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Volumn 112, Issue , 2015, Pages 113-124

Transcriptomic and proteomic analyses of Amphiura filiformis arm tissue-undergoing regeneration

Author keywords

Amphiura filiformis; Proteomics; Regeneration; Transcriptomics

Indexed keywords

INTEGRIN; PROTEOME; TRANSCRIPTOME;

EID: 84907870577     PISSN: 18743919     EISSN: 18767737     Source Type: Journal    
DOI: 10.1016/j.jprot.2014.08.011     Document Type: Article
Times cited : (31)

References (52)
  • 1
    • 75549084880 scopus 로고    scopus 로고
    • Wound healing and arm regeneration in Ophioderma longicaudum and Amphiura filiformis (Ophiuroidea, Echinodermata): comparative morphogenesis and histogenesis
    • Biressi A.C.M., Zou T., Dupont S., Dahlberg C., Benedetto C.D., Bonasoro F., et al. Wound healing and arm regeneration in Ophioderma longicaudum and Amphiura filiformis (Ophiuroidea, Echinodermata): comparative morphogenesis and histogenesis. Zoomorphology 2010, 129:1-19.
    • (2010) Zoomorphology , vol.129 , pp. 1-19
    • Biressi, A.C.M.1    Zou, T.2    Dupont, S.3    Dahlberg, C.4    Benedetto, C.D.5    Bonasoro, F.6
  • 2
    • 0028996115 scopus 로고
    • Benthic marine fauna structured by hydrodynamic processes and food availability
    • Rosenberg R. Benthic marine fauna structured by hydrodynamic processes and food availability. Neth J Sea Res 1995, 34:303-317.
    • (1995) Neth J Sea Res , vol.34 , pp. 303-317
    • Rosenberg, R.1
  • 3
    • 0037029105 scopus 로고    scopus 로고
    • Observations and quantification of in situ animal sediment relations using time lapse sediment profile imagery (tSPI)
    • Solan M., Kennedy R. Observations and quantification of in situ animal sediment relations using time lapse sediment profile imagery (tSPI). Mar Ecol Prog Ser 2002, 228:179-191.
    • (2002) Mar Ecol Prog Ser , vol.228 , pp. 179-191
    • Solan, M.1    Kennedy, R.2
  • 4
    • 0002255204 scopus 로고
    • The behaviour of some amphiuroid brittle-stars
    • Woodley J.D. The behaviour of some amphiuroid brittle-stars. J Exp Mar Biol Ecol 1975, 18:29-46.
    • (1975) J Exp Mar Biol Ecol , vol.18 , pp. 29-46
    • Woodley, J.D.1
  • 5
    • 0029662832 scopus 로고    scopus 로고
    • Passive suspension feeding in Amphiura filiformis (Echinodermata: Ophiuroida): feeding behaviour in flume flow and potential feeding rate of field populations
    • Loo L.O., Jonson P.R., Sköld M., Karlsson O. Passive suspension feeding in Amphiura filiformis (Echinodermata: Ophiuroida): feeding behaviour in flume flow and potential feeding rate of field populations. Mar Ecol Prog Ser 1996, 139:143-155.
    • (1996) Mar Ecol Prog Ser , vol.139 , pp. 143-155
    • Loo, L.O.1    Jonson, P.R.2    Sköld, M.3    Karlsson, O.4
  • 6
    • 0030304832 scopus 로고    scopus 로고
    • Arm regeneration frequency in eight species of Ophiuroidea (Echinodermata) from European sea areas
    • Sköld M., Rosenberg R. Arm regeneration frequency in eight species of Ophiuroidea (Echinodermata) from European sea areas. J Sea Res 1996, 35:353-362.
    • (1996) J Sea Res , vol.35 , pp. 353-362
    • Sköld, M.1    Rosenberg, R.2
  • 8
    • 0033561287 scopus 로고    scopus 로고
    • Effect of hypoxia and organic enrichment on growth of the brittle stars Amphiura filiformis (O. F. Müller) and Amphiura chiajei (Forbes)
    • Nilsson H.C. Effect of hypoxia and organic enrichment on growth of the brittle stars Amphiura filiformis (O. F. Müller) and Amphiura chiajei (Forbes). J Exp Mar Biol Ecol 1999, 237:11-30.
    • (1999) J Exp Mar Biol Ecol , vol.237 , pp. 11-30
    • Nilsson, H.C.1
  • 9
    • 6344253295 scopus 로고    scopus 로고
    • Photoperiodic activity pattern in the brittle star Amphiura filiformis
    • Rosenberg R., Lundberg L. Photoperiodic activity pattern in the brittle star Amphiura filiformis. Mar Biol 2004, 145:651-656.
