메뉴 건너뛰기




Volumn 11, Issue 1, 2010, Pages

Comprehensive analysis of MHC class I genes from the U-, S-, and Z-lineages in Atlantic salmon

Author keywords

[No Author keywords available]

Indexed keywords

MAJOR HISTOCOMPATIBILITY ANTIGEN CLASS 1; BETAHISTINE; FISH PROTEIN;

EID: 77951195786     PISSN: None     EISSN: 14712164     Source Type: Journal    
DOI: 10.1186/1471-2164-11-154     Document Type: Article
Times cited : (46)

References (66)
  • 2
    • 20644439105 scopus 로고    scopus 로고
    • MHC class Ib molecules bridge innate and acquired immunity
    • 10.1038/nri1635, 15928678
    • Rodgers JR, Cook RG. MHC class Ib molecules bridge innate and acquired immunity. Nat Rev Immunol 2005, 5:459-471. 10.1038/nri1635, 15928678.
    • (2005) Nat Rev Immunol , vol.5 , pp. 459-471
    • Rodgers, J.R.1    Cook, R.G.2
  • 3
    • 33847771291 scopus 로고    scopus 로고
    • A third broad lineage of major histocompatibility complex (MHC) class I in teleost fish; MHC class II linkage and processed genes
    • 10.1007/s00251-007-0198-6, 17318646
    • Dijkstra JM, Katagiri T, Hosomichi K, Yanagiya K, Inoko H, Ototake M, et al. A third broad lineage of major histocompatibility complex (MHC) class I in teleost fish; MHC class II linkage and processed genes. Immunogenetics 2007, 59:305-321. 10.1007/s00251-007-0198-6, 17318646.
    • (2007) Immunogenetics , vol.59 , pp. 305-321
    • Dijkstra, J.M.1    Katagiri, T.2    Hosomichi, K.3    Yanagiya, K.4    Inoko, H.5    Ototake, M.6
  • 4
    • 0032437570 scopus 로고    scopus 로고
    • Major histocompatibility genes in cyprinid fishes: theory and practice
    • 10.1111/j.1600-065X.1998.tb01271.x, 9914921
    • Stet RJ, Kruiswijk CP, Saeij JP, Wiegertjes GF. Major histocompatibility genes in cyprinid fishes: theory and practice. Immunol Rev 1998, 166:301-316. 10.1111/j.1600-065X.1998.tb01271.x, 9914921.
    • (1998) Immunol Rev , vol.166 , pp. 301-316
    • Stet, R.J.1    Kruiswijk, C.P.2    Saeij, J.P.3    Wiegertjes, G.F.4
  • 5
    • 0037103251 scopus 로고    scopus 로고
    • A novel functional class I lineage in zebrafish (Danio rerio), carp (Cyprinus carpio), and large barbus (Barbus intermedius) showing an unusual conservation of the peptide binding domains
    • Kruiswijk CP, Hermsen TT, Westphal AH, Savelkoul HF, Stet RJ. A novel functional class I lineage in zebrafish (Danio rerio), carp (Cyprinus carpio), and large barbus (Barbus intermedius) showing an unusual conservation of the peptide binding domains. J Immunol 2002, 169:1936-1947.
    • (2002) J Immunol , vol.169 , pp. 1936-1947
    • Kruiswijk, C.P.1    Hermsen, T.T.2    Westphal, A.H.3    Savelkoul, H.F.4    Stet, R.J.5
  • 6
    • 0025114444 scopus 로고
    • Isolation of carp genes encoding major histocompatibility complex antigens
    • 10.1073/pnas.87.17.6863, 54638, 2395879
    • Hashimoto K, Nakanishi T, Kurosawa Y. Isolation of carp genes encoding major histocompatibility complex antigens. Proc Natl Acad Sci USA 1990, 87:6863-6867. 10.1073/pnas.87.17.6863, 54638, 2395879.
    • (1990) Proc Natl Acad Sci USA , vol.87 , pp. 6863-6867
    • Hashimoto, K.1    Nakanishi, T.2    Kurosawa, Y.3
  • 7
    • 18744366617 scopus 로고    scopus 로고
    • The major histocompatibility class I locus in Atlantic salmon (Salmo salar L.): polymorphism, linkage analysis and protein modelling
    • 10.1007/s00251-002-0499-8, 12439620
    • Grimholt U, Drablos F, Jorgensen SM, Hoyheim B, Stet RJ. The major histocompatibility class I locus in Atlantic salmon (Salmo salar L.): polymorphism, linkage analysis and protein modelling. Immunogenetics 2002, 54:570-581. 10.1007/s00251-002-0499-8, 12439620.
