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SSR-based linkage map with new markers using an intraspecific population of common wheat.
Theor Appl Genet. 2006 Apr; 112(6):1042-51.TA

Abstract

Simple sequence repeats (SSRs) are valuable molecular markers in many plant species. In common wheat (Triticum aestivum L.), which is characteristic of its large genomes and alloploidy, SSRs are one of the most useful markers. To increase SSR marker sources and construct an SSR-based linkage map of appropriate density, we tried to develop new SSR markers from SSR-enriched genomic libraries and the public database. SSRs having (GA)n and (GT)n motifs were isolated from enriched libraries, and di- and tri-nucleotide repeats were mined from expressed sequence tags (ESTs) and DNA sequences of Triticum species in the public database. Of the 1,147 primer pairs designed, 842 primers gave accurate amplification products, and 478 primers showed polymorphism among the nine wheat lines examined. Using a doubled haploid (DH) population from an intraspecific cross between Kitamoe and Münstertaler (KM), we constructed an SSR-based linkage map that consisted of 464 loci: 185 loci from genomic libraries, 65 loci from the sequence database including ESTs, 213 loci from the SSR markers already reported, and 1 locus of morphological marker. Although newly developed SSR loci were distributed throughout all chromosomes, clustering of them around putative centromeric regions was found on several chromosomes. The total length of the KM map spanned 3,441 cM and corresponded to approximately 86% genome coverage. The KM map comprised of 23 linkage groups because two gaps of over 50 cM distance remained on chromosome 6A. This is a first report of SSR-based linkage map using single intraspecific population of common wheat. This mapping result suggests that it becomes possible to construct linkage maps with sufficient genome coverage using only SSR markers without RFLP markers, even in an intraspecific population of common wheat. Moreover, the new SSR markers will contribute to the enrichment of molecular marker resources in common wheat.

Authors+Show Affiliations

Torada A
Hokkaido Green-Bio Institute, Higashi-5 Kita-15, 069-1317 Naganuma, Hokkaido, Japan. torada@mb.infoweb.ne.jp
Koike M
No affiliation info available
Mochida K
No affiliation info available
Ogihara Y
No affiliation info available

MeSH

Chromosome MappingChromosomes, PlantDNA, PlantExpressed Sequence TagsGenes, PlantGenetic LinkageGenetic MarkersGenome, PlantGenotypeHaploidyMicrosatellite RepeatsMinisatellite RepeatsPolymorphism, Restriction Fragment LengthPolymorphism, Single-Stranded ConformationalTriticum

Pub Type(s)

Journal Article
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

16450184

Citation

Torada, Atsushi, et al. "SSR-based Linkage Map With New Markers Using an Intraspecific Population of Common Wheat." TAG. Theoretical and Applied Genetics. Theoretische Und Angewandte Genetik, vol. 112, no. 6, 2006, pp. 1042-51.
Torada A, Koike M, Mochida K, et al. SSR-based linkage map with new markers using an intraspecific population of common wheat. Theor Appl Genet. 2006;112(6):1042-51.
Torada, A., Koike, M., Mochida, K., & Ogihara, Y. (2006). SSR-based linkage map with new markers using an intraspecific population of common wheat. TAG. Theoretical and Applied Genetics. Theoretische Und Angewandte Genetik, 112(6), 1042-51.
Torada A, et al. SSR-based Linkage Map With New Markers Using an Intraspecific Population of Common Wheat. Theor Appl Genet. 2006;112(6):1042-51. PubMed PMID: 16450184.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - SSR-based linkage map with new markers using an intraspecific population of common wheat. AU - Torada,Atsushi, AU - Koike,Michiya, AU - Mochida,Keiichi, AU - Ogihara,Yasunari, Y1 - 2006/02/01/ PY - 2005/06/16/received PY - 2005/12/28/accepted PY - 2006/2/2/pubmed PY - 2006/6/14/medline PY - 2006/2/2/entrez SP - 1042 EP - 51 JF - TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik JO - Theor Appl Genet VL - 112 IS - 6 N2 - Simple sequence repeats (SSRs) are valuable molecular markers in many plant species. In common wheat (Triticum aestivum L.), which is characteristic of its large genomes and alloploidy, SSRs are one of the most useful markers. To increase SSR marker sources and construct an SSR-based linkage map of appropriate density, we tried to develop new SSR markers from SSR-enriched genomic libraries and the public database. SSRs having (GA)n and (GT)n motifs were isolated from enriched libraries, and di- and tri-nucleotide repeats were mined from expressed sequence tags (ESTs) and DNA sequences of Triticum species in the public database. Of the 1,147 primer pairs designed, 842 primers gave accurate amplification products, and 478 primers showed polymorphism among the nine wheat lines examined. Using a doubled haploid (DH) population from an intraspecific cross between Kitamoe and Münstertaler (KM), we constructed an SSR-based linkage map that consisted of 464 loci: 185 loci from genomic libraries, 65 loci from the sequence database including ESTs, 213 loci from the SSR markers already reported, and 1 locus of morphological marker. Although newly developed SSR loci were distributed throughout all chromosomes, clustering of them around putative centromeric regions was found on several chromosomes. The total length of the KM map spanned 3,441 cM and corresponded to approximately 86% genome coverage. The KM map comprised of 23 linkage groups because two gaps of over 50 cM distance remained on chromosome 6A. This is a first report of SSR-based linkage map using single intraspecific population of common wheat. This mapping result suggests that it becomes possible to construct linkage maps with sufficient genome coverage using only SSR markers without RFLP markers, even in an intraspecific population of common wheat. Moreover, the new SSR markers will contribute to the enrichment of molecular marker resources in common wheat. SN - 0040-5752 UR - https://www.unboundmedicine.com/medline/citation/16450184/SSR_based_linkage_map_with_new_markers_using_an_intraspecific_population_of_common_wheat_ DB - PRIME DP - Unbound Medicine ER -