Transcriptome and SSR Analysis Based on RNA-Seq in Hirudo nipponia

Purpose To analyze the transcriptome and SSR information of Hirudo nipponia under different temperatures.

Method Illumina HiSeq high-throughput sequencing technology and MISA software were applied to obtain the transcriptome and SSRs from different tissues of H. nipponia at different temperatures.

Result The 125.08 G effective data was obtained with an average error rate of 0.03%. After assembly by the software Trinity, a total of 202 570 transcripts and 52 206 unigenes were generated, corresponding to maximum length of 30 853 bp both, the average lengh of 1 826 bp and 1 390 bp respectively. Using BLASTX against the public databases, 29 352 unigenes were annotated at least one databases, accounting for 56.22% of the total. In addition, 29 926 potential SSR loci were detected, with a frequency of 57.32%. Trinucleotide and mononucleotide were major types, accounting for 74.07% and 15.10%, respectively. ATC/ATG (9 496) and A/T(4 255) were respectively most frequent motifs in trinucleotide and mononucleotide repeats, accounting for 31.73% and 14.22%, respectively. There were 1 603 differentially expressed genes among the samples.

Conclusion The SSR of H. nipponia has a high frequency, which provides basis for the screening of molecular genetic markers.