Abstract
Simple sequence repeats (SSRs) have been widely used in the construction of linkage maps, quantitative trait loci (QTLs) mapping, and marker-assisted selection (MAS). The availability of the sequenced Actinidia chinensis (kiwifruit) genome allows for the inexpensive and efficient development of microsatellite markers. In this study, a total of 49,067 SSRs were identified and characterized in the genome sequences of kiwifruit. Dinucleotide repeats are the most abundant SSRs, with the AG/TC motif accounting for 44.2 % of all SSRs in the genome. Fifty-five newly derived SSRs, together with 46 previously available SSRs, were integrated into linkage maps of an interspecific kiwifruit population. In addition, eight sex-linked SSR markers (including one previously published SSR) were mapped in the sex-related region on the LG25, suggesting that recombination is partially suppressed to maintain dioecy in kiwifruit. The SSRs developed from this study are a valuable resource for kiwifruit genetics and will contribute to the use of MAS in early sex determination of dioecious plant breeding.
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Acknowledgments
We are thankful for the plant samples provided by the National Actinidia Germplasm Repository of China. We are grateful to Dawei Li, Fei Han, and Xiaoli Liu for their help in sample collection. We thank Dr. Honour McCann for the help in polishing language. This work was supported by grants from the National Natural Science Foundation of China (31301749) and the Wuhan Applied Basic Research Project (2015020101010075).
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Data archiving statement
All SSRs identified including position, motif, primers, and flanking sequences were deposited at NCBI under accession number Pr032756447-Pr032805513.
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Communicated by C. Chen
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Liu, C., Zhang, Q., Yao, X. et al. Characterization of genome-wide simple sequence repeats and application in interspecific genetic map integration in kiwifruit. Tree Genetics & Genomes 12, 21 (2016). https://doi.org/10.1007/s11295-016-0982-2
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DOI: https://doi.org/10.1007/s11295-016-0982-2