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Volumn 30, Issue 10, 2013, Pages 877-888

An in-silico genomic survey to annotate genes coding for early development-relevant signaling molecules in the pearl oyster, Pinctada fucata

Author keywords

Ancestral protostome; Early development; Lophotrochozoans; Pearl oyster; Signaling molecules

Indexed keywords

FIBROBLAST GROWTH FACTOR; PLATELET DERIVED GROWTH FACTOR; SONIC HEDGEHOG PROTEIN; TRANSFORMING GROWTH FACTOR BETA; VASCULOTROPIN A;

EID: 84885983472     PISSN: 02890003     EISSN: None     Source Type: Journal    
DOI: 10.2108/zsj.30.877     Document Type: Review
Times cited : (9)

References (50)
  • 1
    • 0344719188 scopus 로고    scopus 로고
    • Caenorhabditis elegans has scores of hedgehog-related genes: Sequence and expression analysis
    • Aspöck G, Kagoshima H, Niklaus G, Bürglin TR (1999) Caenorhabditis elegans has scores of hedgehog-related genes: Sequence and expression analysis. Genome Res 9: 909-923
    • (1999) Genome Res , vol.9 , pp. 909-923
    • Aspöck, G.1    Kagoshima, H.2    Niklaus, G.3    Bürglin, T.R.4
  • 2
    • 0037093507 scopus 로고    scopus 로고
    • Three habits of highly effective signaling pathways: Principles of transcriptional control by developmental cell signaling
    • Barolo S, Posakony JW (2002) Three habits of highly effective signaling pathways: Principles of transcriptional control by developmental cell signaling. Genes Dev 16: 1167-1181
    • (2002) Genes Dev , vol.16 , pp. 1167-1181
    • Barolo, S.1    Posakony, J.W.2
  • 4
    • 0037155683 scopus 로고    scopus 로고
    • Developmental control of blood cell migration by the drosophila vegf pathway
    • Cho NK, Keyes L, Johnson E, Heller J, Ryner L, Karim F, Krasnow MA (2002) Developmental control of blood cell migration by the Drosophila VEGF pathway. Cell 108: 865-876
    • (2002) Cell , vol.108 , pp. 865-876
    • Cho, N.K.1    Keyes, L.2    Johnson, E.3    Heller, J.4    Ryner, L.5    Karim, F.6    Krasnow, M.A.7
  • 7
    • 0035812719 scopus 로고    scopus 로고
    • Guidance of cell migration by the Drosophila PDGF/VEGF receptor
    • Duchek P, Somogyi K, Jékely G, Beccari S, Rørth P (2001) Guidance of cell migration by the Drosophila PDGF/VEGF receptor. Cell 107: 17-26
    • (2001) Cell , vol.107 , pp. 17-26
    • Duchek, P.1    Somogyi, K.2    Jékely, G.3    Beccari, S.4    Rørth, P.5
  • 8
    • 79959806595 scopus 로고    scopus 로고
    • Identification of genes directly involved in shell formation and their functions in pearl oyster, pinctada fucata
    • Fang D, Xu G, Hu Y, Pan C, Xie L, Zhang R (2011) Identification of genes directly involved in shell formation and their functions in pearl oyster, Pinctada fucata. PLoS One 6: E21860
    • (2011) PLoS One , vol.6
    • Fang, D.1    Xu, G.2    Hu, Y.3    Pan, C.4    Xie, L.5    Zhang, R.6
  • 9
    • 33846609627 scopus 로고
    • Development and morphology of the pearl oyster larvae pinctada fucata
    • (in Japanese
    • Fujimura T, Wada K, Iwaki T (1995) Development and morphology of the pearl oyster larvae, Pinctada fucata. Venus 54: 25-48 (in Japanese
    • (1995) Venus , vol.54 , pp. 25-48
    • Fujimura, T.1    Wada, K.2    Iwaki, T.3
  • 11
    • 60549099164 scopus 로고    scopus 로고
    • Nodal signalling is involved in left-right asymmetry in snails
    • Grande C, Patel NH (2009) Nodal signalling is involved in left-right asymmetry in snails. Nature 457: 1007-1011
