De novo assembly and characterization of the root transcriptome and development of simple sequence repeat markers in Paphiopedilum concolor.

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