    • (2002) Immunogenetics , vol.54 , pp. 570-581
    • Grimholt, U.1    Drablos, F.2    Jorgensen, S.M.3    Hoyheim, B.4    Stet, R.J.5
  • 8
    • 0345375438 scopus 로고    scopus 로고
    • Physical and genetic mapping of the rainbow trout major histocompatibility regions: evidence for duplication of the class I region
    • 10.1007/s00251-003-0615-4, 14566436
    • Phillips RB, Zimmerman A, Noakes MA, Palti Y, Morasch MR, Eiben L, et al. Physical and genetic mapping of the rainbow trout major histocompatibility regions: evidence for duplication of the class I region. Immunogenetics 2003, 55:561-569. 10.1007/s00251-003-0615-4, 14566436.
    • (2003) Immunogenetics , vol.55 , pp. 561-569
    • Phillips, R.B.1    Zimmerman, A.2    Noakes, M.A.3    Palti, Y.4    Morasch, M.R.5    Eiben, L.6
  • 9
    • 68149176813 scopus 로고    scopus 로고
    • Evolution of gene function and regulatory control after whole-genome duplication: comparative analyses in vertebrates
    • 10.1101/gr.086827.108, 2720184, 19439512
    • Kassahn KS, Dang VT, Wilkins SJ, Perkins AC, Ragan MA. Evolution of gene function and regulatory control after whole-genome duplication: comparative analyses in vertebrates. Genome Res 2009, 19:1404-1418. 10.1101/gr.086827.108, 2720184, 19439512.
    • (2009) Genome Res , vol.19 , pp. 1404-1418
    • Kassahn, K.S.1    Dang, V.T.2    Wilkins, S.J.3    Perkins, A.C.4    Ragan, M.A.5
  • 10
    • 0002590589 scopus 로고
    • Tetraploidy and the evolution of salmonid fishes
    • New York: Plenum, Turner BJ
    • Allendorf FW, Thorgaard GH. Tetraploidy and the evolution of salmonid fishes. Evolutionary Genetics of Fishes 1984, 1-53. New York: Plenum, Turner BJ.
    • (1984) Evolutionary Genetics of Fishes , pp. 1-53
    • Allendorf, F.W.1    Thorgaard, G.H.2
  • 11
    • 20144389207 scopus 로고    scopus 로고
    • Interchromosomal duplication of major histocompatibility complex class I regions in rainbow trout (Oncorhynchus mykiss), a species with a presumably recent tetraploid ancestry
    • 10.1007/s00251-004-0755-1, 15696305
    • Shiina T, Dijkstra JM, Shimizu S, Watanabe A, Yanagiya K, Kiryu I, et al. Interchromosomal duplication of major histocompatibility complex class I regions in rainbow trout (Oncorhynchus mykiss), a species with a presumably recent tetraploid ancestry. Immunogenetics 2005, 56:878-893. 10.1007/s00251-004-0755-1, 15696305.
    • (2005) Immunogenetics , vol.56 , pp. 878-893
    • Shiina, T.1    Dijkstra, J.M.2    Shimizu, S.3    Watanabe, A.4    Yanagiya, K.5    Kiryu, I.6
  • 12
    • 0033565720 scopus 로고    scopus 로고
    • Expression, linkage, and polymorphism of MHC-related genes in rainbow trout, Oncorhynchus mykiss
    • Hansen JD, Strassburger P, Thorgaard GH, Young WP, Du PL. Expression, linkage, and polymorphism of MHC-related genes in rainbow trout, Oncorhynchus mykiss. J Immunol 1999, 163:774-786.
    • (1999) J Immunol , vol.163 , pp. 774-786
    • Hansen, J.D.1    Strassburger, P.2    Thorgaard, G.H.3    Young, W.P.4    Du, P.L.5
  • 13
    • 34548475549 scopus 로고    scopus 로고
    • Genomic organization of duplicated major histocompatibility complex class I regions in Atlantic salmon (Salmo salar)
    • 10.1186/1471-2164-8-251, 1971071, 17651474
    • Lukacs MF, Harstad H, Grimholt U, Beetz-Sargent M, Cooper GA, Reid L, et al. Genomic organization of duplicated major histocompatibility complex class I regions in Atlantic salmon (Salmo salar). BMC Genomics 2007, 8:251. 10.1186/1471-2164-8-251, 1971071, 17651474.
    • (2007) BMC Genomics , vol.8 , pp. 251
    • Lukacs, M.F.1    Harstad, H.2    Grimholt, U.3    Beetz-Sargent, M.4    Cooper, G.A.5    Reid, L.6
  • 14
    • 7044274520 scopus 로고    scopus 로고
    • New MHC class Ia domain lineages in rainbow trout (Oncorhynchus mykiss) which are shared with other fish species
    • Kiryu I, Dijkstra JM, Sarder RI, Fujiwara A, Yoshiura Y, Ototake M. New MHC class Ia domain lineages in rainbow trout (Oncorhynchus mykiss) which are shared with other fish species. Fish Shellfish Immunol 2005, 18:243-254.
