메뉴 건너뛰기




Volumn 30, Issue 5, 2012, Pages 713-723

EST-derived SNP discovery and selective pressure analysis in Pacific white shrimp (Litopenaeus vannamei)

Author keywords

adaptive evolution; Darwinian selection; expressed sequence tag (EST); Litopenaeus vannamei; shrimp population genetics; single nucleotide polymorphism (SNP)

Indexed keywords


EID: 84867410391     PISSN: 02544059     EISSN: 19935005     Source Type: Journal    
DOI: 10.1007/s00343-012-1252-2     Document Type: Article
Times cited : (14)

References (49)
  • 1
    • 0344838601 scopus 로고    scopus 로고
    • Redundancy based detection of sequence polymorphisms in expressed sequence tag data using autoSNP
    • Barker G, Batley J, O'sullivan H, Edwards K J, Edwards D. 2003. Redundancy based detection of sequence polymorphisms in expressed sequence tag data using autoSNP. Bioinformatics, 19(3): 421-422.
    • (2003) Bioinformatics , vol.19 , Issue.3 , pp. 421-422
    • Barker, G.1    Batley, J.2    O'sullivan, H.3    Edwards, K.J.4    Edwards, D.5
  • 2
    • 0034001626 scopus 로고    scopus 로고
    • Population structure of the giant tiger prawn Penaeus monodon in Australian waters, determined using microsatellite markers
    • Brooker A L, Benzie J A H, Blair D, Versini J J. 2000. Population structure of the giant tiger prawn Penaeus monodon in Australian waters, determined using microsatellite markers. Marine Biology, 136(1): 149-157.
    • (2000) Marine Biology , vol.136 , Issue.1 , pp. 149-157
    • Brooker, A.L.1    Benzie, J.A.H.2    Blair, D.3    Versini, J.J.4
  • 6
    • 41549122156 scopus 로고    scopus 로고
    • Pervasive adaptive evolution in primate seminal proteins
    • Clark N L, Swanson W J. 2005. Pervasive adaptive evolution in primate seminal proteins. PLoS Genetics, 1(3): 335-342.
    • (2005) PLoS Genetics , vol.1 , Issue.3 , pp. 335-342
    • Clark, N.L.1    Swanson, W.J.2
  • 9
    • 58549085038 scopus 로고    scopus 로고
    • SNP discovery in Litopenaeus vannamei with a new computational pipeline
    • Gorbach D M, Hu Z L, Du Z Q, Rothschild M F. 2009. SNP discovery in Litopenaeus vannamei with a new computational pipeline. Animal Genetics, 40(1): 106-109.
    • (2009) Animal Genetics , vol.40 , Issue.1 , pp. 106-109
    • Gorbach, D.M.1    Hu, Z.L.2    Du, Z.Q.3    Rothschild, M.F.4
  • 10
    • 0032145764 scopus 로고    scopus 로고
    • Structure and associated mutational effects of the cysteine proteinase (CP1) gene of Drosophila melanogaster
    • Gray Y H M, Sved J A, Preston C R, Engels W R. 1998. Structure and associated mutational effects of the cysteine proteinase (CP1) gene of Drosophila melanogaster. Insect Molecular Biology, 7(3): 291-293.
    • (1998) Insect Molecular Biology , vol.7 , Issue.3 , pp. 291-293
    • Gray, Y.H.M.1    Sved, J.A.2    Preston, C.R.3    Engels, W.R.4
  • 11
    • 0034927549 scopus 로고    scopus 로고
    • Immune gene discovery by expressed sequence tag analysis of hemocytes and hepatopancreas in the Pacific White Shrimp, Litopenaeus vannamei, and the Atlantic White Shrimp, L. setiferus