    • (2004) Mar Biol , vol.145 , pp. 651-656
    • Rosenberg, R.1    Lundberg, L.2
  • 10
    • 33750580712 scopus 로고    scopus 로고
    • Growth or differentiation? Adaptive regeneration in the brittlestar Amphiura filiformis
    • Dupont S., Thorndyke M. Growth or differentiation? Adaptive regeneration in the brittlestar Amphiura filiformis. J Exp Biol 2006, 209:3873-3881.
    • (2006) J Exp Biol , vol.209 , pp. 3873-3881
    • Dupont, S.1    Thorndyke, M.2
  • 12
    • 38349148764 scopus 로고    scopus 로고
    • Coelomic expression of a novel bone morphogenetic protein in regenerating arms of the brittle star Amphiura filiformis
    • Bannister R., McGonnell I.M., Graham A., Thorndyke M.C., Beesley P.W. Coelomic expression of a novel bone morphogenetic protein in regenerating arms of the brittle star Amphiura filiformis. Dev Genes Evol 2008, 218:33-38.
    • (2008) Dev Genes Evol , vol.218 , pp. 33-38
    • Bannister, R.1    McGonnell, I.M.2    Graham, A.3    Thorndyke, M.C.4    Beesley, P.W.5
  • 15
    • 43149115851 scopus 로고    scopus 로고
    • Velvet: Algorithms for de novo short read assembly using de Bruijn graphs
    • Zerbino D.R., Birney E. Velvet: Algorithms for de novo short read assembly using de Bruijn graphs. Genome Res 2008, 18:821-829.
    • (2008) Genome Res , vol.18 , pp. 821-829
    • Zerbino, D.R.1    Birney, E.2
  • 16
    • 84859768479 scopus 로고    scopus 로고
    • Oases: robust de novo RNA-seq assembly across the dynamic range of expression levels
    • Schulz M.H., Zerbino D.R., Vingron M., Birney E. Oases: robust de novo RNA-seq assembly across the dynamic range of expression levels. Bioinformatics 2012, 28:1086-1092.
    • (2012) Bioinformatics , vol.28 , pp. 1086-1092
    • Schulz, M.H.1    Zerbino, D.R.2    Vingron, M.3    Birney, E.4
  • 17
    • 0032849859 scopus 로고    scopus 로고
    • CAP3: A DNA sequence assembly program
    • Huang X., Madan A. CAP3: A DNA sequence assembly program. Genome Res 1999, 9:868-877.
    • (1999) Genome Res , vol.9 , pp. 868-877
    • Huang, X.1    Madan, A.2
  • 18
    • 77953623249 scopus 로고    scopus 로고
    • Proteomic profile of zebrafish brain based on Two-dimensional Gel electrophoresis matrix assisted laser desorption/ionization MS/MS analysis
    • Singh S.K., Sundaram C.S., Shanbhag S., Idris M.M. Proteomic profile of zebrafish brain based on Two-dimensional Gel electrophoresis matrix assisted laser desorption/ionization MS/MS analysis. Zebrafish 2010, 7:169-177.
    • (2010) Zebrafish , vol.7 , pp. 169-177
    • Singh, S.K.1    Sundaram, C.S.2    Shanbhag, S.3    Idris, M.M.4
  • 19
    • 78751655672 scopus 로고    scopus 로고
    • Proteome profile of zebrafish caudal fin based on one dimensional gel electrophoresis LCMS/MS and two-dimensional gel electrophoresis MALDI MS/MS analysis
    • Singh S.K., Lakshmi M.G., Saxena S., Swamy C.V.B., Idris M.M. Proteome profile of zebrafish caudal fin based on one dimensional gel electrophoresis LCMS/MS and two-dimensional gel electrophoresis MALDI MS/MS analysis. J Sep Sci 2011, 34:225-232.
    • (2011) J Sep Sci , vol.34 , pp. 225-232
    • Singh, S.K.1    Lakshmi, M.G.2    Saxena, S.3    Swamy, C.V.B.4    Idris, M.M.5
  • 20
    • 34250153590 scopus 로고
    • Field survey of the occurrence and significance of regeneration in Amphiura filiformis (Echinodermata: Ophiuroidea) from Galway Bay, west coast of Ireland
    • Bowmer T., Keegan B.F. Field survey of the occurrence and significance of regeneration in Amphiura filiformis (Echinodermata: Ophiuroidea) from Galway Bay, west coast of Ireland. Mar Biol 1983, 74:65-71.