    • (2005) Fish Shellfish Immunol , vol.18 , pp. 243-254
    • Kiryu, I.1    Dijkstra, J.M.2    Sarder, R.I.3    Fujiwara, A.4    Yoshiura, Y.5    Ototake, M.6
  • 15
    • 33745772354 scopus 로고    scopus 로고
    • The salmonid MHC class I: more ancient loci uncovered
    • 10.1007/s00251-006-0125-2, 16794819
    • Miller KM, Li S, Ming TJ, Kaukinen KH, Schulze AD. The salmonid MHC class I: more ancient loci uncovered. Immunogenetics 2006, 58:571-589. 10.1007/s00251-006-0125-2, 16794819.
    • (2006) Immunogenetics , vol.58 , pp. 571-589
    • Miller, K.M.1    Li, S.2    Ming, T.J.3    Kaukinen, K.H.4    Schulze, A.D.5
  • 16
    • 0032934271 scopus 로고    scopus 로고
    • A divergent non-classical class I gene conserved in salmonids
    • 10.1007/s002510050524, 10380691
    • Shum BP, Rajalingam R, Magor KE, Azumi K, Carr WH, Dixon B, et al. A divergent non-classical class I gene conserved in salmonids. Immunogenetics 1999, 49:479-490. 10.1007/s002510050524, 10380691.
    • (1999) Immunogenetics , vol.49 , pp. 479-490
    • Shum, B.P.1    Rajalingam, R.2    Magor, K.E.3    Azumi, K.4    Carr, W.H.5    Dixon, B.6
  • 17
    • 60849126112 scopus 로고    scopus 로고
    • Distribution of ancestral proto-Actinopterygian chromosome arms within the genomes of 4R-derivative salmonid fishes (Rainbow trout and Atlantic salmon)
    • 10.1186/1471-2164-9-557, 2632648, 19032764
    • Danzmann RG, Davidson EA, Ferguson MM, Gharbi K, Koop BF, Hoyheim B, et al. Distribution of ancestral proto-Actinopterygian chromosome arms within the genomes of 4R-derivative salmonid fishes (Rainbow trout and Atlantic salmon). BMC Genomics 2008, 9:557. 10.1186/1471-2164-9-557, 2632648, 19032764.
    • (2008) BMC Genomics , vol.9 , pp. 557
    • Danzmann, R.G.1    Davidson, E.A.2    Ferguson, M.M.3    Gharbi, K.4    Koop, B.F.5    Hoyheim, B.6
  • 18
    • 69849109309 scopus 로고    scopus 로고
    • Assignment of Atlantic salmon (Salmo salar) linkage groups to specific chromosomes: Conservation of large syntenic blocks corresponding to whole chromosome arms in rainbow trout (Oncorhynchus mykiss)
    • 10.1186/1471-2156-10-46, 2734554, 19689812
    • Phillips RB, Keatley KA, Morasch MR, Ventura AB, Lubieniecki KP, Koop BF, et al. Assignment of Atlantic salmon (Salmo salar) linkage groups to specific chromosomes: Conservation of large syntenic blocks corresponding to whole chromosome arms in rainbow trout (Oncorhynchus mykiss). BMC Genet 2009, 10:46. 10.1186/1471-2156-10-46, 2734554, 19689812.
    • (2009) BMC Genet , vol.10 , pp. 46
    • Phillips, R.B.1    Keatley, K.A.2    Morasch, M.R.3    Ventura, A.B.4    Lubieniecki, K.P.5    Koop, B.F.6
  • 19
    • 77951159458 scopus 로고    scopus 로고
    • NCBI Entrez Gene
    • NCBI Entrez Gene. Internet 2009, , http://www.ncbi.nlm.nih.gov/sites/entrez?db=gene
    • (2009) Internet
  • 20
    • 0037448608 scopus 로고    scopus 로고
    • Characterization of two distinct aryl hydrocarbon receptor (AhR2) genes in Atlantic salmon (Salmo salar) and evidence for multiple AhR2 gene lineages in salmonid fish
    • 10.1016/S0378-1119(02)01178-2, 12559581
    • Hansson MC, Wittzell H, Persson K, von Schantz T. Characterization of two distinct aryl hydrocarbon receptor (AhR2) genes in Atlantic salmon (Salmo salar) and evidence for multiple AhR2 gene lineages in salmonid fish. Gene 2003, 303:197-206. 10.1016/S0378-1119(02)01178-2, 12559581.
