Development and Characterization of EST-SSR Markers From RNA-Seq Data in Phyllostachys violascens

Frontiers in Plant Science

卷:10

Ling Li¹  Kai Cai¹  Longfei Zhu¹  Zhongyu Zhao²  Keke Zhang³  Wei Zeng³  Xinchun Lin³ 

[1] F University, Lin’an, China;

[2] Department of Genome Biology, Adam Mickiewicz University, Poznań, Poland;

[3] Sino-Australia Plant Cell Wall Research Centre, State Key Laboratory of Subtropical Silviculture, Zhejiang A &

[4] Zhejiang Provincial Collaborative Innovation Center for Bamboo Resources and High-Efficiency Utilization, Zhejiang A &

关键词: Phyllostachys violascens;    transcriptome;    microsatellites;    varieties;    genetic diversity;   

DOI  :  10.3389/fpls.2019.00050

来源: DOAJ

【 摘 要 】

Bamboo are woody grass species containing important economic and ecological values. Lei bamboo (Phyllostachys violascens) is a kind of shoot-producing bamboo species with the highest economic yield per unit area. However, identifying different varieties of Lei bamboo based on morphological characteristics is difficult. Microsatellites play an important role in plant identification and genetic diversity analysis and are superior to other molecular markers. In this study, we identified 18,356 expressed sequence tag-simple sequence repeat (EST-SSR) loci in Lei bamboo transcriptome data. A total of 11,264 primer pairs were successfully designed from unigenes of all EST-SSR loci, and 96 primer pairs were randomly selected and synthesized. A total of 54 primer pairs were used for classifying 16 Lei bamboo varieties and 10 different Phyllostachys species. The number of polymorphism alleles among the 54 primer pairs ranged from 3 to 12 for P. violascens varieties and 3 to 20 for Phyllostachys. The phylogenetic tree based on polymorphism alleles successfully distinguished 16 P. violascens varieties and 10 Phyllostachys species. Our study provides abundant EST-SSR resources that are useful for genetic diversity analysis and molecular verification of bamboo and suggests that SSR markers developed from Lei bamboo are more efficient and reliable than ISSR, SRAP or AFLP markers.

【 授权许可】

Unknown