    • (1983) Mar Biol , vol.74 , pp. 65-71
    • Bowmer, T.1    Keegan, B.F.2
  • 22
    • 0442321760 scopus 로고    scopus 로고
    • Cellular and molecular bases of arm regeneration in brittlestars
    • A.A. Balkema Publisers (Lisse), New Zealand. Balkema, Rotterdam, M. Barker (Ed.)
    • Thorndyke M.C., Patruno M., Moss C., Beesley P.W. Cellular and molecular bases of arm regeneration in brittlestars. Echinoderms 2000 2001, 323-326. A.A. Balkema Publisers (Lisse), New Zealand. Balkema, Rotterdam. M. Barker (Ed.).
    • (2001) Echinoderms 2000 , pp. 323-326
    • Thorndyke, M.C.1    Patruno, M.2    Moss, C.3    Beesley, P.W.4
  • 23
    • 23844455207 scopus 로고    scopus 로고
    • Afuni, a novel transforming growth factor-β gene is involved in arm regeneration by the brittle star Amphiura filiformis
    • Bannister R., McGonnell I.M., Graham A., Thorndyke M.C., Beesley P.W. Afuni, a novel transforming growth factor-β gene is involved in arm regeneration by the brittle star Amphiura filiformis. Dev Genes Evol 2005, 215:393-401.
    • (2005) Dev Genes Evol , vol.215 , pp. 393-401
    • Bannister, R.1    McGonnell, I.M.2    Graham, A.3    Thorndyke, M.C.4    Beesley, P.W.5
  • 25
    • 0034865229 scopus 로고    scopus 로고
    • Regeneration neurohormones and growth factors in echinoderms
    • Thorndyke M.C., Candia Carnevali M.D. Regeneration neurohormones and growth factors in echinoderms. Can J Zool 2001, 79:1171-1208.
    • (2001) Can J Zool , vol.79 , pp. 1171-1208
    • Thorndyke, M.C.1    Candia Carnevali, M.D.2
  • 26
    • 0001263380 scopus 로고
    • Arro-regeneration bei Amphiura filiformis (Ophiuroidea)
    • Salzwedel H. Arro-regeneration bei Amphiura filiformis (Ophiuroidea). Veröff Inst Meeresforsch Bremerh 1974, 14:161-167.
    • (1974) Veröff Inst Meeresforsch Bremerh , vol.14 , pp. 161-167
    • Salzwedel, H.1
  • 27
    • 0001859149 scopus 로고
    • The biology and ecology of Amphioplus coniortodes, Ophionepthys limicola and Micropholis gracillima (Ophiuroidea: Amphiuridae)
    • Singletary R. The biology and ecology of Amphioplus coniortodes, Ophionepthys limicola and Micropholis gracillima (Ophiuroidea: Amphiuridae). Carib J Sci 1980, 16:39-55.
    • (1980) Carib J Sci , vol.16 , pp. 39-55
    • Singletary, R.1
  • 29
    • 0000253796 scopus 로고
    • Rate of arm regeneration and potential causes of arm loss in the feather star Florometra serratissima (Echinodermata: Crinoidea)
    • Mladenov P.V. Rate of arm regeneration and potential causes of arm loss in the feather star Florometra serratissima (Echinodermata: Crinoidea). Can J Zool 1983, 61:2873-2879.
    • (1983) Can J Zool , vol.61 , pp. 2873-2879
    • Mladenov, P.V.1
  • 31
    • 0000077892 scopus 로고
    • Effects of dise and arm Joss on regeneration by Microphiopholis gracillima (Echinodermata: Ophiuroidea) in nutrient-free seawater
    • Fielman K.T., Stancyk S.E., Dobson W.E., Clements L.A.J. Effects of dise and arm Joss on regeneration by Microphiopholis gracillima (Echinodermata: Ophiuroidea) in nutrient-free seawater. Mar Biol 1991, 111:121-127.
    • (1991) Mar Biol , vol.111 , pp. 121-127
    • Fielman, K.T.1    Stancyk, S.E.2    Dobson, W.E.3    Clements, L.A.J.4
  • 32
    • 0028322543 scopus 로고
    • Abundance and arm Joss of the infaunal brittlestar Ophiophragmus filograneus (Echinodermata: Ophiuroidea), with an experimental determination of regeneration rates in natural and planted seagrass beds
    • Clements L.A.J., Bell S.S., Kurdziel J.P. Abundance and arm Joss of the infaunal brittlestar Ophiophragmus filograneus (Echinodermata: Ophiuroidea), with an experimental determination of regeneration rates in natural and planted seagrass beds. Mar Biol 1994, 121:97-104.