    • (2009) Nature , vol.457 , pp. 1007-1011
    • Grande, C.1    Patel, N.H.2
  • 13
    • 33751172146 scopus 로고    scopus 로고
    • Comprehensive analysis of gene expression patterns of hedgehog-related genes
    • Hao L, Johnsen R, Lauter G, Baillie D, Bürglin TR (2006) Comprehensive analysis of gene expression patterns of hedgehog-related genes. BMC Genomics 7: 280
    • (2006) BMC Genomics , vol.7 , pp. 280
    • Hao, L.1    Johnsen, R.2    Lauter, G.3    Baillie, D.4    Bürglin, T.R.5
  • 15
    • 14844357211 scopus 로고    scopus 로고
    • The vascular endothelial growth factor (VEGF) family: Angiogenic factors in health and disease
    • Holmes DIR, Zachary I (2005) The vascular endothelial growth factor (VEGF) family: Angiogenic factors in health and disease. Genome Biol 6: 209
    • (2005) Genome Biol , vol.6 , pp. 209
    • Holmes, D.I.R.1    Zachary, I.2
  • 16
    • 18144421574 scopus 로고    scopus 로고
    • FGF signaling in flies and worms: More and more relevant to vertebrate biology
    • Huang P, Stern MJ (2005) FGF signaling in flies and worms: More and more relevant to vertebrate biology. Cytokine Growth Factor Rev 16: 151-158
    • (2005) Cytokine Growth Factor Rev , vol.16 , pp. 151-158
    • Huang, P.1    Stern, M.J.2
  • 19
    • 79956308325 scopus 로고    scopus 로고
    • Mechanisms and functions of Hedgehog signaling across the metazoan
    • Ingham PW, Nakano Y, Seger C (2011) Mechanisms and functions of Hedgehog signaling across the metazoan. Nat Rev Genet 12: 393-406
    • (2011) Nat Rev Genet , vol.12 , pp. 393-406
    • Ingham, P.W.1    Nakano, Y.2    Seger, C.3
  • 20
    • 78649494728 scopus 로고    scopus 로고
    • Conservation, loss, and redeployment of Wnt ligands in protostomes: Implications for understanding the evolution of segment formation
    • Janssen R, Le Gouar M, Pechmann M, Poulin F, Bolognesi R, Schwager EE, et al. (2010) Conservation, loss, and redeployment of Wnt ligands in protostomes: Implications for understanding the evolution of segment formation. BMC Evol Biol 10: 374
    • (2010) BMC Evol Biol , vol.10 , pp. 374
    • Janssen, R.1    Le Gouar, M.2    Pechmann, M.3    Poulin, F.4    Bolognesi, R.5    Schwager, E.E.6
  • 21
    • 65549142248 scopus 로고    scopus 로고
    • FGF ligands in Drosophila have distinct activities required to support cell migration and differentiation
    • Kadam S, McMahon A, Tzou P, Stathopoulos A (2009) FGF ligands in Drosophila have distinct activities required to support cell migration and differentiation. Development 136: 739-747
    • (2009) Development , vol.136 , pp. 739-747
    • Kadam, S.1    McMahon, A.2    Tzou, P.3    Stathopoulos, A.4
  • 22
    • 64049084625 scopus 로고    scopus 로고
    • Novel role for dpp in the shaping of bivalve shells revealed in a conserved mollusk developmental program
    • Kin K, Kakoi S, Wada H (2009) Novel role for dpp in the shaping of bivalve shells revealed in a conserved mollusk developmental program. Dev Biol 329: 152-166
    • (2009) Dev Biol , vol.329 , pp. 152-166
    • Kin, K.1    Kakoi, S.2    Wada, H.3
  • 23
    • 79959426005 scopus 로고    scopus 로고
    • Deep sequencing of ESTs from nacreous and prismatic layer producing tissues and a screen for novel shell formation-related genes in the pearl oyster
    • Kinoshita S, Wang N, Inoue H, Maeyama K, Okamoto K, Nagai K, et al. (2011) Deep sequencing of ESTs from nacreous and prismatic layer producing tissues and a screen for novel shell formation-related genes in the pearl oyster. PLoS One 6: E21238
