:539-551. 10.1016/j.tig.2008.08.009, 18819722.
    • (2008) Trends Genet , vol.24 , pp. 539-551
    • Kuzniar, A.1    van Ham, R.C.2    Pongor, S.3    Leunissen, J.A.4
  • 15
    • 41549093748 scopus 로고    scopus 로고
    • Genome-wide investigation reveals pathogen-specific and shared signatures in the response of Caenorhabditis elegans to infection
    • 10.1186/gb-2007-8-9-r194, 2375032, 17875205
    • Wong D, Bazopoulou D, Pujol N, Tavernarakis N, Ewbank JJ. Genome-wide investigation reveals pathogen-specific and shared signatures in the response of Caenorhabditis elegans to infection. Genome Biol 2007, 8:R194. 10.1186/gb-2007-8-9-r194, 2375032, 17875205.
    • (2007) Genome Biol , vol.8
    • Wong, D.1    Bazopoulou, D.2    Pujol, N.3    Tavernarakis, N.4    Ewbank, J.J.5
  • 19
    • 0344719188 scopus 로고    scopus 로고
    • Caenorhabditis elegans has scores of hedgehog-related genes: sequence and expression analysis
    • 10.1101/gr.9.10.909, 10523520
    • Aspock G, Kagoshima H, Niklaus G, Burglin TR. Caenorhabditis elegans has scores of hedgehog-related genes: sequence and expression analysis. Genome Res 1999, 9:909-923. 10.1101/gr.9.10.909, 10523520.
    • (1999) Genome Res , vol.9 , pp. 909-923
    • Aspock, G.1    Kagoshima, H.2    Niklaus, G.3    Burglin, T.R.4
  • 21
    • 55249084960 scopus 로고    scopus 로고
    • Neuropeptides
    • Li C, Kim K. Neuropeptides. WormBook 2008, 1-36.
    • (2008) WormBook , pp. 1-36
    • Li, C.1    Kim, K.2
  • 22
    • 58149202169 scopus 로고    scopus 로고
    • The Transporter Classification Database: recent advances
    • 10.1093/nar/gkn862, 2686586, 19022853
    • Saier MH, Yen MR, Noto K, Tamang DG, Elkan C. The Transporter Classification Database: recent advances. Nucleic Acids Res 2009, 37:D274-D278. 10.1093/nar/gkn862, 2686586, 19022853.
    • (2009) Nucleic Acids Res , vol.37
    • Saier, M.H.1    Yen, M.R.2    Noto, K.3    Tamang, D.G.4    Elkan, C.5
  • 23
    • 34249813137 scopus 로고    scopus 로고
    • The nicotinic acetylcholine receptor gene family of the nematode Caenorhabditis elegans: an update on nomenclature
    • 10.1007/s10158-007-0049-z, 2972647, 17503100
    • Jones AK, Davis P, Hodgkin J, Sattelle DB. The nicotinic acetylcholine receptor gene family of the nematode Caenorhabditis elegans: an update on nomenclature. Invert Neurosci 2007, 7:129-131. 10.1007/s10158-007-0049-z, 2972647, 17503100.
    • (2007) Invert Neurosci , vol.7 , pp. 129-131
    • Jones, A.K.1    Davis, P.2    Hodgkin, J.3    Sattelle, D.B.4
  • 25
    • 7444224600 scopus 로고    scopus 로고
    • Expression analysis of ABC transporters reveals differential functions of tandemly duplicated genes in Caenorhabditis elegans
    • 10.1016/j.jmb.2004.09.052, 15522294
    • Zhao Z, Sheps JA, Ling V, Fang LL, Baillie DL. Expression analysis of ABC transporters reveals differential functions of tandemly duplicated genes in Caenorhabditis elegans. J Mol Biol 2004, 344:409-417. 10.1016/j.jmb.2004.09.052, 15522294.
    • (2004) J Mol Biol , vol.344 , pp. 409-417
    • Zhao, Z.1    Sheps, J.A.2    Ling, V.3    Fang, L.L.4    Baillie, D.L.5
  • 26
    • 2942546038 scopus 로고    scopus 로고
    • Cell adhesion receptors in C. elegans
    • 10.1242/jcs.01177, 15090591
    • Cox EA, Tuskey C, Hardin J. Cell adhesion receptors in C. elegans. J Cell Sci 2004, 117:1867-1870. 10.1242/jcs.01177, 15090591.
    • (2004) J Cell Sci , vol.117 , pp. 1867-1870
    • Cox, E.A.1    Tuskey, C.2    Hardin, J.3
  • 27
    • 34848856766 scopus 로고    scopus 로고
    • Shedding of collagen XXIII is mediated by furin and depends on the plasma membrane microenvironment
    • 10.1074/jbc.M703425200, 17627939
    • Veit G, Zimina EP, Franzke CW, Kutsch S, Siebolds U, Gordon MK, Bruckner-Tuderman L, Koch M. Shedding of collagen XXIII is mediated by furin and depends on the plasma membrane microenvironment. J Biol Chem 2007, 282:27424-27435. 10.1074/jbc.M703425200, 17627939.
