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An Improved Consensus Linkage Map of Barley Based on Flow-Sorted Chromosomes and Single Nucleotide Polymorphism Markers

AuthorsMuñoz-Amatriaín, María CSIC; Castillo Alonso, Ana María CSIC ORCID ; Cistué Sola, Luis CSIC ORCID ; Vallés Brau, María Pilar CSIC ORCID CVN
Issue DateNov-2011
PublisherCrop Science Society of America
CitationMuñoz-Amatriaín M, et al. An Improved Consensus Linkage Map of Barley Based on Flow-Sorted Chromosomes and Single Nucleotide Polymorphism Markers. Plant Genome 4:238–249 (2011)
AbstractRecent advances in high-throughput genotyping have made it easier to combine information from different mapping populations into consensus genetic maps, which provide increased marker density and genome coverage compared to individual maps. Previously, a single nucleotide polymorphism (SNP)-based genotyping platform was developed and used to genotype 373 individuals in four barley (Hordeum vulgare L.) mapping populations. This led to a 2943 SNP consensus genetic map with 975 unique positions. In this work, we add data from six additional populations and more individuals from one of the original populations to develop an improved consensus map from 1133 individuals. A stringent and systematic analysis of each of the 10 populations was performed to achieve uniformity. This involved reexamination of the four populations included in the previous map. As a consequence, we present a robust consensus genetic map that contains 2994 SNP loci mapped to 1163 unique positions. The map spans 1137.3 cM with an average density of one marker bin per 0.99 cM. A novel application of the genotyping platform for gene detection allowed the assignment of 2930 genes to flow-sorted chromosomes or arms, confirmed the position of 2545 SNP-mapped loci, added chromosome or arm allocations to an additional 370 SNP loci, and delineated pericentromeric regions for chromosomes 2H to 7H. Marker order has been improved and map resolution has been increased by almost 20%. These increased precision outcomes enable more optimized SNP selection for markerassisted breeding and support association genetic analysis and map-based cloning. It will also improve the anchoring of DNA sequence scaffolds and the barley physical map to the genetic map.
Description12 Pags., 6 Tabls., 1 Fig. The complet list of authors is: María Muñoz-Amatriaín, Matthew J. Moscou, Prasanna R. Bhat, Jan T. Svensson, Jan Bartoš, Pavla Suchánková, Hana Šimková, Takashi R. Endo, Raymond D. Fenton, Stefano Lonardi, Ana M. Castillo, Shiaoman Chao, Luis Cistué, Alfonso Cuesta-Marcos, Kerrie L. Forrest, Matthew J. Hayden, Patrick M. Hayes, Richard D. Horsley, Kihara Makoto, David Moody, Kazuhiro Sato, María P. Vallés, Brande B.H. Wulff, Gary J. Muehlbauer, Jaroslav Doležel, and Timothy J. Close.
Publisher version (URL)http://dx.doi.org/10.3835/plantgenome2011.08.0023
Appears in Collections:(EEAD) Artículos
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