    • Gross P S, Bartlett T C, Browdy C L, Chapman R W, Warr G W. 2001. Immune gene discovery by expressed sequence tag analysis of hemocytes and hepatopancreas in the Pacific White Shrimp, Litopenaeus vannamei, and the Atlantic White Shrimp, L. setiferus. Developmental and Comparative Immunology, 25(7): 565-577.
    • (2001) Developmental and Comparative Immunology , vol.25 , Issue.7 , pp. 565-577
    • Gross, P.S.1    Bartlett, T.C.2    Browdy, C.L.3    Chapman, R.W.4    Warr, G.W.5
  • 13
    • 34047264454 scopus 로고    scopus 로고
    • An extensive resource of single nucleotide polymorphism markers associated with Atlantic salmon (Salmo salar) expressed sequences
    • Hayes B, Laerdahl J K, Lien S, Moen T, Berg P, Hindar K, Davidson W S, Koop B F, Adzhubei A, Hoyheim B. 2007. An extensive resource of single nucleotide polymorphism markers associated with Atlantic salmon (Salmo salar) expressed sequences. Aquaculture, 265(1-4): 82-90.
    • (2007) Aquaculture , vol.265 , Issue.1-4 , pp. 82-90
    • Hayes, B.1    Laerdahl, J.K.2    Lien, S.3    Moen, T.4    Berg, P.5    Hindar, K.6    Davidson, W.S.7    Koop, B.F.8    Adzhubei, A.9    Hoyheim, B.10
  • 14
    • 0036184745 scopus 로고    scopus 로고
    • Generating samples under a Wright-Fisher neutral model of genetic variation
    • Hudson R R. 2002. Generating samples under a Wright-Fisher neutral model of genetic variation. Bioinformatics, 18(2): 337-338.
    • (2002) Bioinformatics , vol.18 , Issue.2 , pp. 337-338
    • Hudson, R.R.1
  • 15
    • 0031916833 scopus 로고    scopus 로고
    • HAH1 is a copper-binding protein with distinct amino acid residues mediating copper homeostasis and antioxidant defense
    • Hung I H, Casareno R L B, Labesse G, Mathews F S, Gitlin J D. 1998. HAH1 is a copper-binding protein with distinct amino acid residues mediating copper homeostasis and antioxidant defense. Journal of Biological Chemistry, 273(3): 1 749-1 754.
    • (1998) Journal of Biological Chemistry , vol.273 , Issue.3 , pp. 1749-1754
    • Hung, I.H.1    Casareno, R.L.B.2    Labesse, G.3    Mathews, F.S.4    Gitlin, J.D.5
  • 16
    • 34247490084 scopus 로고    scopus 로고
    • A screen for immunity genes evolving under positive selection in Drosophila
    • Jiggins F M, Kim K W. 2007. A screen for immunity genes evolving under positive selection in Drosophila. Journal of Evolutionary Biology, 20(3): 965-970.
    • (2007) Journal of Evolutionary Biology , vol.20 , Issue.3 , pp. 965-970
    • Jiggins, F.M.1    Kim, K.W.2
  • 17
    • 0033786787 scopus 로고    scopus 로고
    • Linkage disequilibrium and the search for complex disease genes
    • Jorde L B. 2000. Linkage disequilibrium and the search for complex disease genes. Genome Research, 10(10): 1 435-1 444.
    • (2000) Genome Research , vol.10 , Issue.10 , pp. 1435-1444
    • Jorde, L.B.1
  • 18
    • 0017368336 scopus 로고
    • Preponderance of synonymous changes as evidence for the neutral theory of molecular evolution
    • Kimura M. 1977. Preponderance of synonymous changes as evidence for the neutral theory of molecular evolution. Nature, 267(19): 275-276.
    • (1977) Nature , vol.267 , Issue.19 , pp. 275-276
    • Kimura, M.1
  • 19
    • 0031697439 scopus 로고    scopus 로고
    • Reading bits of genetic information: methods for single-nucleotide polymorphism analysis
