Transcriptome sequencing and SNP detection in Phoebe chekiangensis

BACKGROUND: Phoebe 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. RESULTS: Here, the transcriptome of P. chekiangensis was sequenced u...

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Detalles Bibliográficos
Autores principales: He, Bing, Li, Yingang, Ni, Zhouxian, Xu, Li-an
Formato: Online Artículo Texto
Lenguaje:English
Publicado: PeerJ Inc. 2017
Materias:
Bioinformatics
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5428327/
https://www.ncbi.nlm.nih.gov/pubmed/28503371
http://dx.doi.org/10.7717/peerj.3193
Descripción
Sumario:BACKGROUND: Phoebe 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. RESULTS: Here, 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. CONCLUSION: The 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.

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