    • (2003) Gene , vol.303 , pp. 197-206
    • Hansson, M.C.1    Wittzell, H.2    Persson, K.3    von Schantz, T.4
  • 21
    • 0141816773 scopus 로고    scopus 로고
    • The BCSC-1 locus at chromosome 11q23-q24 is a candidate tumor suppressor gene
    • 10.1073/pnas.1934602100, 208790, 14504409
    • Martin ES, Cesari R, Pentimalli F, Yoder K, Fishel R, Himelstein AL, et al. The BCSC-1 locus at chromosome 11q23-q24 is a candidate tumor suppressor gene. Proc Natl Acad Sci USA 2003, 100:11517-11522. 10.1073/pnas.1934602100, 208790, 14504409.
    • (2003) Proc Natl Acad Sci USA , vol.100 , pp. 11517-11522
    • Martin, E.S.1    Cesari, R.2    Pentimalli, F.3    Yoder, K.4    Fishel, R.5    Himelstein, A.L.6
  • 22
    • 33645451072 scopus 로고    scopus 로고
    • Polymorphism of two very similar MHC class Ib loci in rainbow trout (Oncorhynchus mykiss)
    • 10.1007/s00251-006-0086-5, 16518622
    • Dijkstra JM, Kiryu I, Yoshiura Y, Kumanovics A, Kohara M, Hayashi N, et al. Polymorphism of two very similar MHC class Ib loci in rainbow trout (Oncorhynchus mykiss). Immunogenetics 2006, 58:152-167. 10.1007/s00251-006-0086-5, 16518622.
    • (2006) Immunogenetics , vol.58 , pp. 152-167
    • Dijkstra, J.M.1    Kiryu, I.2    Yoshiura, Y.3    Kumanovics, A.4    Kohara, M.5    Hayashi, N.6
  • 23
    • 0032923842 scopus 로고    scopus 로고
    • Conservation and diversification of MHC class I and its related molecules in vertebrates
    • 10.1111/j.1600-065X.1999.tb01384.x, 10319253
    • Hashimoto K, Okamura K, Yamaguchi H, Ototake M, Nakanishi T, Kurosawa Y. Conservation and diversification of MHC class I and its related molecules in vertebrates. Immunol Rev 1999, 167:81-100. 10.1111/j.1600-065X.1999.tb01384.x, 10319253.
    • (1999) Immunol Rev , vol.167 , pp. 81-100
    • Hashimoto, K.1    Okamura, K.2    Yamaguchi, H.3    Ototake, M.4    Nakanishi, T.5    Kurosawa, Y.6
  • 24
    • 33646878378 scopus 로고    scopus 로고
    • Novel relationships among ten fish model species revealed based on a phylogenomic analysis using ESTs
    • 10.1007/s00239-005-0170-8, 16752215
    • Steinke D, Salzburger W, Meyer A. Novel relationships among ten fish model species revealed based on a phylogenomic analysis using ESTs. J Mol Evol 2006, 62:772-784. 10.1007/s00239-005-0170-8, 16752215.
    • (2006) J Mol Evol , vol.62 , pp. 772-784
    • Steinke, D.1    Salzburger, W.2    Meyer, A.3
  • 25
    • 77951179285 scopus 로고    scopus 로고
    • Blast: Basic Local Alignment Search Tool
    • Blast: Basic Local Alignment Search Tool. Internet 2009,
    • (2009) Internet
  • 26
    • 77951174391 scopus 로고    scopus 로고
    • Consortium for Genomics Research on All Salmon
    • Consortium for Genomics Research on All Salmon. Internet 2009, , http://web.uvic.ca/cbr/grasp/
    • (2009) Internet
  • 27
    • 58849119169 scopus 로고    scopus 로고
    • A salmonid EST genomic study: genes, duplications, phylogeny and microarrays
    • 10.1186/1471-2164-9-545, 2628678, 19014685
    • Koop BF, von Schalburg KR, Leong J, Walker N, Lieph R, Cooper GA, et al. A salmonid EST genomic study: genes, duplications, phylogeny and microarrays. BMC Genomics 2008, 9:545. 10.1186/1471-2164-9-545, 2628678, 19014685.
    • (2008) BMC Genomics , vol.9 , pp. 545
    • Koop, B.F.1    von Schalburg, K.R.2    Leong, J.3    Walker, N.4    Lieph, R.5    Cooper, G.A.6
  • 28
    • 0028702002 scopus 로고
    • Evolutionary conservation of MHC class I and class II molecules--different yet the same
    • 10.1006/smim.1994.1050, 7654997
    • Kaufman J, Salomonsen J, Flajnik M. Evolutionary conservation of MHC class I and class II molecules--different yet the same. Semin Immunol 1994, 6:411-424. 10.1006/smim.1994.1050, 7654997.
