title: De novo sequencing transcriptome of endemic Gentiana straminea (Gentianaceae) to identify genes involved in the biosynthesis of active ingredients.
abstract: Gentiana straminea is a popular Tibetan medicine that has been used for thousands of years in China to treat various diseases and conditions. Although it has multiple pharmaceutical purposes and important economic plant resource in China, transcriptome and molecular base still known limited. In flowering season, samples were collected from different tissues, using the NGS Illumina. Solexa platform, about 58.85 million sequencing reads were generated and assembled de novo, yielding 78,764 high quality unigenes with an average length of 1090bp. Gene Ontology (GO), KEGG pathway mapping showed that 49,033 of these were identified as putative homologs of annotated sequences in the protein databases. Among them, candidate genes associated with iridoid, flavonoid and anthocyanin were identified. Further the key enzymes involved to iridoid and flavonoid synthesis pathway were analyzed by quantitative real-time polymerase chain reaction (qRT-PCR) on different tissues, the flower and root had the higher expression than leaves. In addition, 7591 SSR markers were identified from the unigenes of the G. straminea transcriptome. The foundation of G. straminea provided the important resource for facilitating to study molecular and functional genomics of it and related this species on the Qinghai-Tibet Plateau.
authors.affiliation: Key Laboratory of Adaptation and Evolution of Plateau Biota (AEPB), Northwest Institute of Plateau Biology, Chinese Academy of Sciences, Xining 810008, Qinghai, PR China; University of Chinese Academy of Sciences, Beijing 100093, PR China. Electronic address: dangweizhou@sina.com.
authors.forename: Dangwei
authors.initials: D
authors.lastname: Zhou
authors.affiliation: College of Life Sciences, Nankai University, Tianjin 300071, PR China.
authors.forename: Shan
authors.initials: S
authors.lastname: Gao
authors.affiliation: Key laboratory of Tibetan Medicine, Chinese Academy of Sciences, Xining 810008, Qinghai, PR China.
authors.forename: Huan
authors.initials: H
authors.lastname: Wang
authors.affiliation: Key Laboratory of Adaptation and Evolution of Plateau Biota (AEPB), Northwest Institute of Plateau Biology, Chinese Academy of Sciences, Xining 810008, Qinghai, PR China; University of Chinese Academy of Sciences, Beijing 100093, PR China.
authors.forename: Tianxiang
authors.initials: T
authors.lastname: Lei
authors.affiliation: Key laboratory of Tibetan Medicine, Chinese Academy of Sciences, Xining 810008, Qinghai, PR China.
authors.forename: Jianwei
authors.initials: J
authors.lastname: Shen
authors.affiliation: Key Laboratory of Adaptation and Evolution of Plateau Biota (AEPB), Northwest Institute of Plateau Biology, Chinese Academy of Sciences, Xining 810008, Qinghai, PR China.
authors.forename: Jie
authors.initials: J
authors.lastname: Gao
authors.affiliation: Key Laboratory of Adaptation and Evolution of Plateau Biota (AEPB), Northwest Institute of Plateau Biology, Chinese Academy of Sciences, Xining 810008, Qinghai, PR China.
authors.forename: Shilong
authors.initials: S
authors.lastname: Chen
authors.affiliation: Key Laboratory of Adaptation and Evolution of Plateau Biota (AEPB), Northwest Institute of Plateau Biology, Chinese Academy of Sciences, Xining 810008, Qinghai, PR China; University of Chinese Academy of Sciences, Beijing 100093, PR China.
authors.forename: Jia
authors.initials: J
authors.lastname: Yin
authors.affiliation: Key Laboratory of Adaptation and Evolution of Plateau Biota (AEPB), Northwest Institute of Plateau Biology, Chinese Academy of Sciences, Xining 810008, Qinghai, PR China.
authors.forename: Jianquan
authors.initials: J
authors.lastname: Liu
mesh_terms: D005419:Flavonoids / Q000096:biosynthesis* / Q000235:genetics; D018506:Gene Expression Regulation, Plant / Q000502:physiology*; D017343:Genes, Plant / Q000502:physiology*; D030012:Gentiana / Q000235:genetics*; D039823:Iridoids / Q000378:metabolism*; D059467:Transcriptome / Q000502:physiology*
chemical_list: D005419:Flavonoids; D039823:Iridoids
keywords: Flavonoids; G. straminea; Illumina sequencing; Iridoid; Qinghai–Tibet Plateau; SSR; Transcriptome; qRT-PCR