    • (2011) PLoS One , vol.6
    • Kinoshita, S.1    Wang, N.2    Inoue, H.3    Maeyama, K.4    Okamoto, K.5    Nagai, K.6
  • 25
    • 84862221167 scopus 로고    scopus 로고
    • SMART 7: Recent updates to the protein domain annotation resource
    • Letunic I, Doerks T, Bork P (2012) SMART 7: Recent updates to the protein domain annotation resource. Nucl Acids Res 40: D302-D305
    • (2012) Nucl Acids Res , vol.40
    • Letunic, I.1    Doerks, T.2    Bork, P.3
  • 28
    • 37849027508 scopus 로고    scopus 로고
    • The Hedgehog gene family of the cnidarian nematostella vectensis, and implications for understanding metazoan hedgehog pathway evolution
    • Matus DQ, Magie CR, Pang K, Martindale MQ, Thomsen GH (2008) The Hedgehog gene family of the cnidarian, Nematostella vectensis, and implications for understanding metazoan Hedgehog pathway evolution. Dev Biol 313: 501-518
    • (2008) Dev Biol , vol.313 , pp. 501-518
    • Matus, D.Q.1    Magie, C.R.2    Pang, K.3    Martindale, M.Q.4    Thomsen, G.H.5
  • 29
    • 84863394504 scopus 로고    scopus 로고
    • Transcriptome analysis of biomineralisation-related genes within the pearl sac: Host and donor oyster contribution
    • McGinty EL, Zenger KR, Jones DB, Jerry DR (2012) Transcriptome analysis of biomineralisation-related genes within the pearl sac: Host and donor oyster contribution. Mar Genomics 5: 27-33
    • (2012) Mar Genomics , vol.5 , pp. 27-33
    • McGinty, E.L.1    Zenger, K.R.2    Jones, D.B.3    Jerry, D.R.4
  • 30
    • 0036067868 scopus 로고    scopus 로고
    • Expression of Patella vulgata orthologs of engrailed and dpp-BMP2/4 in adjacent domains during mollusk shell development suggests a conserved compartment boundary mechanism
    • Nederbragt AJ, van Loon AE, Dictus WJ (2002) Expression of Patella vulgata orthologs of engrailed and dpp-BMP2/4 in adjacent domains during mollusk shell development suggests a conserved compartment boundary mechanism. Dev Biol 246: 341-355
    • (2002) Dev Biol , vol.246 , pp. 341-355
    • Nederbragt, A.J.1    Van Loon, A.E.2    Dictus, W.J.3
  • 31
    • 84863586359 scopus 로고    scopus 로고
    • Essential role of Dkk3 for head formation by inhibiting Wnt/®-catenin and Nodal/Vg1 signaling pathways in the basal chordate amphioxus
    • Onai T, Takai A, Setiamarga DHE, Holland LZ (2012) Essential role of Dkk3 for head formation by inhibiting Wnt/®-catenin and Nodal/Vg1 signaling pathways in the basal chordate amphioxus. Evol Dev 14: 338-350
    • (2012) Evol Dev , vol.14 , pp. 338-350
    • Onai, T.1    Takai, A.2    Setiamarga, D.H.E.3    Holland, L.Z.4
  • 33
    • 42449090264 scopus 로고    scopus 로고
    • PROMALS3D: A tool for multiple sequence and structure alignment
    • Pei J, Kim BH, Grishin NV (2008) PROMALS3D: A tool for multiple sequence and structure alignment. Nucleic Acid Res 36: 2295-2300
    • (2008) Nucleic Acid Res , vol.36 , pp. 2295-2300
    • Pei, J.1    Kim, B.H.2    Grishin, N.V.3
  • 34
    • 0034756522 scopus 로고    scopus 로고
    • Identification of new signaling components in the Drosophila genome sequence
    • Pietrokovski S, Shilo BZ (2001) Identification of new signaling components in the Drosophila genome sequence. Funct Integr Genomics 1: 250-255
    • (2001) Funct Integr Genomics , vol.1 , pp. 250-255
    • Pietrokovski, S.1    Shilo, B.Z.2
  • 35
    • 0037223971 scopus 로고    scopus 로고
