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Volumn 71, Issue 5, 2014, Pages 698-708

Single-nucleotide polymorphisms (snps) identified through genotyping-by-sequencing improve genetic stock identification of chinook salmon (oncorhynchus tshawytscha) from western alaska

Author keywords

[No Author keywords available]

Indexed keywords

FISHERY MANAGEMENT; GENETIC ANALYSIS; GENETIC MARKER; GENETIC STRUCTURE; GENOTYPE; POLYMORPHISM; POPULATION GENETICS; SALMONID; STOCK ASSESSMENT;

EID: 84896946060     PISSN: 0706652X     EISSN: 12057533     Source Type: Journal    
DOI: 10.1139/cjfas-2013-0502     Document Type: Article
Times cited : (62)

References (78)
  • 1
    • 84857089653 scopus 로고    scopus 로고
    • Single-nucleotide polymorphisms (SNPs) under diversifying selection provide increased accuracy and precision in mixed-stock analyses of sockeye salmon from the Copper River
    • doi:10.1080/00028487.2011.588137
    • Ackerman, M.W., Habicht, C., and Seeb, L.W. 2011. Single-nucleotide polymorphisms (SNPs) under diversifying selection provide increased accuracy and precision in mixed-stock analyses of sockeye salmon from the Copper River, Alaska. Trans. Am. Fish. Soc. 140(3): 865-881. doi:10.1080/00028487.2011.588137.
    • (2011) Alaska. Trans. Am. Fish. Soc , vol.140 , Issue.3 , pp. 865-881
    • Ackerman, M.W.1    Habicht, C.2    Seeb, L.W.3
  • 2
    • 84875740132 scopus 로고    scopus 로고
    • Landscape heterogeneity and local adaptation define the spatial genetic structure of Pacific salmon in a pristine environment
    • doi:10.1007/s10592-012-0401-7
    • Ackerman, M.W., Templin, W.D., Seeb, J.E., and Seeb, L.W. 2013. Landscape heterogeneity and local adaptation define the spatial genetic structure of Pacific salmon in a pristine environment. Conserv. Genet. 14(2): 483-498. doi:10.1007/s10592-012-0401-7.
    • (2013) Conserv. Genet , vol.14 , Issue.2 , pp. 483-498
    • Ackerman, M.W.1    Templin, W.D.2    Seeb, J.E.3    Seeb, L.W.4
  • 3
    • 84893356881 scopus 로고    scopus 로고
    • ADF&G, online, Alaska Department of Fish and Game, Special Publication No. 13-01. Available from, accessed 7 March 2013
    • ADF&G. 2013. Chinook salmon stock assessment and research plan [online]. Alaska Department of Fish and Game, Special Publication No. 13-01. Available from http://www.adfg.alaska.gov/FedAidPDFs/SP13-01.pdf [accessed 7 March 2013].
    • (2013) Chinook Salmon Stock Assessment and Research Plan
  • 5
    • 77956864581 scopus 로고    scopus 로고
    • Genomics and the future of conservation genetics
    • doi:10.1038/nrg2844. PMID:20847747
    • Allendorf, F.W., Hohenlohe, P.A., and Luikart, G. 2010. Genomics and the future of conservation genetics. Nat. Rev. Genet. 11(10): 697-709. doi:10.1038/nrg2844. PMID:20847747.
    • (2010) Nat. Rev. Genet , vol.11 , Issue.10 , pp. 697-709
    • Allendorf, F.W.1    Hohenlohe, P.A.2    Luikart, G.3
  • 6
    • 84862223322 scopus 로고    scopus 로고
    • RAD sequencing yields a high success rate for westslope cutthroat and rainbow trout species - diagnostic SNP assays
    • doi:10.1111/j.1755-0998.2012.03157.x. PMID:22672623
    • Amish, S.J., Hohenlohe, P.A., Painter, S., Leary, R.F., Muhlfeld, C., Allendorf, F.W., and Luikart, G. 2012. RAD sequencing yields a high success rate for westslope cutthroat and rainbow trout species - diagnostic SNP assays. Mol. Ecol. Resour. 12(4): 653-660. doi:10.1111/j.1755-0998.2012.03157.x. PMID:22672623.
    • (2012) Mol. Ecol. Resour , vol.12 , Issue.4 , pp. 653-660
    • Amish, S.J.1    Hohenlohe, P.A.2    Painter, S.3    Leary, R.F.4    Muhlfeld, C.5    Allendorf, F.W.6    Luikart, G.7
  • 7
    • 77954260692 scopus 로고    scopus 로고
    • Assessing the power of informative subsets of loci for population assignment: Standard methods are upwardly biased
    • doi:10.1111/j.1755-0998.2010.02846.x. PMID:21565075
    • Anderson, E.C. 2010. Assessing the power of informative subsets of loci for population assignment: standard methods are upwardly biased. Mol. Ecol. Resour. 10(4): 701-710. doi:10.1111/j.1755-0998.2010.02846.x. PMID:21565075.
    • (2010) Mol. Ecol. Resour , vol.10 , Issue.4 , pp. 701-710
    • Anderson, E.C.1
  • 8
    • 46849110184 scopus 로고    scopus 로고
    • An improved method for predicting the accuracy of genetic stock identification
    • doi:10.1139/F08-049
    • Anderson, E.C., Waples, R.S., and Kalinowski, S.T. 2008. An improved method for predicting the accuracy of genetic stock identification. Can. J. Fish. Aquat. Sci. 65(7): 1475-1486. doi:10.1139/F08-049.
    • (2008) Can. J. Fish. Aquat. Sci , vol.65 , Issue.7 , pp. 1475-1486
    • Anderson, E.C.1    Waples, R.S.2    Kalinowski, S.T.3
  • 12
    • 51249113229 scopus 로고    scopus 로고
    • The application of rapid microsatellite-based stock identification to management of a Chinook salmon troll fishery off the Queen Charlotte Islands, British Columbia
    • doi:10.1577/M06-167.1
    • Beacham, T.D., Winther, I., Jonsen, K.L., Wetklo, M., Deng, L., and Candy, J.R. 2008b. The application of rapid microsatellite-based stock identification to management of a Chinook salmon troll fishery off the Queen Charlotte Islands, British Columbia. N. Am. J. Fish. Manage. 28(3): 849-855. doi:10.1577/M06-167.1.