    • (1994) Mar Biol , vol.121 , pp. 97-104
    • Clements, L.A.J.1    Bell, S.S.2    Kurdziel, J.P.3
  • 33
    • 0028163298 scopus 로고
    • Born to Jose. 1. Measures of tissue Joss and regeneration by the brittlestar Microphiopholis gracillima (Echinodermata: Ophiuroidea)
    • Stancyk S.E., Golde H.M., Pape-Lindstrom P.A., Dobson W.E. Born to Jose. 1. Measures of tissue Joss and regeneration by the brittlestar Microphiopholis gracillima (Echinodermata: Ophiuroidea). Mar Biol 1994, 118:415-462.
    • (1994) Mar Biol , vol.118 , pp. 415-462
    • Stancyk, S.E.1    Golde, H.M.2    Pape-Lindstrom, P.A.3    Dobson, W.E.4
  • 34
    • 0031016797 scopus 로고    scopus 로고
    • Transforming growth factor βs and wound healing
    • O'Kane S., Ferguson M.J.W. Transforming growth factor βs and wound healing. Int J Biochem Cell Biol 1997, 29:63-78.
    • (1997) Int J Biochem Cell Biol , vol.29 , pp. 63-78
    • O'Kane, S.1    Ferguson, M.J.W.2
  • 35
    • 0038300814 scopus 로고    scopus 로고
    • Anbmp2/4 is a new member of the transforming growth factor-β superfamily isolated from a crinoid and involved in regeneration
    • Patruno M., McGonnell I.M., Graham A., Beesley P.W., Candia Carnevali M.D., Thorndyke M.C. Anbmp2/4 is a new member of the transforming growth factor-β superfamily isolated from a crinoid and involved in regeneration. Proc R Soc Lond B 2003, 270:1341-1347.
    • (2003) Proc R Soc Lond B , vol.270 , pp. 1341-1347
    • Patruno, M.1    McGonnell, I.M.2    Graham, A.3    Beesley, P.W.4    Candia Carnevali, M.D.5    Thorndyke, M.C.6
  • 36
  • 37
    • 0019887986 scopus 로고
    • Characterization of eukaryotic initiation factor 2 containing two polypeptide chains of Mr=48,000 and 38,000
    • Chaudhuri A., Stringer E.A., Valenzuela D., Maitra U. Characterization of eukaryotic initiation factor 2 containing two polypeptide chains of Mr=48,000 and 38,000. J Biol Chem 1981, 256:3988-3994.
    • (1981) J Biol Chem , vol.256 , pp. 3988-3994
    • Chaudhuri, A.1    Stringer, E.A.2    Valenzuela, D.3    Maitra, U.4
  • 38
    • 26944435515 scopus 로고    scopus 로고
    • Pi release from eIF2, not GTP hydrolysis, is the step controlled by start-site selection during eukaryotic translation initiation
    • Algire M.A., Maag D., Lorsch J.R. Pi release from eIF2, not GTP hydrolysis, is the step controlled by start-site selection during eukaryotic translation initiation. Mol Cell 2005, 20:251-262.
    • (2005) Mol Cell , vol.20 , pp. 251-262
    • Algire, M.A.1    Maag, D.2    Lorsch, J.R.3
  • 39
    • 0347123543 scopus 로고    scopus 로고
    • GTP-dependent recognition of the methionine moiety on initiator tRNA by translation factor eIF2
    • Kappa L.D., Lorsch J.R. GTP-dependent recognition of the methionine moiety on initiator tRNA by translation factor eIF2. J Mol Biol 2004, 335:923-936.
    • (2004) J Mol Biol , vol.335 , pp. 923-936
    • Kappa, L.D.1    Lorsch, J.R.2
  • 40
    • 0023818516 scopus 로고
    • The effect of Mg2+ and guanine nucleotide exchange factor on the binding of guanine nucleotides to eukaryotic initiation factor 2
    • Panniers R., Rowlands A.G., Henshaw E.C. The effect of Mg2+ and guanine nucleotide exchange factor on the binding of guanine nucleotides to eukaryotic initiation factor 2. J Biol Chem 1988, 263:5519-5525.
    • (1988) J Biol Chem , vol.263 , pp. 5519-5525
    • Panniers, R.1    Rowlands, A.G.2    Henshaw, E.C.3
  • 41
    • 0036846237 scopus 로고    scopus 로고
    • Direct eIF2-eIF3 contact in the multifactor complex is important for translation initiation in vivo
    • Valásek L., Nielsen K.H., Hinnebusch A.G. Direct eIF2-eIF3 contact in the multifactor complex is important for translation initiation in vivo. EMBO J 2002, 21:5886-5898.