    • (2007) J Biol Chem , vol.282 , pp. 27424-27435
    • Veit, G.1    Zimina, E.P.2    Franzke, C.W.3    Kutsch, S.4    Siebolds, U.5    Gordon, M.K.6    Bruckner-Tuderman, L.7    Koch, M.8
  • 28
    • 79955934878 scopus 로고    scopus 로고
    • A comprehensive analysis of gene expression changes provoked by bacterial and fungal infection in C. elegans
    • 10.1371/journal.pone.0019055, 3094335, 21602919
    • Engelmann I, Griffon A, Tichit L, Montanana-Sanchis F, Wang G, Reinke V, Waterston RH, Hillier LW, Ewbank JJ. A comprehensive analysis of gene expression changes provoked by bacterial and fungal infection in C. elegans. PLoS One 2011, 6:e19055. 10.1371/journal.pone.0019055, 3094335, 21602919.
    • (2011) PLoS One , vol.6
    • Engelmann, I.1    Griffon, A.2    Tichit, L.3    Montanana-Sanchis, F.4    Wang, G.5    Reinke, V.6    Waterston, R.H.7    Hillier, L.W.8    Ewbank, J.J.9
  • 29
    • 41149166559 scopus 로고    scopus 로고
    • The Fat-like cadherin CDH-4 controls axon fasciculation, cell migration and hypodermis and pharynx development in Caenorhabditis elegans
    • 10.1016/j.ydbio.2008.01.024, 18328472
    • Schmitz C, Wacker I, Hutter H. The Fat-like cadherin CDH-4 controls axon fasciculation, cell migration and hypodermis and pharynx development in Caenorhabditis elegans. Dev Biol 2008, 316:249-259. 10.1016/j.ydbio.2008.01.024, 18328472.
    • (2008) Dev Biol , vol.316 , pp. 249-259
    • Schmitz, C.1    Wacker, I.2    Hutter, H.3
  • 30
    • 78049343926 scopus 로고    scopus 로고
    • The Flamingo ortholog FMI-1 controls pioneer-dependent navigation of follower axons in C. elegans
    • 10.1242/dev.054320, 2959053, 20876647
    • Steimel A, Wong L, Najarro EH, Ackley BD, Garriga G, Hutter H. The Flamingo ortholog FMI-1 controls pioneer-dependent navigation of follower axons in C. elegans. Development 2010, 137:3663-3673. 10.1242/dev.054320, 2959053, 20876647.
    • (2010) Development , vol.137 , pp. 3663-3673
    • Steimel, A.1    Wong, L.2    Najarro, E.H.3    Ackley, B.D.4    Garriga, G.5    Hutter, H.6
  • 31
    • 0037039163 scopus 로고    scopus 로고
    • The C. elegans hmr-1 gene can encode a neuronal classic cadherin involved in the regulation of axon fasciculation
    • 10.1016/S0960-9822(01)00624-8, 11790304
    • Broadbent ID, Pettitt J. The C. elegans hmr-1 gene can encode a neuronal classic cadherin involved in the regulation of axon fasciculation. Curr Biol 2002, 12:59-63. 10.1016/S0960-9822(01)00624-8, 11790304.
    • (2002) Curr Biol , vol.12 , pp. 59-63
    • Broadbent, I.D.1    Pettitt, J.2
  • 32
    • 0034820537 scopus 로고    scopus 로고
    • Interrelating different types of genomic data, from proteome to secretome: 'oming in on function
    • 10.1101/gr.207401, 11544189
    • Greenbaum D, Luscombe NM, Jansen R, Qian J, Gerstein M. Interrelating different types of genomic data, from proteome to secretome: 'oming in on function. Genome Res 2001, 11:1463-1468. 10.1101/gr.207401, 11544189.
    • (2001) Genome Res , vol.11 , pp. 1463-1468
    • Greenbaum, D.1    Luscombe, N.M.2    Jansen, R.3    Qian, J.4    Gerstein, M.5
  • 33
    • 3042521098 scopus 로고    scopus 로고
    • Improved prediction of signal peptides: SignalP 3.0
    • 10.1016/j.jmb.2004.05.028, 15223320
    • Bendtsen JD, Nielsen H, von Heijne G, Brunak S. Improved prediction of signal peptides: SignalP 3.0. J Mol Biol 2004, 340:783-795. 10.1016/j.jmb.2004.05.028, 15223320.