    • (1994) Semin Immunol , vol.6 , pp. 411-424
    • Kaufman, J.1    Salomonsen, J.2    Flajnik, M.3
  • 29
    • 0028943275 scopus 로고
    • The three-dimensional structure of peptide-MHC complexes
    • 10.1146/annurev.iy.13.040195.003103, 7612235
    • Madden DR. The three-dimensional structure of peptide-MHC complexes. Annu Rev Immunol 1995, 13:587-622. 10.1146/annurev.iy.13.040195.003103, 7612235.
    • (1995) Annu Rev Immunol , vol.13 , pp. 587-622
    • Madden, D.R.1
  • 30
    • 0025831493 scopus 로고
    • Refined structure of the human histocompatibility antigen HLA-A2 at 2.6 A resolution
    • 10.1016/0022-2836(91)90567-P, 2038058
    • Saper MA, Bjorkman PJ, Wiley DC. Refined structure of the human histocompatibility antigen HLA-A2 at 2.6 A resolution. J Mol Biol 1991, 219:277-319. 10.1016/0022-2836(91)90567-P, 2038058.
    • (1991) J Mol Biol , vol.219 , pp. 277-319
    • Saper, M.A.1    Bjorkman, P.J.2    Wiley, D.C.3
  • 31
    • 17044410482 scopus 로고    scopus 로고
    • Characterisation of salmon and trout CD8alpha and CD8beta
    • 10.1016/j.molimm.2004.11.017, 15829311
    • Moore LJ, Somamoto T, Lie KK, Dijkstra JM, Hordvik I. Characterisation of salmon and trout CD8alpha and CD8beta. Mol Immunol 2005, 42:1225-1234. 10.1016/j.molimm.2004.11.017, 15829311.
    • (2005) Mol Immunol , vol.42 , pp. 1225-1234
    • Moore, L.J.1    Somamoto, T.2    Lie, K.K.3    Dijkstra, J.M.4    Hordvik, I.5
  • 32
    • 0037261143 scopus 로고    scopus 로고
    • Soluble HLA-A,-B,-C and -G molecules induce apoptosis in T and NK CD8+ cells and inhibit cytotoxic T cell activity through CD8 ligation
    • 10.1002/immu.200390015, 12594841
    • Contini P, Ghio M, Poggi A, Filaci G, Indiveri F, Ferrone S, et al. Soluble HLA-A,-B,-C and -G molecules induce apoptosis in T and NK CD8+ cells and inhibit cytotoxic T cell activity through CD8 ligation. Eur J Immunol 2003, 33:125-134. 10.1002/immu.200390015, 12594841.
    • (2003) Eur J Immunol , vol.33 , pp. 125-134
    • Contini, P.1    Ghio, M.2    Poggi, A.3    Filaci, G.4    Indiveri, F.5    Ferrone, S.6
  • 33
    • 29144468668 scopus 로고    scopus 로고
    • Differential expression of alternatively spliced transcripts of HLA-G in human preimplantation embryos and inner cell masses
    • Yao YQ, Barlow DH, Sargent IL. Differential expression of alternatively spliced transcripts of HLA-G in human preimplantation embryos and inner cell masses. J Immunol 2005, 175:8379-8385.
    • (2005) J Immunol , vol.175 , pp. 8379-8385
    • Yao, Y.Q.1    Barlow, D.H.2    Sargent, I.L.3
  • 34
    • 0033004580 scopus 로고    scopus 로고
    • Detection of soluble HLA-G molecules in plasma and amniotic fluid
    • 10.1034/j.1399-0039.1999.530102.x, 10082427
    • Rebmann V, Pfeiffer K, Passler M, Ferrone S, Maier S, Weiss E, et al. Detection of soluble HLA-G molecules in plasma and amniotic fluid. Tissue Antigens 1999, 53:14-22. 10.1034/j.1399-0039.1999.530102.x, 10082427.
    • (1999) Tissue Antigens , vol.53 , pp. 14-22
    • Rebmann, V.1    Pfeiffer, K.2    Passler, M.3    Ferrone, S.4    Maier, S.5    Weiss, E.6
  • 35
    • 0034660339 scopus 로고    scopus 로고
    • Cutting edge: soluble HLA-G1 triggers CD95/CD95 ligand-mediated apoptosis in activated CD8+ cells by interacting with CD8
    • Fournel S, guerre-Girr M, Huc X, Lenfant F, Alam A, Toubert A, et al. Cutting edge: soluble HLA-G1 triggers CD95/CD95 ligand-mediated apoptosis in activated CD8+ cells by interacting with CD8. J Immunol 2000, 164:6100-6104.
