期刊
SCIENTIA HORTICULTURAE
卷 247, 期 -, 页码 58-66出版社
ELSEVIER
DOI: 10.1016/j.scienta.2018.12.001
关键词
InDel markers; Linkage map; Next generation sequencing; Solanum spp.; Variant calling
类别
资金
- BEC.AR Programme
Next generation sequencing technologies have become affordable for most plant breeding programs. In this study we sequenced the entire genome of the Solanum lycopersicum L. cultivar Caimanta and S. pimpinellifolium L. accession LA0722 with assembly relative to the Heinz 1706 reference version SL2.50. We present 1) analysis of the amount and distribution of polymorphism in Caimanta and LA0722, 2) examination of alleles in candidate genes affecting disease resistance, fruit shape, fruit weight and fruit quality and 3) development of molecular markers to construct a genetic linkage map based on a F-2 population. A total of 1,397,518 polymorphisms were detected in the comparison between Caimanta and LA0722. A resistant allele for Rx4/Xv3 was detected by sequence, and confirmed through inoculation. - We developed a set of insertion/deletion (InDel) DNA markers that can be multiplexed and scored using easily accessed genotyping platforms. These markers were used to construct a genetic linkage map. We demonstrate that the whole genome sequencing of parental lines can be successfully used to reveal phenotypes and characterize a reference population through easily accessed genotyping strategies.
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