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Publication Type J
Authors Endo, C., N. Yamamoto, M. Kobayashi, Y. Nakamura, K. Yokoyama, T. Kurusu, K. Yano and Y. Tada
Title Development of simple sequence repeat markers in the halophytic turf grass Sporobolus virginicus and transferable genotyping across multiple grass genera/species/genotypes
Source Euphytica
Author Keywords Genotyping Halophyte Sporobolus virginicus Simple sequence repeat (SSR) marker Transferability Turf grass est-ssr markers cross-species amplification microsatellite markers l kunth medicago-truncatula salt tolerance rice l. wheat barley
Abstract Simple sequence repeat (SSR) markers are highly informative and widely used in genetic studies and plant breeding. Sporobolus virginicus is a halo-phytic turf grass that shows a high tolerance to salinity of up to 1.5 M NaCl. In the present study, we developed 148,411 SSR markers on 48,512 transcrip-tome contigs derived from RNA sequencing data. Of 33 randomly selected SSR markers, 23 (69.7%) produced clean amplification products, and an average of 1.25 alleles per marker was detected in S. virginicus genotypes. These markers were also examined by detecting polymorphisms across 19 different genera/ species/genotypes in Poaceae, resulting in a high percentage (40%) of transferability. The sequencing of amplified products from these genera/ species/genotypes revealed a high level of sequence similarity; however, substitutions, deletions, and insertions were detected not only in the objective SSRs but also in their flanking sequences. This is the first study on SSR marker development from S. virginicus. These SSR markers are useful for mapping the genes in and the breeding of S. virginicus and also for comparative genomics across genera/species/genotypes in Poaceae.
Author Address [Endo, Chisato; Kurusu, Takamitsu; Tada, Yuichi] Tokyo Univ Technol, Sch Biosci & Biotechnol, 1404-1 Katakura, Hachioji, Tokyo 1920982, Japan. [Yamamoto, Naoki; Kobayashi, Masaaki; Nakamura, Yukino; Yokoyama, Koji; Yano, Kentaro] Meiji Univ, Bioinformat Lab, Dept Life Sci, Sch Agr,Tama Ku, 1-1-1 Higashimita, Kawasaki, Kanagawa 2148571, Japan. [Yamamoto, Naoki] Int Rice Res Inst, Genet & Biotechnol Div, DAPO 7777, Manila 1301, Philippines. Tada, Y (reprint author), Tokyo Univ Technol, Sch Biosci & Biotechnol, 1404-1 Katakura, Hachioji, Tokyo 1920982, Japan. tadayui@stf.teu.ac.jp
ISSN 0014-2336
ISBN 0014-2336
29-Character Source Abbreviation Euphytica
Publication Date Feb
Year Published 2017
Volume 213
Issue 2
Digital Object Identifier (DOI) 10.1007/s10681-017-1846-z
Unique Article Identifier WOS:000393646800027
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