    • The evolution of signalling pathways in animal development
    • Pires-daSilva A, Sommer RJ (2003) The evolution of signalling pathways in animal development. Nat Rev Genet 4: 39-49
    • (2003) Nat Rev Genet , vol.4 , pp. 39-49
    • Pires-daSilva, A.1    Sommer, R.J.2
  • 36
    • 0032703582 scopus 로고    scopus 로고
    • The family of Caenorhabditis elegans tyrosine kinase receptors: Similarities and differences with mammalian receptors
    • Popovici C, Roubin R, Coulier F, Pontarotti P, Birnbaum D (1999) The family of Caenorhabditis elegans tyrosine kinase receptors: Similarities and differences with mammalian receptors. Genome Res 9: 1026-1039
    • (1999) Genome Res , vol.9 , pp. 1026-1039
    • Popovici, C.1    Roubin, R.2    Coulier, F.3    Pontarotti, P.4    Birnbaum, D.5
  • 37
    • 0037162646 scopus 로고    scopus 로고
    • Caenorhabditis elegans receptors related to mammalian vascular endothelial growth factor receptors are expressed in neural cells
    • Popovici C, Isnardon D, Birnbaum D, Roubin R (2002) Caenorhabditis elegans receptors related to mammalian vascular endothelial growth factor receptors are expressed in neural cells. Neurosci Lett 329: 116-120
    • (2002) Neurosci Lett , vol.329 , pp. 116-120
    • Popovici, C.1    Isnardon, D.2    Birnbaum, D.3    Roubin, R.4
  • 38
    • 73249130615 scopus 로고    scopus 로고
    • BMPs and chordin regulate patterning of the directive axis in a sea anemone
    • Saina M, Genikhovich G, Renfer E, Technau U (2009) BMPs and chordin regulate patterning of the directive axis in a sea anemone. Proc Natl Acad Sci U S A 106: 18592-18597
    • (2009) Proc Natl Acad Sci U S A , vol.106 , pp. 18592-18597
    • Saina, M.1    Genikhovich, G.2    Renfer, E.3    Technau, U.4
  • 39
    • 0033635089 scopus 로고    scopus 로고
    • A phylogenetic tree of the wnt genes based on all available full-length sequences, including five from the cephalochordate amphioxus
    • Schubert MJ, Holland LZ, Holland ND, Jacobs DK (2000) A phylogenetic tree of the wnt genes based on all available full-length sequences, including five from the cephalochordate amphioxus. Mol Biol Evol 17: 1898-1903
    • (2000) Mol Biol Evol , vol.17 , pp. 1898-1903
    • Schubert, M.J.1    Holland, L.Z.2    Holland, N.D.3    Jacobs, D.K.4
  • 40
    • 0032568655 scopus 로고    scopus 로고
    • SMART, a simple modular architecture research tool: Identification of signaling domains
    • Schultz J, Milpetz F, Bork P, Ponting CP (1998) SMART, a simple modular architecture research tool: Identification of signaling domains. Proc Natl Acad Sci U S A 95: 5857-5864
    • (1998) Proc Natl Acad Sci U S A , vol.95 , pp. 5857-5864
    • Schultz, J.1    Milpetz, F.2    Bork, P.3    Ponting, C.P.4
  • 42
    • 50249100595 scopus 로고    scopus 로고
    • A rapid bootstrap algorithm for the RAxML web-servers
    • Stamatakis A, Hoover J, Rougemont J (2008) A rapid bootstrap algorithm for the RAxML web-servers. Syst Biol 75: 758-771
    • (2008) Syst Biol , vol.75 , pp. 758-771
    • Stamatakis, A.1    Hoover, J.2    Rougemont, J.3
  • 43
    • 1842842204 scopus 로고    scopus 로고
    • Pyramus and thisbe: FGF genes that patterns the mesoderm of Drosophila embryos
    • Stathopoulos A, Tam B, Ronshaugen M, Frasch M, Levine M (2004) pyramus and thisbe: FGF genes that patterns the mesoderm of Drosophila embryos. Genes Dev 18: 687-699
    • (2004) Genes Dev , vol.18 , pp. 687-699
