Transcriptome analysis and development of simple sequence repeat (SSR) markers in Zingiber striolatum Diels

文献类型： 外文期刊

第一作者： Deng, Kuanping

作者： Deng, Kuanping;Deng, Renju;Chen, Enfa;Fan, Jianxin

作者机构：

关键词： Zingiber striolatum Diels;Transcriptome;SSR;Molecular marker

期刊名称：PHYSIOLOGY AND MOLECULAR BIOLOGY OF PLANTS （ 影响因子：2.391； 五年影响因子：2.836 ）

ISSN： 0971-5894

年卷期： 2018 年 24 卷 1 期

页码：

收录情况： SCI

摘要： Illumina-based paired-end sequencing technology was used for the high-throughput transcriptome sequencing of combined Zingiber striolatum Diels tissues (i.e., root, stem, leaf, flower, and fruit tissues). More than 130 million sequencing reads were generated, and a de novo assembly yielded 287,959 contigs and 112,107 unigenes with an average length of 1029 and 28,891 bp, respectively. Similarity searches with known sequences led to the identification of 51,804 (46.21%) genes. Of the annotated unigenes, 6867 and 51,987 were assigned to Gene Ontology and Clusters of Orthologous Groups categories, respectively. Additionally, 8384 simple sequence repeats (SSRs) were identified as potential molecular markers in the unigenes. Thirty pairs of polymerase chain reaction primers were designed and used to validate the unigenes and assess the associated genomic polymorphism. The PCR amplification products for 25 primer pairs were of the expected size. These primers may represent usable molecular markers. The thousands of SSR markers identified in the present study may be useful for analyses of genetic diversity, genetic linkage mapping, and the identification and improvement of varieties during the breeding of Z. striolatum Diels. The unigene sequences and SSR markers described herein may serve as valuable resources for future investigations of Z. striolatum Diels.

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