title: Molecular Mapping of Restriction-Site Associated DNA Markers In Allotetraploid Upland Cotton.
abstract: Upland cotton (Gossypium hirsutum L., 2n = 52, AADD) is an allotetraploid, therefore the discovery of single nucleotide polymorphism (SNP) markers is difficult. The recent emergence of genome complexity reduction technologies based on the next-generation sequencing (NGS) platform has greatly expedited SNP discovery in crops with highly repetitive and complex genomes. Here we applied restriction-site associated DNA (RAD) sequencing technology for de novo SNP discovery in allotetraploid cotton. We identified 21,109 SNPs between the two parents and used these for genotyping of 161 recombinant inbred lines (RILs). Finally, a high dense linkage map comprising 4,153 loci over 3500-cM was developed based on the previous result. Using this map quantitative trait locus (QTLs) conferring fiber strength and Verticillium Wilt (VW) resistance were mapped to a more accurate region in comparison to the 1576-cM interval determined using the simple sequence repeat (SSR) genetic map. This suggests that the newly constructed map has more power and resolution than the previous SSR map. It will pave the way for the rapid identification of the marker-assisted selection in cotton breeding and cloning of QTL of interest traits.
authors.affiliation: National Key Laboratory of Crop Genetics and Germplasm Enhancement, Cotton Hybrid R & D Engineering Center (the Ministry of Education), Nanjing Agricultural University, Nanjing 210095, China.
authors.forename: Yangkun
authors.initials: Y
authors.lastname: Wang
authors.affiliation: National Key Laboratory of Crop Genetics and Germplasm Enhancement, Cotton Hybrid R & D Engineering Center (the Ministry of Education), Nanjing Agricultural University, Nanjing 210095, China.
authors.forename: Zhiyuan
authors.initials: Z
authors.lastname: Ning
authors.affiliation: National Key Laboratory of Crop Genetics and Germplasm Enhancement, Cotton Hybrid R & D Engineering Center (the Ministry of Education), Nanjing Agricultural University, Nanjing 210095, China.
authors.forename: Yan
authors.initials: Y
authors.lastname: Hu
authors.affiliation: National Key Laboratory of Crop Genetics and Germplasm Enhancement, Cotton Hybrid R & D Engineering Center (the Ministry of Education), Nanjing Agricultural University, Nanjing 210095, China.
authors.forename: Jiedan
authors.initials: J
authors.lastname: Chen
authors.affiliation: National Key Laboratory of Crop Genetics and Germplasm Enhancement, Cotton Hybrid R & D Engineering Center (the Ministry of Education), Nanjing Agricultural University, Nanjing 210095, China.
authors.forename: Rui
authors.initials: R
authors.lastname: Zhao
authors.affiliation: Cotton Research Institute, Xinjiang Academy of Agricultural and Reclamation Sciences, Shihezi 832000, Xinjiang, China.
authors.forename: Hong
authors.initials: H
authors.lastname: Chen
authors.affiliation: Shihezi Agricultural Sci & Tec Research Center, Shihezi 832000, Xinjiang, China.
authors.forename: Nijiang
authors.initials: N
authors.lastname: Ai
authors.affiliation: National Key Laboratory of Crop Genetics and Germplasm Enhancement, Cotton Hybrid R & D Engineering Center (the Ministry of Education), Nanjing Agricultural University, Nanjing 210095, China.
authors.forename: Wangzhen
authors.initials: W
authors.lastname: Guo
authors.affiliation: National Key Laboratory of Crop Genetics and Germplasm Enhancement, Cotton Hybrid R & D Engineering Center (the Ministry of Education), Nanjing Agricultural University, Nanjing 210095, China.
authors.forename: Tianzhen
authors.initials: T
authors.lastname: Zhang
mesh_terms: D002874:Chromosome Mapping / Q000379:methods*; D018744:DNA, Plant / Q000737:chemistry*; D008040:Genetic Linkage; D005819:Genetic Markers; D016678:Genome; D018745:Genome, Plant; D005838:Genotype; D003368:Gossypium / Q000235:genetics*; D059014:High-Throughput Nucleotide Sequencing; D018895:Microsatellite Repeats; D020641:Polymorphism, Single Nucleotide; D011123:Polyploidy; D040641:Quantitative Trait Loci; D017422:Sequence Analysis, DNA; D013696:Temperature
chemical_list: D018744:DNA, Plant; D005819:Genetic Markers