    • (2008) N. Am. J. Fish. Manage , vol.28 , Issue.3 , pp. 849-855
    • Beacham, T.D.1    Winther, I.2    Jonsen, K.L.3    Wetklo, M.4    Deng, L.5    Candy, J.R.6
  • 13
    • 84864147084 scopus 로고    scopus 로고
    • Microsatellite mixed-stock identification of coho salmon in British Columbia
    • doi:10.1080/19425120.2012.661393
    • Beacham, T.D., Candy, J.R., Wallace, C., Wetklo, M., Deng, L., and MacConnachie, C. 2012. Microsatellite mixed-stock identification of coho salmon in British Columbia. Mar. Coast. Fish. 4(1): 85-100. doi:10.1080/19425120.2012.661393.
    • (2012) Mar. Coast. Fish , vol.4 , Issue.1 , pp. 85-100
    • Beacham, T.D.1    Candy, J.R.2    Wallace, C.3    Wetklo, M.4    Deng, L.5    Macconnachie, C.6
  • 15
    • 41349107215 scopus 로고    scopus 로고
    • Identification of novel single-nucleotide polymorphisms in Chinook salmon and variation among life history types
    • doi:10.1577/T07-011.1
    • Campbell, N.R., and Narum, S.R. 2008. Identification of novel single-nucleotide polymorphisms in Chinook salmon and variation among life history types. Trans. Am. Fish. Soc. 137(1): 96-106. doi:10.1577/T07-011.1.
    • (2008) Trans. Am. Fish. Soc , vol.137 , Issue.1 , pp. 96-106
    • Campbell, N.R.1    Narum, S.R.2
  • 16
    • 78149432835 scopus 로고    scopus 로고
    • Identification and characterization of heat shock response related single nucleotide polymorphisms in O. mykiss and O. tshawytscha
    • Campbell, N.R., and Narum, S.R. 2009. Identification and characterization of heat shock response related single nucleotide polymorphisms in O. mykiss and O. tshawytscha. Mol. Ecol. Resour. 9: 1450-1559.
    • (2009) Mol. Ecol. Resour , vol.9 , pp. 1450-1559
    • Campbell, N.R.1    Narum, S.R.2
  • 17
    • 84884299558 scopus 로고    scopus 로고
    • Stacks: Building and genotyping loci de novo from short-read sequences
    • doi:10.1534/g3.111.000240
    • Catchen, J.M., Amores, A., Hohenlohe, P., Cresko, W., and Postlethwait, J.H. 2011. Stacks: building and genotyping loci de novo from short-read sequences. G3: Genes Genomes Genet. 1: 171-182. doi:10.1534/g3.111.000240.
    • (2011) G3: Genes Genomes Genet , vol.1 , pp. 171-182
    • Catchen, J.M.1    Amores, A.2    Hohenlohe, P.3    Cresko, W.4    Postlethwait, J.H.5
  • 18
    • 84878461613 scopus 로고    scopus 로고
    • Stacks: An analysis tool set for population genomics
    • doi:10.1111/mec.12354. PMID:23701397
    • Catchen, J., Hohenlohe, P.A., Bassham, S., Amores, A., and Cresko, W.A. 2013. Stacks: an analysis tool set for population genomics. Mol. Ecol. 22(11): 3124-3140. doi:10.1111/mec.12354. PMID:23701397.
    • (2013) Mol. Ecol , vol.22 , Issue.11 , pp. 3124-3140
    • Catchen, J.1    Hohenlohe, P.A.2    Bassham, S.3    Amores, A.4    Cresko, W.A.5
  • 19
    • 79951740851 scopus 로고    scopus 로고
    • Discovery and characterization of single nucleotide polymorphisms in Chinook salmon, Oncorhynchus tshawytscha
    • doi:10.1111/j.1755-0998. 2010.02972.x. PMID:21429162
    • Clemento, A.J., Abadia-Cardoso, A., Starks, H.A., and Garza, J.C. 2011. Discovery and characterization of single nucleotide polymorphisms in Chinook salmon, Oncorhynchus tshawytscha. Mol. Ecol. Resour. 11: 50-66. doi:10.1111/j.1755-0998. 2010.02972.x. PMID:21429162.
    • (2011) Mol. Ecol. Resour , vol.11 , pp. 50-66
    • Clemento, A.J.1    Abadia-Cardoso, A.2    Starks, H.A.3    Garza, J.C.4
  • 20
    • 84877794253 scopus 로고    scopus 로고
    • Exploiting genetic diversity to balance conservation and harvest of migratory salmon
    • doi:10.1139/cjfas-2012-0449
    • Dann, T.H., Habicht, C., Baker, T.T., and Seeb, J.E. 2013. Exploiting genetic diversity to balance conservation and harvest of migratory salmon. Can. J. Fish. Aquat. Sci. 70(5): 785-793. doi:10.1139/cjfas-2012-0449.
    • (2013) Can. J. Fish. Aquat. Sci , vol.70 , Issue.5 , pp. 785-793
    • Dann, T.H.1    Habicht, C.2    Baker, T.T.3    Seeb, J.E.4
  • 21
    • 79954584270 scopus 로고    scopus 로고
    • Local de novo assembly of RAD paired-end contigs using short sequencing reads
    • doi:10.1371/journal.pone.0018561. PMID:21541009
    • Etter, P.D., Preston, J.L., Bassham, S., Cresko, W.A., and Johnson, E.A. 2011. Local de novo assembly of RAD paired-end contigs using short sequencing reads. PLoS ONE, 6(4): e18561. doi:10.1371/journal.pone.0018561. PMID:21541009.
    • (2011) PLoS ONE , vol.6 , Issue.4
    • Etter, P.D.1    Preston, J.L.2    Bassham, S.3    Cresko, W.A.4    Johnson, E.A.5
  • 22
    • 84897872674 scopus 로고    scopus 로고
    • Detection and mapping of QTL for temperature tolerance and body size in Chinook salmon (Oncorhynchus tshawytscha) using genotyping by sequencing
    • In press, doi:10.1111/eva.12147
    • Everett, M.V., and Seeb, J.E. 2014. Detection and mapping of QTL for temperature tolerance and body size in Chinook salmon (Oncorhynchus tshawytscha) using genotyping by sequencing. Evol. Appl. [In press.] doi:10.1111/eva.12147.