    • Landegren U, Nilsson M, Kwok P Y. 1998. Reading bits of genetic information: methods for single-nucleotide polymorphism analysis. Genome Research, 8(8): 769-776.
    • (1998) Genome Research , vol.8 , Issue.8 , pp. 769-776
    • Landegren, U.1    Nilsson, M.2    Kwok, P.Y.3
  • 20
    • 0142120627 scopus 로고    scopus 로고
    • High frequency and large number of polymorphic Microsatellites in cultured shrimp, Penaeus (Litopenaeus) vannamei Crustacea: Decapoda
    • Meehan D, Xu Z K, Zuniga G, Alcivar-Warren A. 2003. High frequency and large number of polymorphic Microsatellites in cultured shrimp, Penaeus (Litopenaeus) vannamei Crustacea: Decapoda. Marine Biotechnology, 5(4): 311-330.
    • (2003) Marine Biotechnology , vol.5 , Issue.4 , pp. 311-330
    • Meehan, D.1    Xu, Z.K.2    Zuniga, G.3    Alcivar-Warren, A.4
  • 21
    • 0018415510 scopus 로고
    • Two types of amino acid substitutions in protein evolution
    • Miyata T, Miyazawa S, Yasunaga T. 1979. Two types of amino acid substitutions in protein evolution. Journal of Molecular Evolution, 12(3): 219-236.
    • (1979) Journal of Molecular Evolution , vol.12 , Issue.3 , pp. 219-236
    • Miyata, T.1    Miyazawa, S.2    Yasunaga, T.3
  • 23
    • 0033616743 scopus 로고    scopus 로고
    • The development and application of genetic markers for the Kuruma prawn Penaeus japonicus
    • Moore S S, Whan V, Davis G P, Byrne K, Hetzel D J S, Preston N. 1999. The development and application of genetic markers for the Kuruma prawn Penaeus japonicus. Aquaculture, 173(1-4): 19-32.
    • (1999) Aquaculture , vol.173 , Issue.1-4 , pp. 19-32
    • Moore, S.S.1    Whan, V.2    Davis, G.P.3    Byrne, K.4    Hetzel, D.J.S.5    Preston, N.6
  • 24
    • 58949096374 scopus 로고    scopus 로고
    • Assessing statistical power of SNPs for population structure and conservation studies
    • Morin P A, Martien K K, Taylor B L. 2009. Assessing statistical power of SNPs for population structure and conservation studies. Molecular Ecology Resources, 9(1): 66-73.
    • (2009) Molecular Ecology Resources , vol.9 , Issue.1 , pp. 66-73
    • Morin, P.A.1    Martien, K.K.2    Taylor, B.L.3
  • 25
    • 27944474033 scopus 로고    scopus 로고
    • Selectionism and neutralism in molecular evolution
    • Nei M. 2005. Selectionism and neutralism in molecular evolution. Molecular Biology and Evolution, 22(12): 2 318-2 342.
    • (2005) Molecular Biology and Evolution , vol.22 , Issue.12 , pp. 2318-2342
    • Nei, M.1
  • 26
    • 0033965571 scopus 로고    scopus 로고
    • Estimation of population parameters and recombination rates from single nucleotide polymorphisms
    • Nielsen R. 2000. Estimation of population parameters and recombination rates from single nucleotide polymorphisms. Genetics, 154(2): 931-942.
    • (2000) Genetics , vol.154 , Issue.2 , pp. 931-942
    • Nielsen, R.1
  • 32
    • 33747239595 scopus 로고    scopus 로고
    • A systematic search for positive selection in higher plants (Embryophytes)
    • Roth C, Liberles D A. 2006. A systematic search for positive selection in higher plants (Embryophytes). BMC Plant Biology, 6: 12.
    • (2006) BMC Plant Biology , vol.6 , pp. 12
    • Roth, C.1    Liberles, D.A.2
  • 34
    • 77949308936 scopus 로고    scopus 로고
