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Volumn 8, Issue 5, 2013, Pages

Linkage Analysis and QTL Mapping Using SNP Dosage Data in a Tetraploid Potato Mapping Population

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; CLUSTER ANALYSIS; GENETIC LINKAGE; GENETIC RECOMBINATION; GENOTYPE; LIMIT OF DETECTION; LINKAGE ANALYSIS; NONHUMAN; PLANT CHROMOSOME; POTATO; QUANTITATIVE TRAIT LOCUS MAPPING; SEGREGATION ANALYSIS; SINGLE NUCLEOTIDE POLYMORPHISM; TETRAPLOIDY;

EID: 84877979569     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0063939     Document Type: Article
Times cited : (106)

References (41)
  • 1
    • 37349012161 scopus 로고    scopus 로고
    • QTL mapping of yield, agronomic and quality traits in tetraploid potato (Solanum tuberosum subsp. tuberosum)
    • Bradshaw JE, Hackett CA, Pande B, Waugh R, Bryan GJ, (2008) QTL mapping of yield, agronomic and quality traits in tetraploid potato (Solanum tuberosum subsp. tuberosum). Theor Appl Genet 116: 193-211.
    • (2008) Theor Appl Genet , vol.116 , pp. 193-211
    • Bradshaw, J.E.1    Hackett, C.A.2    Pande, B.3    Waugh, R.4    Bryan, G.J.5
  • 3
    • 26944446969 scopus 로고    scopus 로고
    • An expressed sequence tag SSR map of tetraploid alfalfa (Nedieago sativa L.)
    • Sledge MK, Ray IM, Jiang G, (2005) An expressed sequence tag SSR map of tetraploid alfalfa (Nedieago sativa L.). Theor Appl Genet 111: 980-992.
    • (2005) Theor Appl Genet , vol.111 , pp. 980-992
    • Sledge, M.K.1    Ray, I.M.2    Jiang, G.3
  • 4
    • 33847256495 scopus 로고    scopus 로고
    • Genetic mapping of biomass production in tetraploid alfalfa (Medicago sativa L.)
    • Robins JG, Luth D, Campbell TA, Bauchan GR, He C, et al. (2007) Genetic mapping of biomass production in tetraploid alfalfa (Medicago sativa L.). Crop Sci 47: 1-10.
    • (2007) Crop Sci , vol.47 , pp. 1-10
    • Robins, J.G.1    Luth, D.2    Campbell, T.A.3    Bauchan, G.R.4    He, C.5
  • 5
    • 84856728049 scopus 로고    scopus 로고
    • High-resolution melting analysis for SNP genotyping and mapping in tetraploid alfalfa (Medicago sativa L.)
    • Han YH, Khu DM, Monteros MJ, (2012) High-resolution melting analysis for SNP genotyping and mapping in tetraploid alfalfa (Medicago sativa L.). Mol Breed 29: 489-501.
    • (2012) Mol Breed , vol.29 , pp. 489-501
    • Han, Y.H.1    Khu, D.M.2    Monteros, M.J.3
  • 6
    • 80052291629 scopus 로고    scopus 로고
    • Construction of a simple sequence repeat marker-based genetic linkage map in the autotetraploid forage grass Dactylis glomerata L
    • Song Y, Liu F, Zhu Z, Tan L, Fu Y, et al. (2011) Construction of a simple sequence repeat marker-based genetic linkage map in the autotetraploid forage grass Dactylis glomerata L. Grass Sci 57: 158-167.
    • (2011) Grass Sci , vol.57 , pp. 158-167
    • Song, Y.1    Liu, F.2    Zhu, Z.3    Tan, L.4    Fu, Y.5
  • 7
    • 34547135685 scopus 로고    scopus 로고
    • A genetic map of tetraploid Paspalum notatum Flügge (bahiagrass) based on single-dose molecular markers
    • Stein J, Pessino SC, Martinez EJ, Rodriguez MP, Siena LA, et al. (2007) A genetic map of tetraploid Paspalum notatum Flügge (bahiagrass) based on single-dose molecular markers. Mol Breed 20: 153-166.
    • (2007) Mol Breed , vol.20 , pp. 153-166
    • Stein, J.1    Pessino, S.C.2    Martinez, E.J.3    Rodriguez, M.P.4    Siena, L.A.5
  • 8
    • 79957598239 scopus 로고    scopus 로고
    • An autotetraploid linkage map of rose (Rosa hybrida) validated using the strawberry (Fragaria vesca) genome sequence
    • doi:10.1371/journal.pone.0020463
    • Gar O, Sargent DJ, Tsai C-J, Pleban T, Shalev G, et al. (2011) An autotetraploid linkage map of rose (Rosa hybrida) validated using the strawberry (Fragaria vesca) genome sequence. PLoS ONE 6: e20463 doi:10.1371/journal.pone.0020463.
