Developing new SSR markers from ESTs of pea (Pisum sativum L.).
The development of expressed sequence tags (ESTs) from pea has provided a useful source for mining novel simple sequence repeat (SSR) markers. In the present research, in order to find EST-derived SSR markers, 18 552 pea ESTs from the National Center for Biotechnology Information (NCBI) database were downloaded and assembled into 10 086 unigenes. A total of 586 microsatellites in 530 unigenes were identified, indicating that merely 5.25% of sequences contained SSRs. The most abundant SSRs within pea were tri-nucleotide repeat motifs, and among all the tri-nucleotide repeats, the motif GAA was the most abundant type. In total, 49 SSRs were used for primer design. EST-SSR loci were subsequently screened on 10 widely adapted varieties in China. Of these, nine loci showed polymorphic profiles that revealed two to three alleles per locus. The polymorphism information content value ranged from 0.18 to 0.58 with an average of 0.41. Furthermore, transferable analysis revealed that some of these loci showed transferability to faba bean. Because of their polymorphism and transferability, these nine novel EST-SSRs will be valuable tools for marker-assisted breeding and comparative mapping of pea in the future.
Gong
Ya-ming
YM
Institute of Vegetables, Zhejiang Academy of Agricultural Science, Hangzhou 310021, China.
Xu
Sheng-chun
SC
Mao
Wei-hua
WH
Hu
Qi-zan
QZ
Zhang
Gu-wen
GW
Ding
Ju
J
Li
Ya-dan
YD
D018744:DNA, Plant / Q000737:chemistry / Q000235:genetics; D020224:Expressed Sequence Tags; D005819:Genetic Markers; D018745:Genome, Plant / Q000235:genetics*; D018895:Microsatellite Repeats / Q000235:genetics*; D018532:Pisum sativum / Q000235:genetics*; D016133:Polymerase Chain Reaction; D011110:Polymorphism, Genetic / Q000235:genetics*; D017422:Sequence Analysis, DNA
D018744:DNA, Plant; D005819:Genetic Markers
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