    • (2004) J Mol Biol , vol.340 , pp. 783-795
    • Bendtsen, J.D.1    Nielsen, H.2    von Heijne, G.3    Brunak, S.4
  • 34
    • 34248531753 scopus 로고    scopus 로고
    • Locating proteins in the cell using TargetP, SignalP and related tools
    • 10.1038/nprot.2007.131, 17446895
    • Emanuelsson O, Brunak S, von Heijne G, Nielsen H. Locating proteins in the cell using TargetP, SignalP and related tools. Nat Protoc 2007, 2:953-971. 10.1038/nprot.2007.131, 17446895.
    • (2007) Nat Protoc , vol.2 , pp. 953-971
    • Emanuelsson, O.1    Brunak, S.2    von Heijne, G.3    Nielsen, H.4
  • 35
    • 78449279166 scopus 로고    scopus 로고
    • Prediction of subcellular locations of proteins: where to proceed?
    • 10.1002/pmic.201000274, 21080490
    • Imai K, Nakai K. Prediction of subcellular locations of proteins: where to proceed?. Proteomics 2010, 10:3970-3983. 10.1002/pmic.201000274, 21080490.
    • (2010) Proteomics , vol.10 , pp. 3970-3983
    • Imai, K.1    Nakai, K.2
  • 36
    • 33746218840 scopus 로고    scopus 로고
    • Prediction of protein subcellular localization
    • 10.1002/prot.21018, 16752418
    • Yu CS, Chen YC, Lu CH, Hwang JK. Prediction of protein subcellular localization. Proteins 2006, 64:643-651. 10.1002/prot.21018, 16752418.
    • (2006) Proteins , vol.64 , pp. 643-651
    • Yu, C.S.1    Chen, Y.C.2    Lu, C.H.3    Hwang, J.K.4
  • 37
    • 84863866336 scopus 로고    scopus 로고
    • Golgi bypass: skirting around the heart of classical secretion
    • 10.1101/cshperspect.a005298, 21441587
    • Grieve AG, Rabouille C. Golgi bypass: skirting around the heart of classical secretion. Cold Spring Harb Perspect Biol 2011, 3:a005298. 10.1101/cshperspect.a005298, 21441587.
    • (2011) Cold Spring Harb Perspect Biol , vol.3
    • Grieve, A.G.1    Rabouille, C.2
  • 38
    • 77957329900 scopus 로고    scopus 로고
    • Pathways of unconventional protein secretion
    • 10.1016/j.copbio.2010.06.004, 20637599
    • Nickel W. Pathways of unconventional protein secretion. Curr Opin Biotechnol 2010, 21:621-626. 10.1016/j.copbio.2010.06.004, 20637599.
    • (2010) Curr Opin Biotechnol , vol.21 , pp. 621-626
    • Nickel, W.1
  • 39
    • 78650944520 scopus 로고    scopus 로고
    • APP processing in Alzheimer's disease
    • 10.1186/1756-6606-4-3, 3022812, 21214928
    • Zhang YW, Thompson R, Zhang H, Xu H. APP processing in Alzheimer's disease. Mol Brain 2011, 4:3. 10.1186/1756-6606-4-3, 3022812, 21214928.
    • (2011) Mol Brain , vol.4 , pp. 3
    • Zhang, Y.W.1    Thompson, R.2    Zhang, H.3    Xu, H.4
  • 41
    • 45549108810 scopus 로고    scopus 로고
    • The zebrafish secretome
    • 10.1089/zeb.2008.0529, 2738611,2738611, 18554177
    • Klee EW. The zebrafish secretome. Zebrafish 2008, 5:131-138. 10.1089/zeb.2008.0529, 2738611,2738611, 18554177.
    • (2008) Zebrafish , vol.5 , pp. 131-138
    • Klee, E.W.1
  • 45
    • 79957467830 scopus 로고    scopus 로고
    • OrthoList: A Compendium of C. elegans Genes with Human Orthologs
    • 10.1371/journal.pone.0020085, 3102077, 21647448
    • Shaye DD, Greenwald I. OrthoList: A Compendium of C. elegans Genes with Human Orthologs. PLoS One 2011, 6:e20085. 10.1371/journal.pone.0020085, 3102077, 21647448.
    • (2011) PLoS One , vol.6
    • Shaye, D.D.1    Greenwald, I.2
  • 46
    • 73649148725 scopus 로고    scopus 로고
    • Molecular basis for galactosylation of core fucose residues in invertebrates: identification of caenorhabditis elegans N-glycan core alpha1,6-fucoside beta1,4-galactosyltransferase GALT-1 as a member of a novel glycosyltransferase family
    • 10.1074/jbc.M109.058354, 2794738,2794738, 19858195
    • Titz A, Butschi A, Henrissat B, Fan YY, Hennet T, Razzazi-Fazeli E, Hengartner MO, Wilson IB, Kunzler M, Aebi M. Molecular basis for galactosylation of core fucose residues in invertebrates: identification of caenorhabditis elegans N-glycan core alpha1,6-fucoside beta1,4-galactosyltransferase GALT-1 as a member of a novel glycosyltransferase family. J Biol Chem 2009, 284:36223-36233. 10.1074/jbc.M109.058354, 2794738,2794738, 19858195.