    • (2014) Evol. Appl
    • Everett, M.V.1    Seeb, J.E.2
  • 23
    • 79751509492 scopus 로고    scopus 로고
    • Short reads and nonmodel species: Exploring the complexities of next-generation sequence assembly and SNP discovery in the absence of a reference genome
    • doi:10.1111/j.1755-0998.2010.02969.x. PMID:21429166
    • Everett, M.V., Grau, E.D., and Seeb, J.E. 2011. Short reads and nonmodel species: exploring the complexities of next-generation sequence assembly and SNP discovery in the absence of a reference genome. Mol. Ecol. Resour. 11: 93-108. doi:10.1111/j.1755-0998.2010.02969.x. PMID:21429166.
    • (2011) Mol. Ecol. Resour , vol.11 , pp. 93-108
    • Everett, M.V.1    Grau, E.D.2    Seeb, J.E.3
  • 24
    • 84866840599 scopus 로고    scopus 로고
    • Meiotic maps of sockeye salmon derived from massively parallel DNA sequencing
    • doi:10.1186/1471-2164-13-521. PMID:23031582
    • Everett, M.V., Miller, M.R., and Seeb, J.E. 2012. Meiotic maps of sockeye salmon derived from massively parallel DNA sequencing. BMC Genomics, 13: 521. doi:10.1186/1471-2164-13-521. PMID:23031582.
    • (2012) BMC Genomics , vol.13 , pp. 521
    • Everett, M.V.1    Miller, M.R.2    Seeb, J.E.3
  • 25
    • 84884205417 scopus 로고    scopus 로고
    • The genetic architecture of reproductive isolation during speciation with gene flow in lake whitefish assessed by RAD sequencing
    • doi:10.1111/evo.12075. PMID:24033162
    • Gagnaire, P.-A., Pavey, S.A., Normandeau, E., and Bernatchez, L. 2013. The genetic architecture of reproductive isolation during speciation with gene flow in lake whitefish assessed by RAD sequencing. Evolution, 67(9): 2483-2497. doi:10.1111/evo.12075. PMID:24033162.
    • (2013) Evolution , vol.67 , Issue.9 , pp. 2483-2497
    • Gagnaire, P.-A.1    Pavey, S.A.2    Normandeau, E.3    Bernatchez, L.4
  • 26
    • 0023510943 scopus 로고
    • Genetic relationships among populations of Alaskan chinook salmon (Oncorhynchus tshawytscha)
    • doi:10.1139/f87-093
    • Gharrett, A.J., Shirley, S.M., and Tromble, G.R. 1987. Genetic relationships among populations of Alaskan chinook salmon (Oncorhynchus tshawytscha). Can. J. Fish. Aquat. Sci. 44(4): 765-774. doi:10.1139/f87-093.
    • (1987) Can. J. Fish. Aquat. Sci , vol.44 , Issue.4 , pp. 765-774
    • Gharrett, A.J.1    Shirley, S.M.2    Tromble, G.R.3
  • 27
    • 79551599953 scopus 로고    scopus 로고
    • Genotype calling and mapping of multisite variants using an Atlantic salmon iSelect SNP array
    • doi:10.1093/bioinformatics/btq673. PMID:21149341
    • Gidskehaug, L., Kent, M., Hayes, B.J., and Lien, S. 2011. Genotype calling and mapping of multisite variants using an Atlantic salmon iSelect SNP array. Bioinformatics, 27(3): 303-310. doi:10.1093/bioinformatics/btq673. PMID:21149341.
    • (2011) Bioinformatics , vol.27 , Issue.3 , pp. 303-310
    • Gidskehaug, L.1    Kent, M.2    Hayes, B.J.3    Lien, S.4
  • 29
    • 79751498508 scopus 로고    scopus 로고
    • Summer-fall distribution of stocks of immature sockeye salmon in the Bering Sea as revealed by single-nucleotide polymorphisms
    • doi:10.1577/T09-149.1
    • Habicht, C., Seeb, L.W., Myers, K.W., Farley, E.V., and Seeb, J.E. 2010. Summer-fall distribution of stocks of immature sockeye salmon in the Bering Sea as revealed by single-nucleotide polymorphisms. Trans. Am. Fish. Soc. 139(4): 1171-1191. doi:10.1577/T09-149.1.
    • (2010) Trans. Am. Fish. Soc , vol.139 , Issue.4 , pp. 1171-1191
    • Habicht, C.1    Seeb, L.W.2    Myers, K.W.3    Farley, E.V.4    Seeb, J.E.5
  • 30
    • 56549104940 scopus 로고    scopus 로고
    • Advances in molecular technology and their impact on fisheries genetics
    • doi:10.1111/j.1467-2979. 2008.00306.x
    • Hauser, L., and Seeb, J.E. 2008. Advances in molecular technology and their impact on fisheries genetics. Fish. Fish. 9(4): 473-486. doi:10.1111/j.1467-2979. 2008.00306.x.
    • (2008) Fish. Fish , vol.9 , Issue.4 , pp. 473-486
    • Hauser, L.1    Seeb, J.E.2
  • 31
    • 84878438897 scopus 로고    scopus 로고
    • Genome-wide association reveals genetic basis for the propensity to migrate in wild populations of rainbow and steelhead trout
    • doi:10.1111/mec.12082. PMID:23106605
    • Hecht, B.C., Campbell, N.R., Holecek, D.E., and Narum, S.R. 2013. Genome-wide association reveals genetic basis for the propensity to migrate in wild populations of rainbow and steelhead trout. Mol. Ecol. 22(11): 3061-3076. doi:10.1111/mec.12082. PMID:23106605.
    • (2013) Mol. Ecol , vol.22 , Issue.11 , pp. 3061-3076
    • Hecht, B.C.1    Campbell, N.R.2    Holecek, D.E.3    Narum, S.R.4
  • 32
    • 0038651995 scopus 로고    scopus 로고
    • Biocomplexity and fisheries sustainability
    • doi:10.1073/pnas.1037274100. PMID:12743372
    • Hilborn, R., Quinn, T.P., Schindler, D.E., and Rogers, D.E. 2003. Biocomplexity and fisheries sustainability. Proc. Natl. Acad. Sci. U.S.A. 100(11): 6564-6568. doi:10.1073/pnas.1037274100. PMID:12743372.
