Characterization of Global Transcriptome Using Illumina Paired-End Sequencing and Development of EST-SSR Markers in Two Species of Gynostemma (Cucurbitaceae)

被引:12
|
作者
Zhao, Yue-Mei [1 ,2 ]
Zhou, Tao [1 ]
Li, Zhong-Hu [1 ]
Zhao, Gui-Fang [1 ]
机构
[1] NW Univ Xian, Coll Life Sci, Minist Educ, Key Lab Resource Biol & Biotechnol Western China, Xian 710069, Peoples R China
[2] Shangluo Univ, Coll Biopharmaceut & Food Engn, Shangluo 726000, Peoples R China
关键词
Gynostemma; transcriptome; illumina paired-end sequencing; de novo assembly; EST-SSR; MICROSATELLITE MARKERS; PENTAPHYLLUM; TRANSFERABILITY; GENOME; DIFFERENTIATION; POLYMORPHISMS; CONSTRUCTION; ANNOTATION; DISCOVERY; DATABASES;
D O I
10.3390/molecules201219758
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
Gynostemma pentaphyllum is an important medicinal herb of the Cucurbitaceae family, but limited genomic data have hindered genetic studies. In this study, transcriptomes of two closely-related Gynostemma species, Gynostemma cardiospermum and G. pentaphyllum, were sequenced using Illumina paired-end sequencing technology. A total of 71,607 nonredundant unigenes were assembled. Of these unigenes, 60.45% (43,288) were annotated based on sequence similarity search with known proteins. A total of 11,059 unigenes were identified in the Kyoto Encyclopedia of Genes and Genomes Pathway (KEGG) database. A total of 3891 simple sequence repeats (SSRs) were detected in 3526 nonredundant unigenes, 2596 primer pairs were designed and 360 of them were randomly selected for validation. Of these, 268 primer pairs yielded clear products among six G. pentaphyllum samples. Thirty polymorphic SSR markers were used to test polymorphism and transferability in Gynostemma. Finally, 15 SSR makers that amplified in all 12 Gynostemma species were used to assess genetic diversity. Our results generated a comprehensive sequence resource for Gynostemma research.
引用
收藏
页码:21214 / 21231
页数:18
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