    • Stathopoulos, A.1    Tam, B.2    Ronshaugen, M.3    Frasch, M.4    Levine, M.5
  • 44
    • 39649088461 scopus 로고    scopus 로고
    • In vitro regulation of caco3 crystal polymorphism by the highly acidic mollusk shell protein aspein
    • Takeuchi T, Sarashina I, Iijima M, Endo K (2008) In vitro regulation of CaCO3 crystal polymorphism by the highly acidic mollusk shell protein Aspein. FEBS Lett 582: 591-596
    • (2008) FEBS Lett , vol.582 , pp. 591-596
    • Takeuchi, T.1    Sarashina, I.2    Iijima, M.3    Endo, K.4
  • 45
    • 84859700415 scopus 로고    scopus 로고
    • Draft genome of the pearl oyster Pinctada fucata: A platform for understanding bivalve biology
    • Epub ahead of print
    • Takeuchi T, Kawashima T, Koyanagi R, Gyoja F, Tanaka M, Ikuta T, et al. (2012) Draft genome of the pearl oyster Pinctada fucata: A platform for understanding bivalve biology. DNA Res [Epub ahead of print]
    • (2012) DNA Res
    • Takeuchi, T.1    Kawashima, T.2    Koyanagi, R.3    Gyoja, F.4    Tanaka, M.5    Ikuta, T.6
  • 46
    • 79957613599 scopus 로고    scopus 로고
    • MEGA5: Molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods
    • Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S (2011) MEGA5: Molecular Evolutionary Genetics Analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28: 2731-2739
    • (2011) Mol Biol Evol , vol.28 , pp. 2731-2739
    • Tamura, K.1    Peterson, D.2    Peterson, N.3    Stecher, G.4    Nei, M.5    Kumar, S.6
  • 47
    • 42049120300 scopus 로고    scopus 로고
    • TGF signaling in Tribolium: Vertebrate-like components in a beetle
    • Van der Zee M, da Fonseca RN, Roth S (2008) TGF signaling in Tribolium: Vertebrate-like components in a beetle. Dev Genes Evol 218: 203-213
    • (2008) Dev Genes Evol , vol.218 , pp. 203-213
    • Van Der Zee, M.1    Da Fonseca, R.N.2    Roth, S.3
  • 48
    • 69549124650 scopus 로고    scopus 로고
    • Evolutionary origins of blastoporal expression and organizer activity of the vertebrate gastrula organizer gene lhx1 and its ancient metazoan paralog lhx3
    • Yasuoka Y, Kobayashi M, Kurokawa D, Akasaka K, Saiga H, Taira M (2009) Evolutionary origins of blastoporal expression and organizer activity of the vertebrate gastrula organizer gene lhx1 and its ancient metazoan paralog lhx3. Development 136: 2005-2014
    • (2009) Development , vol.136 , pp. 2005-2014
    • Yasuoka, Y.1    Kobayashi, M.2    Kurokawa, D.3    Akasaka, K.4    Saiga, H.5    Taira, M.6
  • 49
    • 84867088834 scopus 로고    scopus 로고
    • The oyster genome reveals stress adaptation and complexity of shell formation
    • Zhang G, Fang X, Guo X, Li L, Luo R, Xu F, et al. (2012) The oyster genome reveals stress adaptation and complexity of shell formation. Nature 490: 49-54
    • (2012) Nature , vol.490 , pp. 49-54
    • Zhang, G.1    Fang, X.2    Guo, X.3    Li, L.4    Luo, R.5    Xu, F.6
  • 50
    • 41649096155 scopus 로고    scopus 로고
    • Drosophila Activin-® and the Activin-like product Dawdle function redundantly to regulate proliferation in the larval brain
    • Zhu CC, Boonr JQ, Jensen PA, Hanna S, Podemski L, Locke J, et al. (2008) Drosophila Activin-® and the Activin-like product Dawdle function redundantly to regulate proliferation in the larval brain. Development 135: 513-521.
    • (2008) Development , vol.135 , pp. 513-521
    • Zhu, C.C.1    Boonr, J.Q.2    Jensen, P.A.3    Hanna, S.4    Podemski, L.5    Locke, J.6


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