    • (2003) Proc. Natl. Acad. Sci. U.S.A , vol.100 , Issue.11 , pp. 6564-6568
    • Hilborn, R.1    Quinn, T.P.2    Schindler, D.E.3    Rogers, D.E.4
  • 33
    • 77649219524 scopus 로고    scopus 로고
    • Population genomics of parallel adaptation in threespine stickleback using sequenced RAD tags
    • doi:10.1371/journal.pgen.1000862. PMID:20195501
    • Hohenlohe, P.A., Bassham, S., Etter, P.D., Stiffler, N., Johnson, E.A., and Cresko, W.A. 2010. Population genomics of parallel adaptation in threespine stickleback using sequenced RAD tags. PLoS Genet. 6(2): e1000862. doi:10.1371/journal.pgen.1000862. PMID:20195501.
    • (2010) PLoS Genet , vol.6 , Issue.2
    • Hohenlohe, P.A.1    Bassham, S.2    Etter, P.D.3    Stiffler, N.4    Johnson, E.A.5    Cresko, W.A.6
  • 34
    • 79951748696 scopus 로고    scopus 로고
    • Next-generation RAD sequencing identifies thousands of SNPs for assessing hybridization between rainbow and westslope cutthroat trout
    • doi:10.1111/j.1755-0998.2010.02967.x. PMID:21429168
    • Hohenlohe, P.A., Amish, S.J., Catchen, J.M., Allendorf, F.W., and Luikart, G. 2011. Next-generation RAD sequencing identifies thousands of SNPs for assessing hybridization between rainbow and westslope cutthroat trout. Mol. Ecol. Resour. 11: 117-122. doi:10.1111/j.1755-0998.2010.02967.x. PMID:21429168.
    • (2011) Mol. Ecol. Resour , vol.11 , pp. 117-122
    • Hohenlohe, P.A.1    Amish, S.J.2    Catchen, J.M.3    Allendorf, F.W.4    Luikart, G.5
  • 35
    • 0025861818 scopus 로고
    • Detection of specific polymerase chain-reaction product by the 5=-3= exonuclease activity of Thermus aquaticus DNA polymerase
    • doi:10.1073/pnas.88.16.7276. PMID:1871133
    • Holland, P.M., Abramson, R.D., Watson, R., and Gelfand, D.H. 1991. Detection of specific polymerase chain-reaction product by the 5=-3= exonuclease activity of Thermus aquaticus DNA polymerase. Proc. Natl. Acad. Sci. 88(16): 7276-7280. doi:10.1073/pnas.88.16.7276. PMID:1871133.
    • (1991) Proc. Natl. Acad. Sci , vol.88 , Issue.16 , pp. 7276-7280
    • Holland, P.M.1    Abramson, R.D.2    Watson, R.3    Gelfand, D.H.4
  • 37
    • 62349130698 scopus 로고    scopus 로고
    • Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
    • doi:10.1186/gb-2009-10-3-r25
    • Langmead, B., Trapnell, C., Pop, M., and Salzberg, S.L. 2009. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol. 10(3): R25. doi:10.1186/gb-2009-10-3-r25.
    • (2009) Genome Biol , vol.10 , Issue.3
    • Langmead, B.1    Trapnell, C.2    Pop, M.3    Salzberg, S.L.4
  • 38
    • 84874005851 scopus 로고    scopus 로고
    • Single-nucleotide polymorphisms reveal distribution and migration of Chinook salmon (Oncorhynchus tshawytscha) in the Bering Sea and North Pacific Ocean
    • doi:10.1139/cjfas-2012-0233
    • Larson, W.A., Utter, F.M., Myers, K.W., Templin, W.D., Seeb, J.E., Guthrie, C.M., III, Bugaev, A.V., and Seeb, L.W. 2013. Single-nucleotide polymorphisms reveal distribution and migration of Chinook salmon (Oncorhynchus tshawytscha) in the Bering Sea and North Pacific Ocean. Can. J. Fish. Aquat. Sci. 70(1): 128-141. doi:10.1139/cjfas-2012-0233.
    • (2013) Can. J. Fish. Aquat. Sci , vol.70 , Issue.1 , pp. 128-141
    • Larson, W.A.1    Utter, F.M.2    Myers, K.W.3    Templin, W.D.4    Seeb, J.E.5    Guthrie III, C.M.6    Bugaev, A.V.7    Seeb, L.W.8
  • 39
    • 84897881322 scopus 로고    scopus 로고
    • Genotyping by sequencing resolves shallow population structure to inform conservation of Chinook salmon (Oncorhynchus tshawytscha)
    • online ahead of print.] doi:10.1111/eva.12128
    • Larson, W., Seeb, L.W., Everett, M.V., Waples, R.K., Templin, W.D., and Seeb, J.E. 2014. Genotyping by sequencing resolves shallow population structure to inform conservation of Chinook salmon (Oncorhynchus tshawytscha). Evol. Appl. [online ahead of print.] doi:10.1111/eva.12128.
    • (2014) Evol. Appl
    • Larson, W.1    Seeb, L.W.2    Everett, M.V.3    Waples, R.K.4    Templin, W.D.5    Seeb, J.E.6
  • 40
    • 84855456602 scopus 로고    scopus 로고
    • A conserved haplotype controls parallel adaptation in geographically distant salmonid populations
    • doi:10.1111/j.1365-294X.2011.05305.x. PMID:21988725
    • Miller, M.R., Brunelli, J.P., Wheeler, P.A., Liu, S., Rexroad, C.E., III, Palti, Y., Doe, C.Q., and Thorgaard, G.H. 2012. A conserved haplotype controls parallel adaptation in geographically distant salmonid populations. Mol. Ecol. 21(2): 237-249. doi:10.1111/j.1365-294X.2011.05305.x. PMID:21988725.
    • (2012) Mol. Ecol , vol.21 , Issue.2 , pp. 237-249
    • Miller, M.R.1    Brunelli, J.P.2    Wheeler, P.A.3    Liu, S.4    Rexroad III, C.E.5    Palti, Y.6    Doe, C.Q.7    Thorgaard, G.H.8
  • 41
    • 0000767158 scopus 로고
    • A genetic method of stock identification in mixed populations of Pacific Salmon, Oncorhynchus spp
    • Milner, G.B., Teel, D.J., Utter, F.M., and Winans, G.A. 1985. A genetic method of stock identification in mixed populations of Pacific Salmon, Oncorhynchus spp. Mar. Fish. Rev. 47(1): 1-8.
