SNP Mining in Pepper Transcriptome and the Polymorphism Analysis

ACTA HORTICULTURAE SINICA ›› 2014, Vol. 41 ›› Issue (2): 343-348.

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SNP Mining in Pepper Transcriptome and the Polymorphism Analysis

LIU Feng1,3，XIE Ling-ling2，MI Bao-bin1，OUYANG Xian1，MAO Zhen-chuan3，ZOU Xue-xiao1,*，and XIE Bing-yan3,*

（1Institute of Vegetables，Hunan Academy of Agricultural Sciences，Changsha 410125，China；2Institute of Wa-termelon and muskmelon Hunan Academy of Agricultural Sciences，Changsha 410125，China；3Institute of Vegetables and Flowers， Chinese Academy of Agricultural Sciences，Beijing 100081，China）

Received:2013-08-15 Online:2014-02-25 Published:2014-02-25

Abstract

Abstract: In this study，we investigated 251 068 unigenes from two transcriptome in pepper（Capsicum annuum L.）using SNP finding soft. In total，18 159 SNP were identified from these SNP-containing unique ESTs. Among，1 781 SNP located at 1 291 annotation genes，analysis of GO（Gene Ontology）showed that 853 ESTs were classified，among primary metabolic process（28.7%），cellular metabolic process（17.3%），biosynthetic process（15.7%）being main. In KEGG map，125 ESTs involved in taken part in metabolic pathways，and 53 participated in biosynthesis of second metabolites，and 31 involved in biosynthesis of plant hormones. Moreover，a total of 4 172（22.9%）sequences were successfully designed primers of CAPS marker. Eight out of 15 primer pairs selected at random showed polymorphism among 5 different pepper varieties. The results indicated that those CAPS markers from EST-SNP will be more usable in map structure，analysis of genetic polymorphism in pepper.

Key words: pepper, Capsicum annuum L., transcriptome, EST-SNP, CAPS

CLC Number:

S 641.3

LIU Feng, XIE Ling-Ling, MI Bao-Bin, 欧Yang-Xian , MAO Zhen-Chuan, ZOU Xue-Xiao, XIE Bing-Yan. SNP Mining in Pepper Transcriptome and the Polymorphism Analysis[J]. ACTA HORTICULTURAE SINICA, 2014, 41(2): 343-348.

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SNP Mining in Pepper Transcriptome and the Polymorphism Analysis

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