    • (2011) PLoS ONE , vol.6
    • Gar, O.1    Sargent, D.J.2    Tsai, C.-J.3    Pleban, T.4    Shalev, G.5
  • 9
    • 54449098752 scopus 로고    scopus 로고
    • Rapid SNP discovery and genetic mapping using sequenced RAD markers
    • doi:10.1371/journal.pone.0003376
    • Baird NA, Etter PD, Atwood TS, Currey MC, Shiver AL, et al. (2008) Rapid SNP discovery and genetic mapping using sequenced RAD markers. PLoS ONE 3: e3376 doi:10.1371/journal.pone.0003376.
    • (2008) PLoS ONE , vol.3
    • Baird, N.A.1    Etter, P.D.2    Atwood, T.S.3    Currey, M.C.4    Shiver, A.L.5
  • 10
    • 79955783956 scopus 로고    scopus 로고
    • A robust, simple genotyping-by-sequencing approach for high diversity species
    • doi:10.1371/journal.pone.0019379
    • Elshire RJ, Glaubitz JC, Sun Q, Poland JE, Kawamoto K, et al. (2011) A robust, simple genotyping-by-sequencing approach for high diversity species. PLoS ONE 6: e19379 doi:10.1371/journal.pone.0019379.
    • (2011) PLoS ONE , vol.6
    • Elshire, R.J.1    Glaubitz, J.C.2    Sun, Q.3    Poland, J.E.4    Kawamoto, K.5
  • 11
    • 79956025063 scopus 로고    scopus 로고
    • Genotype calling in tetraploid species from bi-allelic marker data using mixture models
    • Voorrips RE, Gort G, Vosman B, (2011) Genotype calling in tetraploid species from bi-allelic marker data using mixture models. BMC Bioinformatics 12: 172.
    • (2011) BMC Bioinformatics , vol.12 , pp. 172
    • Voorrips, R.E.1    Gort, G.2    Vosman, B.3
  • 12
    • 84857184500 scopus 로고    scopus 로고
    • Efficient exact maximum a posterior computation for Bayesian SNP genotyping in polyploids
    • Serang O, Mollinari M, Garcia AAF, (2012) Efficient exact maximum a posterior computation for Bayesian SNP genotyping in polyploids. PLoS ONE 7: e30906.
    • (2012) PLoS ONE , vol.7
    • Serang, O.1    Mollinari, M.2    Garcia, A.A.F.3
  • 13
    • 0035099904 scopus 로고    scopus 로고
    • Construction of a genetic linkage map in tetraploid species using molecular markers
    • Luo ZW, Hackett CA, Bradshaw JE, McNicol JW, Milbourne DM, (2001) Construction of a genetic linkage map in tetraploid species using molecular markers. Genetics 157: 1369-1385.
    • (2001) Genetics , vol.157 , pp. 1369-1385
    • Luo, Z.W.1    Hackett, C.A.2    Bradshaw, J.E.3    McNicol, J.W.4    Milbourne, D.M.5
  • 14
    • 0035692256 scopus 로고    scopus 로고
    • Interval mapping of QTLs in autotetraploid species
    • Hackett CA, Bradshaw JE, McNicol JW, (2001) Interval mapping of QTLs in autotetraploid species. Genetics 159: 1819-1832.
    • (2001) Genetics , vol.159 , pp. 1819-1832
    • Hackett, C.A.1    Bradshaw, J.E.2    McNicol, J.W.3
  • 15
    • 0031657515 scopus 로고    scopus 로고
    • Linkage analysis in tetraploid potato and association of markers with quantitative resistance to late blight (Phytophthora infestans)
    • Meyer RC, Milbourne DM, Hackett CA, Bradshaw JE, McNicol JW, et al. (1998) Linkage analysis in tetraploid potato and association of markers with quantitative resistance to late blight (Phytophthora infestans). Mol Gen Genet 259: 150-160.