    • (1985) Mar. Fish. Rev , vol.47 , Issue.1 , pp. 1-8
    • Milner, G.B.1    Teel, D.J.2    Utter, F.M.3    Winans, G.A.4
  • 42
    • 80455126001 scopus 로고    scopus 로고
    • Evaluation of genomic high-throughput sequencing data generated on Illumina HiSeq and Genome Analyzer systems
    • doi:10.1186/gb-2011-12-11-r112
    • Minoche, A.E., Dohm, J.C., and Himmelbauer, H. 2011. Evaluation of genomic high-throughput sequencing data generated on Illumina HiSeq and Genome Analyzer systems. Genome Biol. 12(11): R112. doi:10.1186/gb-2011-12-11-r112.
    • (2011) Genome Biol , vol.12 , Issue.11
    • Minoche, A.E.1    Dohm, J.C.2    Himmelbauer, H.3
  • 43
    • 33747881218 scopus 로고    scopus 로고
    • Alaska Department of Fish and Game, Regional Information Report No. 3A99-15. Available from, accessed 30 January 2013
    • Molyneaux, D.B., and Dubois, L. 1999. Salmon age, sex and length catalog for the Kuskokwim area, 1998 progress report [online]. Alaska Department of Fish and Game, Regional Information Report No. 3A99-15. Available from http://www.sf.adfg.state.ak.us/FedAidpdfs/RIR.3A.1999.15.pdf [accessed 30 January 2013].
    • (1999) Salmon Age, Sex and Length Catalog For the Kuskokwim Area, 1998 Progress Report
    • Molyneaux, D.B.1    Dubois, L.2
  • 44
    • 84878427471 scopus 로고    scopus 로고
    • Genotyping-by-sequencing in ecological and conservation genomics
    • doi:10.1111/mec.12350. PMID:23711105
    • Narum, S.R., Buerkle, C.A., Davey, J.W., Miller, M.R., and Hohenlohe, P.A. 2013. Genotyping-by-sequencing in ecological and conservation genomics. Mol. Ecol. 22(11): 2841-2847. doi:10.1111/mec.12350. PMID:23711105.
    • (2013) Mol. Ecol , vol.22 , Issue.11 , pp. 2841-2847
    • Narum, S.R.1    Buerkle, C.A.2    Davey, J.W.3    Miller, M.R.4    Hohenlohe, P.A.5
  • 45
    • 33750994060 scopus 로고    scopus 로고
    • Fine-scale natal homing and localized movement as shaped by sex and spawning habitat in Chinook salmon: Insights from spatial autocorrelation analysis of individual genotypes
    • doi:10.1111/j. 1365-294X.2006.03082.x. PMID:17107485
    • Neville, H.M., Isaak, D.J., Dunham, J.B., Thurow, R.F., and Rieman, B.E. 2006. Fine-scale natal homing and localized movement as shaped by sex and spawning habitat in Chinook salmon: insights from spatial autocorrelation analysis of individual genotypes. Mol. Ecol. 15(14): 4589-4602. doi:10.1111/j. 1365-294X.2006.03082.x. PMID:17107485.
    • (2006) Mol. Ecol , vol.15 , Issue.14 , pp. 4589-4602
    • Neville, H.M.1    Isaak, D.J.2    Dunham, J.B.3    Thurow, R.F.4    Rieman, B.E.5
  • 47
    • 79956314887 scopus 로고    scopus 로고
    • Genotype and SNP calling from next-generation sequencing data
    • doi:10.1038/nrg2986. PMID:21587300
    • Nielsen, R., Paul, J.S., Albrechtsen, A., and Song, Y.S. 2011. Genotype and SNP calling from next-generation sequencing data. Nat. Rev. Genet. 12(6): 443-451. doi:10.1038/nrg2986. PMID:21587300.
    • (2011) Nat. Rev. Genet , vol.12 , Issue.6 , pp. 443-451
    • Nielsen, R.1    Paul, J.S.2    Albrechtsen, A.3    Song, Y.S.4
  • 48
    • 78650991482 scopus 로고    scopus 로고
    • Comparative landscape genetic analysis of three Pacific salmon species from subarctic North America
    • doi:10.1007/s10592-010-0135-3
    • Olsen, J.B., Crane, P.A., Flannery, B.G., Dunmall, K., Templin, W.D., and Wenburg, J.K. 2011. Comparative landscape genetic analysis of three Pacific salmon species from subarctic North America. Conserv. Genet. 12(1): 223-241. doi:10.1007/s10592-010-0135-3.
    • (2011) Conserv. Genet , vol.12 , Issue.1 , pp. 223-241
    • Olsen, J.B.1    Crane, P.A.2    Flannery, B.G.3    Dunmall, K.4    Templin, W.D.5    Wenburg, J.K.6
  • 49
    • 84867293252 scopus 로고    scopus 로고
    • GenAlEx 6.5: Genetic analysis in Excel. Population genetic software for teaching and research-an update
    • doi:10.1093/bioinformatics/bts460
    • Peakall, R., and Smouse, P.E. 2012. GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research-an update. Bioinformatics, 28(19): 2537-2539. doi:10.1093/bioinformatics/bts460.
    • (2012) Bioinformatics , vol.28 , Issue.19 , pp. 2537-2539
    • Peakall, R.1    Smouse, P.E.2
  • 50
    • 36849080837 scopus 로고    scopus 로고
    • GENEPOP'007: A complete re-implementation of the GENEPOP software for Windows and Linux
    • doi:10.1111/j.1471-8286.2007.01931.x. PMID:21585727
    • Rousset, F. 2008. GENEPOP'007: a complete re-implementation of the GENEPOP software for Windows and Linux. Mol. Ecol. Resour. 8(1): 103-106. doi:10.1111/j.1471-8286.2007.01931.x. PMID:21585727.
    • (2008) Mol. Ecol. Resour , vol.8 , Issue.1 , pp. 103-106
    • Rousset, F.1
  • 51
    • 84857087886 scopus 로고    scopus 로고
    • Detection of outlier loci and their utility for fisheries management
    • doi: 10.1111/j.1752-4571.2011.00206.x
    • Russello, M.A., Kirk, S.L., Frazer, K.K., and Askey, P.J. 2012. Detection of outlier loci and their utility for fisheries management. Evol. Appl. 5(1): 39-52. doi: 10.1111/j.1752-4571.2011.00206.x.