    • (2002) EMBO J , vol.21 , pp. 5886-5898
    • Valásek, L.1    Nielsen, K.H.2    Hinnebusch, A.G.3
  • 42
    • 0033580851 scopus 로고    scopus 로고
    • Distinct functions of eukaryotic translation initiation factors eIF1A andeIF3 in the formation of the 40S ribosomal preinitiation complex
    • Chaudhuri J., Chowdhury D., Maitra U. Distinct functions of eukaryotic translation initiation factors eIF1A andeIF3 in the formation of the 40S ribosomal preinitiation complex. J Biol Chem 1999, 274:17975-17980.
    • (1999) J Biol Chem , vol.274 , pp. 17975-17980
    • Chaudhuri, J.1    Chowdhury, D.2    Maitra, U.3
  • 43
    • 0035355352 scopus 로고    scopus 로고
    • A subcomplex of three eIF3 subunits binds eIF1 and eIF5 and stimulates ribosome binding of mRNA and tRNA(i)Met
    • Phan L., Schoenfeld L.W., Valásek L., Nielsen K.H., Hinnebusch A.G. A subcomplex of three eIF3 subunits binds eIF1 and eIF5 and stimulates ribosome binding of mRNA and tRNA(i)Met. EMBO J 2001, 20:2954-2965.
    • (2001) EMBO J , vol.20 , pp. 2954-2965
    • Phan, L.1    Schoenfeld, L.W.2    Valásek, L.3    Nielsen, K.H.4    Hinnebusch, A.G.5
  • 44
    • 65649146879 scopus 로고    scopus 로고
    • The mechanical integrin cycle
    • Puklin-Faucher E., Sheetz M.P. The mechanical integrin cycle. J Cell Sci 2009, 122:179-186.
    • (2009) J Cell Sci , vol.122 , pp. 179-186
    • Puklin-Faucher, E.1    Sheetz, M.P.2
  • 45
    • 4644328892 scopus 로고    scopus 로고
    • Paxillin: adapting to change
    • Brown M.C., Turner C.E. Paxillin: adapting to change. Physiol Rev 2004, 84:1315-1339.
    • (2004) Physiol Rev , vol.84 , pp. 1315-1339
    • Brown, M.C.1    Turner, C.E.2
  • 46
    • 0037509990 scopus 로고    scopus 로고
    • Focal adhesion kinase: the first ten years
    • Parsons J.T. Focal adhesion kinase: the first ten years. J Cell Sci 2003, 116:1409-1416.
    • (2003) J Cell Sci , vol.116 , pp. 1409-1416
    • Parsons, J.T.1
  • 47
  • 48
    • 0037145037 scopus 로고    scopus 로고
    • Integrins: bidirectional, allosteric signaling machines
    • Hynes R.O. Integrins: bidirectional, allosteric signaling machines. Cell 2002, 110:673-687.
    • (2002) Cell , vol.110 , pp. 673-687
    • Hynes, R.O.1
  • 49
    • 84865853792 scopus 로고    scopus 로고
    • Heterochronic activation of VEGF signaling and the evolution of the skeleton in echinoderm pluteus larvae
    • Morino Y., Koga H., Tachibana K., Shoguchi E., Kiyomoto M., Wada H. Heterochronic activation of VEGF signaling and the evolution of the skeleton in echinoderm pluteus larvae. Evol Dev 2012, 14:428-436.
    • (2012) Evol Dev , vol.14 , pp. 428-436
    • Morino, Y.1    Koga, H.2    Tachibana, K.3    Shoguchi, E.4    Kiyomoto, M.5    Wada, H.6
  • 50
    • 17744377218 scopus 로고    scopus 로고
    • Signal-transduction pathways that regulate visceral smooth muscle function. III. Coupling of muscarinic receptors to signaling kinases and effector proteins in gastrointestinal smooth muscles
    • Gerthoffer W.T. Signal-transduction pathways that regulate visceral smooth muscle function. III. Coupling of muscarinic receptors to signaling kinases and effector proteins in gastrointestinal smooth muscles. Am J Physiol Gastrointest Liver Physiol 2005, 288(5):G849-G853.
    • (2005) Am J Physiol Gastrointest Liver Physiol , vol.288 , Issue.5 , pp. G849-G853
    • Gerthoffer, W.T.1
  • 51
    • 0026764692 scopus 로고
    • Eicosanoid mediated contractility of hepatic stellate cells
    • Kawada N., Klein H., Decker K. Eicosanoid mediated contractility of hepatic stellate cells. Biochem J 1992, 285:367-371.
    • (1992) Biochem J , vol.285 , pp. 367-371
    • Kawada, N.1    Klein, H.2    Decker, K.3


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