    • (1998) Mol Gen Genet , vol.259 , pp. 150-160
    • Meyer, R.C.1    Milbourne, D.M.2    Hackett, C.A.3    Bradshaw, J.E.4    McNicol, J.W.5
  • 16
    • 8544249196 scopus 로고    scopus 로고
    • Interval mapping of quantitative trait loci for resistance to late blight [Phytophthora infestans (Mont.) de Bary], height and maturity in a tetraploid population of potato (Solanum tuberosum subsp tuberosum)
    • Bradshaw JE, Pande B, Bryan GJ, Hackett CA, McLean K, et al. (2004) Interval mapping of quantitative trait loci for resistance to late blight [Phytophthora infestans (Mont.) de Bary], height and maturity in a tetraploid population of potato (Solanum tuberosum subsp tuberosum). Genetics 168: 983-995.
    • (2004) Genetics , vol.168 , pp. 983-995
    • Bradshaw, J.E.1    Pande, B.2    Bryan, G.J.3    Hackett, C.A.4    McLean, K.5
  • 17
    • 4444350575 scopus 로고    scopus 로고
    • Genetical dissection of H3-mediated polygenic PCN resistance in a heterozygous autotetraploid potato population
    • Bryan GJ, McLean K, Pande B, Purvis A, Hackett CA, et al. (2004) Genetical dissection of H3-mediated polygenic PCN resistance in a heterozygous autotetraploid potato population. Mol Breed 14: 105-116.
    • (2004) Mol Breed , vol.14 , pp. 105-116
    • Bryan, G.J.1    McLean, K.2    Pande, B.3    Purvis, A.4    Hackett, C.A.5
  • 18
    • 84860442706 scopus 로고    scopus 로고
    • Integration of two diploid potato linkage maps with the potato genome sequence
    • doi:10.1371/journal.pone.0036347
    • Felcher KJ, Coombs JJ, Massa AN, Hansey CN, Hamilton JP, et al. (2012) Integration of two diploid potato linkage maps with the potato genome sequence. PLoS ONE 7: e36347 doi: 10.1371/journal.pone.0036347.
    • (2012) PLoS ONE , vol.7
    • Felcher, K.J.1    Coombs, J.J.2    Massa, A.N.3    Hansey, C.N.4    Hamilton, J.P.5
  • 20
    • 0031853175 scopus 로고    scopus 로고
    • Identification of AFLP and SSR markers associated with quantitative resistance to Globodera pallida (Stone) in tetraploid potato (Solanum tuberosum subsp. tuberosum) with a view to marker-assisted selection
    • Bradshaw JE, Meyer RC, Milbourne D, McNicol JW, Phillips MS, et al. (1998) Identification of AFLP and SSR markers associated with quantitative resistance to Globodera pallida (Stone) in tetraploid potato (Solanum tuberosum subsp. tuberosum) with a view to marker-assisted selection. Theor Appl Genet 97: 202-210.
    • (1998) Theor Appl Genet , vol.97 , pp. 202-210
    • Bradshaw, J.E.1    Meyer, R.C.2    Milbourne, D.3    McNicol, J.W.4    Phillips, M.S.5
  • 21
    • 4544320602 scopus 로고    scopus 로고
    • Dissection and analysis of quantitative disease resistance in tetraploid potato
    • Bradshaw JE, Bryan GJ, Hackett CA, McLean K, Pande B, et al. (2004) Dissection and analysis of quantitative disease resistance in tetraploid potato. Euphytica 137: 13-18.
    • (2004) Euphytica , vol.137 , pp. 13-18
    • Bradshaw, J.E.1    Bryan, G.J.2    Hackett, C.A.3    McLean, K.4    Pande, B.5
  • 22
    • 54949156063 scopus 로고    scopus 로고
    • Normalization of Illumina Infinium whole-genome SNP data improves copy number estimates and allelic intensity ratios
    • doi:10.1186/1471-2105-9-409
    • Staaf J, Vallon-Christersson J, Lindgren D, Juliusson G, Rosenquist R, et al. (2008) Normalization of Illumina Infinium whole-genome SNP data improves copy number estimates and allelic intensity ratios. BMC Bioinformatics 9doi:10.1186/1471-2105-9-409.
    • (2008) BMC Bioinformatics , vol.9
    • Staaf, J.1    Vallon-Christersson, J.2    Lindgren, D.3    Juliusson, G.4    Rosenquist, R.5
  • 23
    • 84936916896 scopus 로고
    • Robust locally-weighted regression and smoothing scatterplots
    • Cleveland WS, (1979) Robust locally-weighted regression and smoothing scatterplots. J Am Stat Ass 74: 829-836.
    • (1979) J Am Stat Ass , vol.74 , pp. 829-836
    • Cleveland, W.S.1
  • 24
    • 0001204533 scopus 로고
    • A general mixture model for mapping quantitative trait loci by using molecular markers
    • Jansen RC, (1992) A general mixture model for mapping quantitative trait loci by using molecular markers. Theor Appl Genet 85: 252-260.