    • (2012) Evol. Appl , vol.5 , Issue.1 , pp. 39-52
    • Russello, M.A.1    Kirk, S.L.2    Frazer, K.K.3    Askey, P.J.4
  • 52
    • 77953212693 scopus 로고    scopus 로고
    • Population diversity and the portfolio effect in an exploited species
    • doi:10.1038/nature09060.PMID:20520713
    • Schindler, D.E., Hilborn, R., Chasco, B., Boatright, C.P., Quinn, T.P., Rogers, L.A., and Webster, M.S. 2010. Population diversity and the portfolio effect in an exploited species. Nature, 465(7298): 609-612. doi:10.1038/nature09060.PMID:20520713.
    • (2010) Nature , vol.465 , Issue.7298 , pp. 609-612
    • Schindler, D.E.1    Hilborn, R.2    Chasco, B.3    Boatright, C.P.4    Quinn, T.P.5    Rogers, L.A.6    Webster, M.S.7
  • 53
    • 0347358913 scopus 로고    scopus 로고
    • The evolution of molecular markers - just a matter of fashion
    • doi:10.1038/nrg1249. PMID:14666112
    • Schlotterer, C. 2004. The evolution of molecular markers - just a matter of fashion? Nat. Rev. Genet. 5(1): 63-69. doi:10.1038/nrg1249. PMID:14666112.
    • (2004) Nat. Rev. Genet , vol.5 , Issue.1 , pp. 63-69
    • Schlotterer, C.1
  • 54
    • 73449136406 scopus 로고    scopus 로고
    • SNP genotyping by the 5=-nuclease reaction: Advances in high-throughput genotyping with nonmodel organisms. In Single nucleotide polymorphisms: Methods and protocols
    • 2nd ed. Edited by A.A. Komar
    • Seeb, J.E., Pascal, C.E., Ramakrishnan, R., and Seeb, L.W. 2009a. SNP genotyping by the 5=-nuclease reaction: advances in high-throughput genotyping with nonmodel organisms. In Single nucleotide polymorphisms: methods and protocols, 2nd ed. Edited by A.A. Komar. Methods Mol. Biol. 578: 277-292.
    • (2009) Methods Mol. Biol , vol.578 , pp. 277-292
    • Seeb, J.E.1    Pascal, C.E.2    Ramakrishnan, R.3    Seeb, L.W.4
  • 55
    • 79951766233 scopus 로고    scopus 로고
    • Single-nucleotide polymorphism (SNP) discovery and applications of SNP genotyping in nonmodel organisms
    • doi:10.1111/j.1755-0998.2010.02979.x. PMID:21429158
    • Seeb, J.E., Carvalho, G., Hauser, L., Naish, K., Roberts, S., and Seeb, L.W. 2011a. Single-nucleotide polymorphism (SNP) discovery and applications of SNP genotyping in nonmodel organisms. Mol. Ecol. Resour. 11: 1-8. doi:10.1111/j.1755-0998.2010.02979.x. PMID:21429158.
    • (2011) Mol. Ecol. Resour , vol.11 , pp. 1-8
    • Seeb, J.E.1    Carvalho, G.2    Hauser, L.3    Naish, K.4    Roberts, S.5    Seeb, L.W.6
  • 56
    • 79751513975 scopus 로고    scopus 로고
    • Transcriptome sequencing and high-resolution melt analysis advance single nucleotide polymorphism discovery in duplicated salmonids
    • doi:10.1111/j.1755-0998.2010.02936.x. PMID:21429141
    • Seeb, J.E., Pascal, C.E., Grau, E.D., Seeb, L.W., Templin, W.D., Harkins, T., and Roberts, S.B. 2011b. Transcriptome sequencing and high-resolution melt analysis advance single nucleotide polymorphism discovery in duplicated salmonids. Mol. Ecol. Resour. 11(2): 335-348. doi:10.1111/j.1755-0998.2010.02936.x. PMID:21429141.
    • (2011) Mol. Ecol. Resour , vol.11 , Issue.2 , pp. 335-348
    • Seeb, J.E.1    Pascal, C.E.2    Grau, E.D.3    Seeb, L.W.4    Templin, W.D.5    Harkins, T.6    Roberts, S.B.7
  • 57
    • 0034471327 scopus 로고    scopus 로고
    • Genetic diversity of sockeye salmon of Cook Inlet, Alaska, and its application to management of populations affected by the Exxon Valdez oil spill
    • doi:10.1577/1548-8659(2000)129<1223:GDOSSO>2.0.CO;2
    • Seeb, L.W., Habicht, C., Templin, W.D., Tarbox, K.E., Davis, R.Z., Brannian, L.K., and Seeb, J.E. 2000. Genetic diversity of sockeye salmon of Cook Inlet, Alaska, and its application to management of populations affected by the Exxon Valdez oil spill. Trans. Am. Fish. Soc. 129(6): 1223-1249. doi:10.1577/1548-8659(2000)129<1223:GDOSSO>2.0.CO;2.
    • (2000) Trans. Am. Fish. Soc , vol.129 , Issue.6 , pp. 1223-1249
    • Seeb, L.W.1    Habicht, C.2    Templin, W.D.3    Tarbox, K.E.4    Davis, R.Z.5    Brannian, L.K.6    Seeb, J.E.7
  • 59
    • 79751491452 scopus 로고    scopus 로고
    • Single nucleotide polymorphisms across a species' range: Implications for conservation studies of Pacific salmon
    • doi:10.1111/j.1755-0998.2010.02966.x. PMID:21429175
    • Seeb, L.W., Templin, W.D., Sato, S., Abe, S., Warheit, K., Park, J.Y., and Seeb, J.E. 2011c. Single nucleotide polymorphisms across a species' range: implications for conservation studies of Pacific salmon. Mol. Ecol. Resour. 11: 195-217. doi:10.1111/j.1755-0998.2010.02966.x. PMID:21429175.
