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Acta Agron Sin ›› 2014, Vol. 40 ›› Issue (01): 80-85.doi: 10.3724/SP.J.1006.2014.00080

• CROP GENETICS & BREEDING·GERMPLASM RESOURCES·MOLECULAR GENETICS • Previous Articles     Next Articles

Characterization of Micorsatellites in Tea (Camellia sinensis) Floral Transcriptome

WANG Li-Yuan,WEI Kang,ZHANG Cheng-Cai,CHENG Hao*   

  1. Tea Research Institute, Chinese Academy of Agricultural Sciences / National Center for Tea Improvement, Hangzhou 310008, China
  • Received:2013-05-21 Revised:2013-07-25 Online:2014-01-12 Published:2013-09-29
  • Contact: 成浩, E-mail: chenghao@mail.tricaas.com

Abstract:

The microsatellites or simple sequence repeats (SSRs) in Camellia sinensis floral transcriptome were characterized. A total of 12 582 SSRs were identified in 10 290 unigenes, with one SSR per 2.41 kb. Among all 340 SSR motifs,(AG/CT)n was the most frequent repeat motif (44.99%). A total of 10 409 SSRs occurred in 49586 unigenes with Blast matches to annotated proteins in four databases, only 1 917 of which occurred in protein-coding regions of these sequences. The density of SSRs was much higher in non-coding regions than in coding regions (0.102 SSRs per 1000 base pairs in coding regions vs. 3.072 in non-coding regions). In the six repeat motifs, tri-nucleotide repeats were the most abundant in coding regions (1140), followed by hexa-nucleotide (524) repeats. The microsatellites with length below 20 bp were in maximum proportion, while the microsatellites over 20 bp were only 25.22%. The expression level of genes containing microsatellites was significantly lower than that not containing microsatellites. The overall expression levels of genes containing compound microsatellites were lowest.

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