A Preliminary Screening and Characteristic Analysis of Microsatellite Markers from Transcriptome Sequences in Mugilogobius chulae

doi:10.13560/j.cnki.biotech.bull.1985.2015.09.020

Abstract

Abstract: In order to explore microsatellite markers in large-scale, the liver transcriptome of Mugilogobius chulae was sequenced by high-throughput sequencing technology. A total of 6 225(12.97%)microsatellite markers were screened from 47 979 Unigenes by microsatellite software, averagely 1 microsatellite marker in every 7.02 kb. The 6 225 microsatellite markers consisted of 226 repeat motifs, which mainly distributed in tri-nucleotide, quad-nucleotide and penta-nucleotide repeats. The mono-nucleotide repeats were of the most by number, accounting for 42.49% of all the microsatellite markers, the di-nucleotide repeats and tri-nucleotide repeats had the similar proportion(25.22% and 26.27% of all the markers, respectively), the rest were the quad-nucleotide, penta-nucleotide and hexa-nucleotide repeats, together accounting for 6.03%. A/T, AG/CT and AGC/TCG were the most frequent motifs in mono-nucleotide, di-nucleotide and tri-nucleotide repeats, respectively. In this research, 76 pairs of primers were designed and synthesized, by 55 pairs of them the target bands were successfully amplified, and 32 loci were of polymorphism. The results suggested that it was feasible to explore a number of microsatellite markers quickly based on the transcriptome sequences of M. chulae.

Key words: Mugilogobius chulae, transcriptome sequence, microsatellites, screening, distribution characteristic

Cai Lei, Yu Lujun, Chen Xiaoqu, Ye Huixin, Chen Lin, Li Jianjun. A Preliminary Screening and Characteristic Analysis of Microsatellite Markers from Transcriptome Sequences in Mugilogobius chulae[J]. Biotechnology Bulletin, 2015, 31(9): 146-151.

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