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SSR marker development from peanut gynophore transcriptome sequencing
Author(s) -
Zhong Ruichun,
Zhou Meili,
Zhao Chuanzhi,
Hou Lei,
Li Changsheng,
Wang Xingjun,
Tang Ronghua,
Xia Han
Publication year - 2016
Publication title -
plant breeding
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.583
H-Index - 71
eISSN - 1439-0523
pISSN - 0179-9541
DOI - 10.1111/pbr.12336
Subject(s) - biology , transcriptome , cultivar , microsatellite , genetic marker , molecular breeding , genetics , microbiology and biotechnology , gene , botany , allele , gene expression
Abstract Peanut is one of the most important oil crops in the world. To accelerate the marker‐assisted selection programmes of peanut, a transcriptome library of peanut gynophores at three different growth stages was constructed and sequenced using Illumina HiSeq ™ 2000. Totally, 72 527 unigenes were assembled and mined for EST SSR s. A total of 5058 SSR s were obtained by using the SSR finding programme, which represented an average density of one SSR per 5.65 kb. Four thousand four hundred and forty‐two unigenes that contained one or more SSR s were identified. The most abundant SSR s in peanut are trinucleotides (55.1%) SSR s and followed by dinucleotides (33.2%). AG / CT (25.8%) repeats were the most abundant and followed by AAG / CTT (19.9%). Primers for 200 SSR s were designed for PCR amplification and for analysis of polymorphism in 22 peanut cultivars. Polymorphism could be detected by 17 SSR s among these cultivars. The newly developed SSR markers from peanut gynophore transcriptome sequencing will be an additional source of markers to the peanut community.