文献类型： 外文期刊

作者： Li, D. M. ¹ ; Zhao, C. Y. ¹ ; Liu, X. R. ¹ ; Liu, X. F. ¹ ; Lin, Y. J. ¹ ; Liu, J. W. ¹ ; Chen, H. M. ¹ ; Lu, F. B. ² ;

作者机构： 1.Guangdong Acad Agr Sci, Environm Hort Res Inst, Guangdong Key Lab Ornamental Plant Germplasm Inno, Guangzhou, Guangdong, Peoples R China

2.Guangdong Acad Agr Sci, Environm Hort Res Inst, Guangdong

关键词： Illumina paired-end sequencing;Paphiopedilum concolor;Simple sequence repeat markers;Root transcriptome

期刊名称：GENETICS AND MOLECULAR RESEARCH （ 影响因子：0.764； 五年影响因子：0.912 ）

ISSN： 1676-5680

年卷期： 2015 年 14 卷 2 期

页码：

收录情况： SCI

摘要： Paphiopedilum orchids (Orchidaceae) have attracted much attention from botanists and horticulturists because of their peculiar leaves and beautiful flowers. Furthermore, the dry roots of Paphiopedilum plants have well-known medicinal uses. However, it is unknown how sensitive and plastic the root genes are to environmental changes or how these environmental changes regulate the biosynthesis of active ingredients. In this study, we chose Paphiopedilum concolor for root sequencing, as it is widely used as a parent in breeding experiments. A total of 3.77 Gb of sequence data were generated by Illumina paired-end sequencing. De novo assemblies yielded 72,952 contigs, 67,434 scaffolds, 64,304 unigenes with average lengths of 937, 1022, and 1047 bp, respectively. Based on Basic Local Alignment Search Tool with known protein sequences, 40,815 (63.5%) unigenes were annotated with an E-value cutoff of 1.0E-5. Among the unigenes, 24,605 were classified in the Gene Ontology database, 17,361 were assigned to Cluster of Orthologous Groups, and 14,170 were annotated in Kyoto Encyclopedia of Genes and Genomes. Among these annotations, over 1195 unigenes related to secondary metabolic pathways, as well as 609 unigenes involved in plant hormone synthesis and signal transduction, were identified. In addition, 5322 potential simple sequence repeats (SSRs) were identified, and 4989 primer pairs for 3975 sequences containing SSRs were obtained. This study provides valuable insights into the mechanisms of genes that regulate root growth and development and provides a comprehensive resource for genes related to secondary metabolism in roots and for marker-assisted studies in Paphiopedilum.