    • (2000) J Immunol , vol.164 , pp. 6100-6104
    • Fournel, S.1    guerre-Girr, M.2    Huc, X.3    Lenfant, F.4    Alam, A.5    Toubert, A.6
  • 36
    • 77951184012 scopus 로고    scopus 로고
    • Children's Hospital Oakland Research Institute (CHORI)
    • Children's Hospital Oakland Research Institute (CHORI). Internet 2009, , http://bacpac.chori.org/
    • (2009) Internet
  • 37
    • 25444436230 scopus 로고    scopus 로고
    • A highly redundant BAC library of Atlantic salmon (Salmo salar): an important tool for salmon projects
    • 10.1186/1471-2164-6-50, 1082906, 15807896
    • Thorsen J, Zhu B, Frengen E, Osoegawa K, de Jong PJ, Koop BF, et al. A highly redundant BAC library of Atlantic salmon (Salmo salar): an important tool for salmon projects. BMC Genomics 2005, 6:50-60. 10.1186/1471-2164-6-50, 1082906, 15807896.
    • (2005) BMC Genomics , vol.6 , pp. 50-60
    • Thorsen, J.1    Zhu, B.2    Frengen, E.3    Osoegawa, K.4    de Jong, P.J.5    Koop, B.F.6
  • 38
    • 33644541795 scopus 로고    scopus 로고
    • A physical map of the genome of Atlantic salmon, Salmo salar
    • 10.1016/j.ygeno.2005.06.001, 16026963
    • Ng SH, Artieri CG, Bosdet IE, Chiu R, Danzmann RG, Davidson WS, et al. A physical map of the genome of Atlantic salmon, Salmo salar. Genomics 2005, 86:396-404. 10.1016/j.ygeno.2005.06.001, 16026963.
    • (2005) Genomics , vol.86 , pp. 396-404
    • Ng, S.H.1    Artieri, C.G.2    Bosdet, I.E.3    Chiu, R.4    Danzmann, R.G.5    Davidson, W.S.6
  • 39
    • 0031978181 scopus 로고    scopus 로고
    • Base-calling of automated sequencer traces using phred. II. Error probabilities
    • Ewing B, Green P. Base-calling of automated sequencer traces using phred. II. Error probabilities. Genome Res 1998, 8:186-194.
    • (1998) Genome Res , vol.8 , pp. 186-194
    • Ewing, B.1    Green, P.2
  • 40
    • 0031955518 scopus 로고    scopus 로고
    • Base-calling of automated sequencer traces using phred. I. Accuracy assessment
    • Ewing B, Hillier L, Wendl MC, Green P. Base-calling of automated sequencer traces using phred. I. Accuracy assessment. Genome Res 1998, 8:175-185.
    • (1998) Genome Res , vol.8 , pp. 175-185
    • Ewing, B.1    Hillier, L.2    Wendl, M.C.3    Green, P.4
  • 41
    • 77951164776 scopus 로고    scopus 로고
    • Phrap; a program for assembling shotgun DNA sequences
    • Phrap; a program for assembling shotgun DNA sequences. Internet 2009, , http://www.phrap.org/
    • (2009) Internet
  • 42
    • 0031955116 scopus 로고    scopus 로고
    • Consed: a graphical tool for sequence finishing
    • Gordon D, Abajian C, Green P. Consed: a graphical tool for sequence finishing. Genome Res 1998, 8:195-202.
    • (1998) Genome Res , vol.8 , pp. 195-202
    • Gordon, D.1    Abajian, C.2    Green, P.3
  • 43
    • 0035054380 scopus 로고    scopus 로고
    • Automated finishing with autofinish
    • 10.1101/gr.171401, 311035, 11282977
    • Gordon D, Desmarais C, Green P. Automated finishing with autofinish. Genome Res 2001, 11:614-625. 10.1101/gr.171401, 311035, 11282977.
    • (2001) Genome Res , vol.11 , pp. 614-625
    • Gordon, D.1    Desmarais, C.2    Green, P.3
  • 44
    • 77951167816 scopus 로고    scopus 로고
    • Digit Web Server
    • Digit Web Server. Internet 2009, , http://hgp.gsc.riken.go.jp/index.php/Program_DIGIT
    • (2009) Internet
  • 45
    • 0031586003 scopus 로고    scopus 로고
    • Prediction of complete gene structures in human genomic DNA
    • 10.1006/jmbi.1997.0951, 9149143
    • Burge C, Karlin S. Prediction of complete gene structures in human genomic DNA. J Mol Biol 1997, 268:78-94. 10.1006/jmbi.1997.0951, 9149143.
