Cotton Science 2005,17(4):211-216

Screening of microsatellite markers from Cotton ESTs
LI Hua-sheng¹, FAN Shu-li², SHEN Fa-fu^1*
(1. Department of Agronomy, Shandong Agricultural University, Tai'an, Shandong 271018, China; 2. Cotton Research Institute, CAAS;Key Laboratory of Cotton Genetic Improvement, Ministry of Agriculture, Anyang, He'nan 455000, China)ª¤ª¤

Abstract: Approximately 94709 EST sequences were searched for identification of SSRs using the Simple Sequences Repeat Identification Tool (SSRIT). 4396 microsatellite sequences were obtained from 94709 EST sequences,about 4.64% of the whole database a total of 1282(29.2%) dinucleotide repeats and 2411(54.8%) trinucleotide repeats were found in these microsatellite sequences. 25 primer pairs were designed from microsatellite.Among the 25 primer pairs, 17 can achieve clear PCR products by electrophoresis. The SSR markers reported in this study were highly polymorphic between Gossypium hirsutum and Gossypium arboreum but lower in Gossypium hirsutum. In order to evaluate transferability of EST-SSRs,we also selected six species: Gossypium hirsutum, Zea mays, Lycopersicum escuentum, Brassica napus, Beta vulgaris, Abutilon theophrasti, to detect the product. Among the product the primers Cri1, Cri3, Cri4, Cri7, Cri9, Cri14 and Cri15 have products in all of these six species. Cri16, Cri17 have no product in Z. mays, L. escuentum and B. vulgaris. And Cri13 has no product in L. escuentum and B.vulgaris.
Key words: cotton; EST; microsatellite; cross-species transferability
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