Transcriptome sequencing and SNP detection in Phoebe chekiangensis

PeerJ

article

Bing He¹  Yingang Li¹  Zhouxian Ni¹  Li-an Xu¹ 

[1] Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University;Zhejiang Academy of Forestry

关键词: Phoebe chekiangensis;    SNP prediction;    Next-generation sequencing;    Sanger method;    Software comparison;   

DOI  :  10.7717/peerj.3193

学科分类：社会科学、人文和艺术（综合）

来源: Inra

【 摘 要 】

BackgroundPhoebe chekiangensis is a rare tree species that is only distributed in south-eastern China. Although this species is famous for its excellent wood properties, it has not been extensively studied at the molecular level.ResultsHere, the transcriptome of P. chekiangensis was sequenced using next-generation sequencing technology, and 75,647 transcripts with 48,011 unigenes were assembled and annotated. In addition, 162,938 putative single nucleotide polymorphisms (SNPs) were predicted and 25 were further validated using the Sanger method.ConclusionThe currently available SNP prediction software packages showed low levels of correspondence when compared. The transcriptome and SNPs will contribute to the exploration of P. chekiangensis genetic resources and the understanding of its molecular mechanisms.

【 授权许可】

CC BY