    • (1997) J Mol Biol , vol.268 , pp. 78-94
    • Burge, C.1    Karlin, S.2
  • 46
    • 0029654258 scopus 로고
    • A dot-matrix program with dynamic threshold control suited for genomic DNA and protein sequence analysis
    • 10.1016/0378-1119(95)00714-8, 8566757
    • Sonnhammer EL, Durbin R. A dot-matrix program with dynamic threshold control suited for genomic DNA and protein sequence analysis. Gene 1995, 167:GC1-10. 10.1016/0378-1119(95)00714-8, 8566757.
    • (1995) Gene , vol.167
    • Sonnhammer, E.L.1    Durbin, R.2
  • 47
    • 3242891068 scopus 로고    scopus 로고
    • VISTA: computational tools for comparative genomics
    • 10.1093/nar/gkh458, 441596, 15215394
    • Frazer KA, Pachter L, Poliakov A, Rubin EM, Dubchak I. VISTA: computational tools for comparative genomics. Nucleic Acids Res 2004, 32:W273-W279. 10.1093/nar/gkh458, 441596, 15215394.
    • (2004) Nucleic Acids Res , vol.32
    • Frazer, K.A.1    Pachter, L.2    Poliakov, A.3    Rubin, E.M.4    Dubchak, I.5
  • 49
    • 0030801002 scopus 로고    scopus 로고
    • Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
    • 10.1093/nar/25.17.3389, 146917, 9254694
    • Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, et al. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 1997, 25:3389-3402. 10.1093/nar/25.17.3389, 146917, 9254694.
    • (1997) Nucleic Acids Res , vol.25 , pp. 3389-3402
    • Altschul, S.F.1    Madden, T.L.2    Schaffer, A.A.3    Zhang, J.4    Zhang, Z.5    Miller, W.6
  • 50
    • 0031732094 scopus 로고    scopus 로고
    • A computer program for aligning a cDNA sequence with a genomic DNA sequence
    • 310774, 9750195
    • Florea L, Hartzell G, Zhang Z, Rubin GM, Miller W. A computer program for aligning a cDNA sequence with a genomic DNA sequence. Genome Res 1998, 8:967-974. 310774, 9750195.
    • (1998) Genome Res , vol.8 , pp. 967-974
    • Florea, L.1    Hartzell, G.2    Zhang, Z.3    Rubin, G.M.4    Miller, W.5
  • 51
    • 0035189310 scopus 로고    scopus 로고
    • Spidey: a tool for mRNA-to-genomic alignments
    • 311166, 11691860
    • Wheelan SJ, Church DM, Ostell JM. Spidey: a tool for mRNA-to-genomic alignments. Genome Res 2001, 11:1952-1957. 311166, 11691860.
    • (2001) Genome Res , vol.11 , pp. 1952-1957
    • Wheelan, S.J.1    Church, D.M.2    Ostell, J.M.3
  • 52
    • 77951174096 scopus 로고    scopus 로고
    • GRASP repeatmasker
    • GRASP repeatmasker. Internet 2009, , http://lucy.ceh.uvic.ca/repeatmasker/cbr_repeatmasker.py
    • (2009) Internet
  • 53
    • 38149117037 scopus 로고    scopus 로고
    • Bursts and horizontal evolution of DNA transposons in the speciation of pseudotetraploid salmonids
    • 10.1186/1471-2164-8-422, 2198921, 18021408
    • de Boer JG, Yazawa R, Davidson WS, Koop BF. Bursts and horizontal evolution of DNA transposons in the speciation of pseudotetraploid salmonids. BMC Genomics 2007, 8:422. 10.1186/1471-2164-8-422, 2198921, 18021408.
    • (2007) BMC Genomics , vol.8 , pp. 422
    • de Boer, J.G.1    Yazawa, R.2    Davidson, W.S.3    Koop, B.F.4
  • 54
    • 0027968068 scopus 로고
    • ClustalW: improving the sensitivity of progressive multiple sequence alignments through sequence weighting, position-specific gap penalties and weight matrix choice
    • 10.1093/nar/22.22.4673, 308517, 7984417
    • Thomson JD, Higgins DG, Gibson TJ. ClustalW: improving the sensitivity of progressive multiple sequence alignments through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 1994, 22:4673-4680. 10.1093/nar/22.22.4673, 308517, 7984417.
    • (1994) Nucleic Acids Res , vol.22 , pp. 4673-4680
    • Thomson, J.D.1    Higgins, D.G.2    Gibson, T.J.3
  • 55
    • 77951169124 scopus 로고    scopus 로고
    • TMHMM Server v. 2.0
    • TMHMM Server v. 2.0. Internet 2009, , http://www.cbs.dtu.dk/services/TMHMM/
    • (2009) Internet
  • 56
  • 57
    • 0035910270 scopus 로고    scopus 로고
    • Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes
    • 10.1006/jmbi.2000.4315, 11152613
    • Krogh A, Larsson B, von Heijne G, Sonnhammer EL. Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes. J Mol Biol 2001, 305:567-580. 10.1006/jmbi.2000.4315, 11152613.