    • (2009) J Biol Chem , vol.284 , pp. 36223-36233
    • Titz, A.1    Butschi, A.2    Henrissat, B.3    Fan, Y.Y.4    Hennet, T.5    Razzazi-Fazeli, E.6    Hengartner, M.O.7    Wilson, I.B.8    Kunzler, M.9    Aebi, M.10
  • 47
    • 25444459934 scopus 로고    scopus 로고
    • Lower rate of genomic variation identified in the trans-membrane domain of monoamine sub-class of Human G-Protein Coupled Receptors: the Human GPCR-DB Database
    • 10.1186/1471-2164-5-91, 538281, 15579207
    • Wahlestedt C, Brookes AJ, Mottagui-Tabar S. Lower rate of genomic variation identified in the trans-membrane domain of monoamine sub-class of Human G-Protein Coupled Receptors: the Human GPCR-DB Database. BMC Genomics 2004, 5:91. 10.1186/1471-2164-5-91, 538281, 15579207.
    • (2004) BMC Genomics , vol.5 , pp. 91
    • Wahlestedt, C.1    Brookes, A.J.2    Mottagui-Tabar, S.3
  • 49
    • 0037448528 scopus 로고    scopus 로고
    • Genome-wide RNAi analysis of Caenorhabditis elegans fat regulatory genes
    • 10.1038/nature01279, 12529643
    • Ashrafi K, Chang FY, Watts JL, Fraser AG, Kamath RS, Ahringer J, Ruvkun G. Genome-wide RNAi analysis of Caenorhabditis elegans fat regulatory genes. Nature 2003, 421:268-272. 10.1038/nature01279, 12529643.
    • (2003) Nature , vol.421 , pp. 268-272
    • Ashrafi, K.1    Chang, F.Y.2    Watts, J.L.3    Fraser, A.G.4    Kamath, R.S.5    Ahringer, J.6    Ruvkun, G.7
  • 50
    • 34548295310 scopus 로고    scopus 로고
    • Genome-wide analysis identifies a general requirement for polarity proteins in endocytic traffic
    • 10.1038/ncb1627, 17704769
    • Balklava Z, Pant S, Fares H, Grant BD. Genome-wide analysis identifies a general requirement for polarity proteins in endocytic traffic. Nat Cell Biol 2007, 9:1066-1073. 10.1038/ncb1627, 17704769.
    • (2007) Nat Cell Biol , vol.9 , pp. 1066-1073
    • Balklava, Z.1    Pant, S.2    Fares, H.3    Grant, B.D.4
  • 51
    • 58149194624 scopus 로고    scopus 로고
    • SMART 6: recent updates and new developments
    • 10.1093/nar/gkn808, 2686533, 18978020
    • Letunic I, Doerks T, Bork P. SMART 6: recent updates and new developments. Nucleic Acids Res 2009, 37:D229-D232. 10.1093/nar/gkn808, 2686533, 18978020.
    • (2009) Nucleic Acids Res , vol.37
    • Letunic, I.1    Doerks, T.2    Bork, P.3
  • 54
    • 71049162212 scopus 로고    scopus 로고
    • GExplore: a web server for integrated queries of protein domains, gene expression and mutant phenotypes
    • 10.1186/1471-2164-10-529, 2779824, 19917126
    • Hutter H, Ng MP, Chen N. GExplore: a web server for integrated queries of protein domains, gene expression and mutant phenotypes. BMC Genomics 2009, 10:529. 10.1186/1471-2164-10-529, 2779824, 19917126.
    • (2009) BMC Genomics , vol.10 , pp. 529
    • Hutter, H.1    Ng, M.P.2    Chen, N.3
  • 55
    • 70449356774 scopus 로고    scopus 로고
    • QuickGO: a web-based tool for Gene Ontology searching
    • 10.1093/bioinformatics/btp536, 2773257, 19744993
    • Binns D, Dimmer E, Huntley R, Barrell D, O'Donovan C, Apweiler R. QuickGO: a web-based tool for Gene Ontology searching. Bioinformatics 2009, 25:3045-3046. 10.1093/bioinformatics/btp536, 2773257, 19744993.
    • (2009) Bioinformatics , vol.25 , pp. 3045-3046
    • Binns, D.1    Dimmer, E.2    Huntley, R.3    Barrell, D.4    O'Donovan, C.5    Apweiler, R.6


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