    • (1992) Theor Appl Genet , vol.85 , pp. 252-260
    • Jansen, R.C.1
  • 25
    • 0001138328 scopus 로고
    • Algorithm AS 136: A K-Means Clustering Algorithm
    • Hartigan JA, Wong MA, (1979) Algorithm AS 136: A K-Means Clustering Algorithm. J Roy Stat Soc C 28: 100-108.
    • (1979) J Roy Stat Soc C , vol.28 , pp. 100-108
    • Hartigan, J.A.1    Wong, M.A.2
  • 26
    • 0000120766 scopus 로고
    • Estimating the dimension of a model
    • Schwarz GE, (1978) Estimating the dimension of a model. Ann Stat 6: 461-464.
    • (1978) Ann Stat , vol.6 , pp. 461-464
    • Schwarz, G.E.1
  • 27
    • 0027141103 scopus 로고
    • Segregation of random amplified polymorphic DNA markers and strategies for molecular mapping in tetraploid alfalfa
    • Yu KF, Pauls KP, (1993) Segregation of random amplified polymorphic DNA markers and strategies for molecular mapping in tetraploid alfalfa. Genome 36: 844-851.
    • (1993) Genome , vol.36 , pp. 844-851
    • Yu, K.F.1    Pauls, K.P.2
  • 29
    • 7344254829 scopus 로고
    • Construction of integrated genetic linkage maps by means of a new computer package: JOINMAP
    • Stam P, (1993) Construction of integrated genetic linkage maps by means of a new computer package: JOINMAP. Plant J 3: 729-744.
    • (1993) Plant J , vol.3 , pp. 729-744
    • Stam, P.1
  • 30
    • 0024610919 scopus 로고
    • A tutorial on Hidden Markov Models and selected applications in speech recognition
    • Rabiner LR, (1989) A tutorial on Hidden Markov Models and selected applications in speech recognition. Proceedings of the IEEE 77: 257-286.
    • (1989) Proceedings of the IEEE , vol.77 , pp. 257-286
    • Rabiner, L.R.1
  • 34
    • 79960422847 scopus 로고    scopus 로고
    • Genome sequence and analysis of the tuber crop potato
    • The Potato Genome Sequencing Consortium
    • The Potato Genome Sequencing Consortium (2011) Genome sequence and analysis of the tuber crop potato. Nature 475: 189-197.
    • (2011) Nature , vol.475 , pp. 189-197
  • 35
    • 0002041185 scopus 로고
    • Reductional and equational separation of the chromosomes in bivalents and multivalents
    • Mather K, (1935) Reductional and equational separation of the chromosomes in bivalents and multivalents. J Genet 30: 53-78.
    • (1935) J Genet , vol.30 , pp. 53-78
    • Mather, K.1
  • 36
    • 0001325094 scopus 로고
    • Segregation and linkage in autotetraploids
    • Mather K, (1936) Segregation and linkage in autotetraploids. J Genet 32: 287-314.
    • (1936) J Genet , vol.32 , pp. 287-314
    • Mather, K.1
  • 40
    • 0036932478 scopus 로고    scopus 로고
    • Mapping QTLs for resistance to the cyst nematode Globodera pallida derived from the wild potato species Solanum vernei
    • Bryan GJ, McLean K, Bradshaw JE, de Jong W, Phillips MS, et al. (2002) Mapping QTLs for resistance to the cyst nematode Globodera pallida derived from the wild potato species Solanum vernei. Theor Appl Genet 105: 68-77.
    • (2002) Theor Appl Genet , vol.105 , pp. 68-77
    • Bryan, G.J.1    McLean, K.2    Bradshaw, J.E.3    de Jong, W.4    Phillips, M.S.5
  • 41
    • 33745375367 scopus 로고    scopus 로고
    • Construction of a 10,000-marker ultradense genetic recombination map of potato: Providing a framework for accelerated gene isolation and a genomewide physical map
    • van Os H, Andrzejewski S, Bakker E, Barrena I, Bryan GJ, et al. (2006) Construction of a 10,000-marker ultradense genetic recombination map of potato: Providing a framework for accelerated gene isolation and a genomewide physical map. Genetics 173: 1075-1087.
    • (2006) Genetics , vol.173 , pp. 1075-1087
    • van Os, H.1    Andrzejewski, S.2    Bakker, E.3    Barrena, I.4    Bryan, G.J.5


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