    • (2011) Mol. Ecol. Resour , vol.11 , pp. 195-217
    • Seeb, L.W.1    Templin, W.D.2    Sato, S.3    Abe, S.4    Warheit, K.5    Park, J.Y.6    Seeb, J.E.7
  • 60
    • 0032718203 scopus 로고    scopus 로고
    • Managing fisheries using genetic data: Case studies from four species of Pacific salmon
    • doi:10.1016/S0165-7836(99)00066-1
    • Shaklee, J.B., Beacham, T.D., Seeb, L., and White, B.A. 1999. Managing fisheries using genetic data: case studies from four species of Pacific salmon. Fish Res. 43(1-3): 45-78. doi:10.1016/S0165-7836(99)00066-1.
    • (1999) Fish Res , vol.43 , Issue.1-3 , pp. 45-78
    • Shaklee, J.B.1    Beacham, T.D.2    Seeb, L.3    White, B.A.4
  • 61
    • 33646177325 scopus 로고    scopus 로고
    • Use of sequence data from rainbow trout and Atlantic salmon for SNP detection in Pacific salmon
    • doi:10.1111/j.1365-294X.2005.02731.x. PMID:16262869
    • Smith, C.T., Elfstrom, C.M., Seeb, L.W., and Seeb, J.E. 2005a. Use of sequence data from rainbow trout and Atlantic salmon for SNP detection in Pacific salmon. Mol. Ecol. 14(13): 4193-4203. doi:10.1111/j.1365-294X.2005.02731.x. PMID:16262869.
    • (2005) Mol. Ecol , vol.14 , Issue.13 , pp. 4193-4203
    • Smith, C.T.1    Elfstrom, C.M.2    Seeb, L.W.3    Seeb, J.E.4
  • 62
    • 13844316976 scopus 로고    scopus 로고
    • Use of the 5=-nuclease reaction for single nucleotide polymorphism genotyping in Chinook salmon
    • doi:10.1577/T04-019.1
    • Smith, C.T., Seeb, J.E., Schwenke, P., and Seeb, L.W. 2005b. Use of the 5=-nuclease reaction for single nucleotide polymorphism genotyping in Chinook salmon. Trans. Am. Fish. Soc. 134(1): 207-217. doi:10.1577/T04-019.1.
    • (2005) Trans. Am. Fish. Soc , vol.134 , Issue.1 , pp. 207-217
    • Smith, C.T.1    Seeb, J.E.2    Schwenke, P.3    Seeb, L.W.4
  • 63
    • 23844472888 scopus 로고    scopus 로고
    • Single nucleotide polymorphisms provide rapid and accurate estimates of the proportions of U.S. and Canadian Chinook salmon caught in Yukon River fisheries
    • doi:10.1577/M04-143.1
    • Smith, C.T., Templin, W.D., Seeb, J.E., and Seeb, L.W. 2005c. Single nucleotide polymorphisms provide rapid and accurate estimates of the proportions of U.S. and Canadian Chinook salmon caught in Yukon River fisheries. N. Am. J. Fish. Manage. 25(3): 944-953. doi:10.1577/M04-143.1.
    • (2005) N. Am. J. Fish. Manage , vol.25 , Issue.3 , pp. 944-953
    • Smith, C.T.1    Templin, W.D.2    Seeb, J.E.3    Seeb, L.W.4
  • 64
    • 38349072094 scopus 로고    scopus 로고
    • Impacts of marker class bias relative to locus-specific variability on population inferences in Chinook salmon: A comparison of singlenucleotide polymorphisms with short tandem repeats and allozymes
    • doi:10.1577/T06-227.1
    • Smith, C.T., Antonovich, A., Templin, W.D., Elfstrom, C.M., Narum, S.R., and Seeb, L.W. 2007. Impacts of marker class bias relative to locus-specific variability on population inferences in Chinook salmon: a comparison of singlenucleotide polymorphisms with short tandem repeats and allozymes. Trans. Am. Fish. Soc. 136(6): 1674-1687. doi:10.1577/T06-227.1.
    • (2007) Trans. Am. Fish. Soc , vol.136 , Issue.6 , pp. 1674-1687
    • Smith, C.T.1    Antonovich, A.2    Templin, W.D.3    Elfstrom, C.M.4    Narum, S.R.5    Seeb, L.W.6
  • 65
    • 79951760007 scopus 로고    scopus 로고
    • Multiplex preamplification PCR and microsatellite validation enables accurate single nucleotide polymorphism genotyping of historical fish scales
    • doi:10.1111/j.1755-0998.2010.02965.x
    • Smith, M.J., Pascal, C.E., Grauvogel, Z., Habicht, C., Seeb, J.E., and Seeb, L.W. 2011. Multiplex preamplification PCR and microsatellite validation enables accurate single nucleotide polymorphism genotyping of historical fish scales. Mol. Ecol. Resour. 11(s1): 268-277. doi:10.1111/j.1755-0998.2010.02965.x.
    • (2011) Mol. Ecol. Resour , vol.11 , Issue.s1 , pp. 268-277
    • Smith, M.J.1    Pascal, C.E.2    Grauvogel, Z.3    Habicht, C.4    Seeb, J.E.5    Seeb, L.W.6
  • 66
    • 0038379565 scopus 로고    scopus 로고
    • Evidence for fine-scale natal homing among island beach spawning sockeye salmon, Oncorhynchus nerka
    • doi:10.1023/A:1024436632183
    • Stewart, I.J., Quinn, T.P., and Bentzen, P. 2003. Evidence for fine-scale natal homing among island beach spawning sockeye salmon, Oncorhynchus nerka. Environ. Biol. Fishes, 67(1): 77-85. doi:10.1023/A:1024436632183.
    • (2003) Environ. Biol. Fishes , vol.67 , Issue.1 , pp. 77-85
    • Stewart, I.J.1    Quinn, T.P.2    Bentzen, P.3
  • 67
    • 84869852366 scopus 로고    scopus 로고
    • Rank and order: Evaluating the performance of SNPs for individual assignment in a non-model organism
    • doi:10.1371/journal.pone.0049018. PMID:23185290
    • Storer, C.G., Pascal, C.E., Roberts, S.B., Templin, W.D., Seeb, L.W., and Seeb, J.E. 2012. Rank and order: evaluating the performance of SNPs for individual assignment in a non-model organism. PLoS ONE, 7(11): e49018. doi:10.1371/journal.pone.0049018. PMID:23185290.
