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Zhongguo Zhong Yao Za Zhi. 2012 Dec;37(24):3728-33.

[Identification of EST-SSRs in Taxus cuspidata based on high-throughput sequencing].

[Article in Chinese]

Author information

  • 1College of Pharmacy, Guilin Medical University, Guilin 541004, China. qwu9516@gmail.com

Abstract

OBJECTIVE:

Taxus species are highly valued for the production of taxol. Based on high-throughput sequenceing, EST-SSRs were explored and studied in the transcriptome of Taxus cuspidata.

METHOD:

T cuspidata leaf cDNA was extracted and sequenced by 454 GS FLX Titanium. High-quality sequences were assembled using Newbler Assembler Software, which produced unique sequences. SSRs motif was explored using simple sequence repeat identification tool (Perl Script). Primers were designed using PRIMER3.

RESULT:

A total of 81 148 high-quality reads from the needles of T. cuspidata were produced using the Roche GS FLX Titanium system. A total of 20 557 unique sequences were obtained. There were 753 simple sequence repeat motifs identified. Primers of PCR were obtained for 519 EST-SSRs, randomly selected cloning sequencing revealed that 87.5% of ESTs were the same as the results of Sanger sequencing.

CONCLUSION:

The results provide the first EST-SSRs collection in Taxus and are essential for future efforts of gene discovery, functional genomics, and genome annotation in related species.

PMID:
23627168
[PubMed - indexed for MEDLINE]
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