Development and characterization of tomato SSR markers from genomic sequences of anchored BAC clones on chromosome 6 |
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| Authors: | Subramaniam Geethanjali Kai-Yi Chen Davidson V Pastrana Jaw-Fen Wang |
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| Institution: | 1.AVRDC—The World Vegetable Center,Tainan,Taiwan;2.Department of Agronomy,National Taiwan University,Taipei,Taiwan;3.Institute of Biological Sciences,University of the Philippines, Los Ban?s,Laguna,Philippines |
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| Abstract: | Simple sequence repeat motifs are abundant in plant genomes and are commonly used molecular markers in plant breeding. In
tomato, currently available genetic maps possess a limited number of simple sequence repeat (SSR) markers that are not evenly
distributed in the genome. This situation warrants the need for more SSRs in genomic regions lacking adequate markers. The
objective of the study was to develop SSR markers pertaining to chromosome 6 from bacterial artificial chromosome (BAC) sequences
available at Solanaceae Genomics Network. A total of 54 SSR primer pairs from 17 BAC clones on chromosome 6 were designed
and validated. Polymorphism of these loci was evaluated in a panel of 16 genotypes comprising of Solanum lycopersicum and its wild relatives. Genetic diversity analysis based on these markers could distinguish genotypes at species level. Twenty-one
SSR markers derived from 13 BAC clones were polymorphic between two closely related tomato accessions, West Virginia 700 and
Hawaii 7996 and were mapped using a recombinant inbred line population derived from a cross between these two accessions.
The markers were distributed throughout the chromosome spanning a total length of 117.6 cM following the order of the original
BAC clones. A major QTL associated with resistance to bacterial wilt was mapped on chromosome 6 at similar location of the
reported Bwr-6 locus. These chromosome 6-specific SSR markers developed in this study are useful tools for cultivar identification, genetic
diversity analysis and genetic mapping in tomato. |
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