    • (2012) PLoS ONE , vol.7 , Issue.11
    • Storer, C.G.1    Pascal, C.E.2    Roberts, S.B.3    Templin, W.D.4    Seeb, L.W.5    Seeb, J.E.6
  • 68
    • 79955999076 scopus 로고    scopus 로고
    • Eastern Bering Sea pollock trawl fisheries: Variation in salmon bycatch over time and space
    • Edited by C.C. Krueger and C.E. Zimmerman. Am. Fish. Soc. Symp. No. 70, Bethesda, Md
    • Stram, D.L., and Ianelli, J.N. 2009. Eastern Bering Sea pollock trawl fisheries: variation in salmon bycatch over time and space. In Pacific salmon: ecology and management in western Alaska's populations. Edited by C.C. Krueger and C.E. Zimmerman. Am. Fish. Soc. Symp. No. 70, Bethesda, Md. pp. 827-850.
    • (2009) Pacific Salmon: Ecology and Management In Western Alaska's Populations , pp. 827-850
    • Stram, D.L.1    Ianelli, J.N.2
  • 69
    • 79951731234 scopus 로고    scopus 로고
    • Genetic differentiation of Alaska Chinook salmon: The missing link for migratory studies
    • doi:10.1111/j.1755-0998.2010.02968.x.PMID:21429177
    • Templin, W.D., Seeb, J.E., Jasper, J.R., Barclay, A.W., and Seeb, L.W. 2011. Genetic differentiation of Alaska Chinook salmon: the missing link for migratory studies. Mol. Ecol. Resour. 11: 226-246. doi:10.1111/j.1755-0998.2010.02968.x.PMID:21429177.
    • (2011) Mol. Ecol. Resour , vol.11 , pp. 226-246
    • Templin, W.D.1    Seeb, J.E.2    Jasper, J.R.3    Barclay, A.W.4    Seeb, L.W.5
  • 71
    • 84858120054 scopus 로고    scopus 로고
    • Life history and seasonal stock-specific ocean migration of juvenile Chinook salmon
    • doi:10.1080/00028487.2011.607035
    • Tucker, S., Trudel, M., Welch, D.W., Candy, J.R., Morris, J.F.T., Thiess, M.E., Wallace, C., and Beacham, T.D. 2011. Life history and seasonal stock-specific ocean migration of juvenile Chinook salmon. Trans. Am. Fish. Soc. 140(4): 1101-1119. doi:10.1080/00028487.2011.607035.
    • (2011) Trans. Am. Fish. Soc , vol.140 , Issue.4 , pp. 1101-1119
    • Tucker, S.1    Trudel, M.2    Welch, D.W.3    Candy, J.R.4    Morris, J.F.T.5    Thiess, M.E.6    Wallace, C.7    Beacham, T.D.8
  • 72
    • 15344348285 scopus 로고    scopus 로고
    • Population genetics, conservation and evolution in salmonids and other widely cultured fishes: Some perspectives over six decades
    • doi:10.1007/s11160-004-3768-9
    • Utter, F. 2004. Population genetics, conservation and evolution in salmonids and other widely cultured fishes: some perspectives over six decades. Rev. Fish Biol. Fish. 14(1): 125-144. doi:10.1007/s11160-004-3768-9.
    • (2004) Rev. Fish Biol. Fish , vol.14 , Issue.1 , pp. 125-144
    • Utter, F.1
  • 73
    • 21144478684 scopus 로고
    • Genetic markers and mixed stock fisheries
    • doi:10.1577/1548-8446(1993)018<0011:GMAMSF>2.0.CO;2
    • Utter, F., and Ryman, N. 1993. Genetic markers and mixed stock fisheries. Fisheries, 18(8): 11-21. doi:10.1577/1548-8446(1993)018<0011:GMAMSF>2.0.CO;2.
    • (1993) Fisheries , vol.18 , Issue.8 , pp. 11-21
    • Utter, F.1    Ryman, N.2
  • 74
    • 0001688065 scopus 로고
    • Temporal changes of allele frequency in Pacific salmon: Implications for mixed-stock fishery analysis
    • doi:10.1139/f90-111
    • Waples, R.S. 1990. Temporal changes of allele frequency in Pacific salmon: implications for mixed-stock fishery analysis. Can. J. Fish. Aquat. Sci. 47(5): 968-976. doi:10.1139/f90-111.
    • (1990) Can. J. Fish. Aquat. Sci , vol.47 , Issue.5 , pp. 968-976
    • Waples, R.S.1
  • 75
    • 41849097466 scopus 로고    scopus 로고
    • Six decades of fishery genetics: Taking stock
    • Waples, R.S., Dickhoff, W.W., Hauser, L., and Ryman, N. 2008. Six decades of fishery genetics: taking stock. Fisheries, 33(2): 76-79.
    • (2008) Fisheries , vol.33 , Issue.2 , pp. 76-79
    • Waples, R.S.1    Dickhoff, W.W.2    Hauser, L.3    Ryman, N.4
  • 76
    • 84899440178 scopus 로고    scopus 로고
    • Moving GSI into the Next Decade: SNP Coordination for Pacific Salmon Treaty Fisheries. Chinook Technical Committee
    • Warheit, K., Seeb, L.W., Templin, W.D., and Seeb, J.E. 2013. Moving GSI into the Next Decade: SNP Coordination for Pacific Salmon Treaty Fisheries. Chinook Technical Committee. Project number N10-8.
    • (2013) Project Number
    • Warheit, K.1    Seeb, L.W.2    Templin, W.D.3    Seeb, J.E.4
  • 77
    • 0021566877 scopus 로고
    • Estimating F-statistics for the analysis of population structure
    • doi:10.2307/2408641
    • Weir, B.S., and Cockerham, C.C. 1984. Estimating F-statistics for the analysis of population structure. Evolution, 38(6): 1358-1370. doi:10.2307/2408641.
    • (1984) Evolution , vol.38 , Issue.6 , pp. 1358-1370
    • Weir, B.S.1    Cockerham, C.C.2
  • 78
    • 43149115851 scopus 로고    scopus 로고
    • Velvet: Algorithms for de novo short read assembly using de Bruijn graphs
    • doi:10.1101/gr.074492.107. PMID:18349386
    • Zerbino, D.R., and Birney, E. 2008. Velvet: algorithms for de novo short read assembly using de Bruijn graphs. Genome Res. 18(5): 821-829. doi:10.1101/gr.074492.107. PMID:18349386.
    • (2008) Genome Res , vol.18 , Issue.5 , pp. 821-829
    • Zerbino, D.R.1    Birney, E.2


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