    • (2001) J Mol Biol , vol.305 , pp. 567-580
    • Krogh, A.1    Larsson, B.2    von Heijne, G.3    Sonnhammer, E.L.4
  • 58
    • 18744382506 scopus 로고    scopus 로고
    • ProtTest: selection of best-fit models of protein evolution
    • 10.1093/bioinformatics/bti263, 15647292
    • Abascal F, Zardoya R, Posada D. ProtTest: selection of best-fit models of protein evolution. Bioinformatics 2005, 21:2104-2105. 10.1093/bioinformatics/bti263, 15647292.
    • (2005) Bioinformatics , vol.21 , pp. 2104-2105
    • Abascal, F.1    Zardoya, R.2    Posada, D.3
  • 59
    • 0242578620 scopus 로고    scopus 로고
    • A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood
    • 10.1080/10635150390235520, 14530136
    • Guindon S, Gascuel O. A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol 2003, 52:696-704. 10.1080/10635150390235520, 14530136.
    • (2003) Syst Biol , vol.52 , pp. 696-704
    • Guindon, S.1    Gascuel, O.2
  • 60
    • 34547781750 scopus 로고    scopus 로고
    • MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0
    • 10.1093/molbev/msm092, 17488738
    • Tamura K, Dudley J, Nei M, Kumar S. MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol Biol Evol 2007, 24:1596-1599. 10.1093/molbev/msm092, 17488738.
    • (2007) Mol Biol Evol , vol.24 , pp. 1596-1599
    • Tamura, K.1    Dudley, J.2    Nei, M.3    Kumar, S.4
  • 61
    • 77951173793 scopus 로고    scopus 로고
    • Primer 3 Software
    • Primer 3 Software. Internet 2009, , http://primer3.sourceforge.net/
    • (2009) Internet
  • 62
    • 32244432718 scopus 로고    scopus 로고
    • A comparative analysis of the rainbow trout genome with 2 other species of fish (Arctic charr and Atlantic salmon) within the tetraploid derivative Salmonidae family (subfamily: Salmoninae)
    • 10.1139/g05-067, 16391673
    • Danzmann RG, Cairney M, Davidson WS, Ferguson MM, Gharbi K, Guyomard R, et al. A comparative analysis of the rainbow trout genome with 2 other species of fish (Arctic charr and Atlantic salmon) within the tetraploid derivative Salmonidae family (subfamily: Salmoninae). Genome 2005, 48:1037-1051. 10.1139/g05-067, 16391673.
    • (2005) Genome , vol.48 , pp. 1037-1051
    • Danzmann, R.G.1    Cairney, M.2    Davidson, W.S.3    Ferguson, M.M.4    Gharbi, K.5    Guyomard, R.6
  • 63
    • 0037318212 scopus 로고    scopus 로고
    • Comparative genome analysis of the primary sex-determining locus in salmonid fishes
    • 10.1101/gr.578503, 420375, 12566405
    • Woram RA, Gharbi K, Sakamoto T, Hoyheim B, Holm LE, Naish K, et al. Comparative genome analysis of the primary sex-determining locus in salmonid fishes. Genome Res 2003, 13:272-280. 10.1101/gr.578503, 420375, 12566405.
    • (2003) Genome Res , vol.13 , pp. 272-280
    • Woram, R.A.1    Gharbi, K.2    Sakamoto, T.3    Hoyheim, B.4    Holm, L.E.5    Naish, K.6
  • 64
    • 77951198829 scopus 로고    scopus 로고
    • LINKMFEX: Linkage analysis package for outcrossed families with male of female exchange of the mapping parent, ver. 2.3
    • Danzmann RG. LINKMFEX: Linkage analysis package for outcrossed families with male of female exchange of the mapping parent, ver. 2.3. Internet 2006, , http://www.uoguelph.ca/~rdanzman/software/LINKMFEX/
    • (2006) Internet
    • Danzmann, R.G.1
  • 65
    • 77951194638 scopus 로고    scopus 로고
    • National Animal Research Authority
    • National Animal Research Authority. Internet 2009, , http://www.fdu.no/
    • (2009) Internet
  • 66
    • 44949231424 scopus 로고    scopus 로고
    • Analyzing real-time PCR data by the comparative C(T) method
    • 10.1038/nprot.2008.73, 18546601
    • Schmittgen TD, Livak KJ. Analyzing real-time PCR data by the comparative C(T) method. Nat Protoc 2008, 3:1101-1108. 10.1038/nprot.2008.73, 18546601.
    • (2008) Nat Protoc , vol.3 , pp. 1101-1108
    • Schmittgen, T.D.1    Livak, K.J.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.