Abstract：In order to explore the genetic basis for the biosynthesis of anthocyanin antioxidant, the transcriptome of Paeonia jishanensis was sequenced by Illumina NextSeqTM500 platform. This results showed that 39 450 unigenes were found by assembly and 4 106 SSR were identified in 3 563 unigenes. All of unigenes were annotated via different databases. 29 420 unigenes were annotated in Swiss Prot database，and 11 unigenes was related to the anthocyanin biosynthesis process, 22 unigenes related to flavonoids and 15 unigenes related to isoflavonoid biosynthesis; NR database annotation were highest at 100%, and 7 unigenes related to anthocyanin and 12 unigenes related to flavonoids biosynthesis;24 291 unigenes were annotated in GO database and divided into the process of 53 function groups; 38 238 unigenes were annotated in eggNOG database and classified into 26 functional categories, which involve processing and developments of plants; 5 709 unigenes were annotated in KEGG database and grouped into 6 functional categories of 42 metabolism pathways, 25 unigenes involved in the biosynthesis of anthocyanin. This study indicated that some genes and SSR loci which had association with biosynthesis of flavonoids and anthocyanins were identifed. It can provide a foundation for the further researching on metabolic pathways of anthocyanins.