    • Gene mapping in the wild with SNPs: guidelines and future directions (vol. 136, p.97, 2009)
    • Slate J, Gratten J, Beraldi D, Stapley J, Hale M, Pemberton J M. 2010. Gene mapping in the wild with SNPs: guidelines and future directions (vol. 136, p. 97, 2009). Genetica, 138(4): 467-467.
    • (2010) Genetica , vol.138 , Issue.4 , pp. 467
    • Slate, J.1    Gratten, J.2    Beraldi, D.3    Stapley, J.4    Hale, M.5    Pemberton, J.M.6
  • 35
    • 0037186564 scopus 로고    scopus 로고
    • Adaptive protein evolution in Drosophila
    • Smith N G C, Eyre-Walker A. 2002. Adaptive protein evolution in Drosophila. Nature, 415(6 875): 1 022-1 024.
    • (2002) Nature , vol.415 , Issue.6875 , pp. 1022-1024
    • Smith, N.G.C.1    Eyre-Walker, A.2
  • 37
    • 0035654137 scopus 로고    scopus 로고
    • Accessing genetic variation: genotyping single nucleotide polymorphisms
    • Syvanen A C. 2001. Accessing genetic variation: genotyping single nucleotide polymorphisms. Nature Reviews Genetics, 2(12): 930-942.
    • (2001) Nature Reviews Genetics , vol.2 , Issue.12 , pp. 930-942
    • Syvanen, A.C.1
  • 40
  • 43
    • 85047683172 scopus 로고    scopus 로고
    • The gifts that keep on giving: physiological functions and evolutionary dynamics of male seminal proteins in Drosophila
    • Wolfner M F. 2002. The gifts that keep on giving: physiological functions and evolutionary dynamics of male seminal proteins in Drosophila. Heredity, 88: 85-93.
    • (2002) Heredity , vol.88 , pp. 85-93
    • Wolfner, M.F.1
  • 44
    • 70449352813 scopus 로고    scopus 로고
    • Domestication of pacific white shrimp revolutionizes aquaculture
    • Wyban J. 2007. Domestication of pacific white shrimp revolutionizes aquaculture. Global Aquaculture Advocate, 10: 42-44.
    • (2007) Global Aquaculture Advocate , vol.10 , pp. 42-44
    • Wyban, J.1
  • 45
    • 0033639150 scopus 로고    scopus 로고
    • Statistical methods for detecting molecular adaptation
    • Yang Z, Bielawski J P. 2000. Statistical methods for detecting molecular adaptation. Trends in Ecology & Evolution, 15(12): 496-503.
    • (2000) Trends in Ecology & Evolution , vol.15 , Issue.12 , pp. 496-503
    • Yang, Z.1    Bielawski, J.P.2
  • 46
    • 0033979433 scopus 로고    scopus 로고
    • Estimating synonymous and nonsynonymous substitution rates under realistic evolutionary models
    • Yang Z H, Nielsen R. 2000. Estimating synonymous and nonsynonymous substitution rates under realistic evolutionary models. Molecular Biology and Evolution, 17(1): 32-43.
    • (2000) Molecular Biology and Evolution , vol.17 , Issue.1 , pp. 32-43
    • Yang, Z.H.1    Nielsen, R.2
  • 47
    • 33747169941 scopus 로고    scopus 로고
    • SNP analysis of molting related genes in Penaeus monodon and Litopenaeus vannamei shrimp (Brief report)
    • Yu M, Cheng Y, Rothschild M F. 2006. SNP analysis of molting related genes in Penaeus monodon and Litopenaeus vannamei shrimp (Brief report). Archiv Fur Tierzucht - Archives of Animal Breeding, 49(4): 411-412.
    • (2006) Archiv Fur Tierzucht - Archives of Animal Breeding , vol.49 , Issue.4 , pp. 411-412
    • Yu, M.1    Cheng, Y.2    Rothschild, M.F.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.