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KMID : 0381120170390060653
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Genes and Genomics
2017 Volume.39 No. 6 p.653 ~ p.665
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De novo transcriptome analysis and antimicrobial peptides screening in skin of Paa boulengeri
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Jiang Yusong
Fan Wenqiao
Xu Jingming
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Abstract
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Secretion of amphibian skins contain bioactive peptides that considered being an enormous medicine resource pending further exploitation and utilization. In this study, we found the skin secretion of Paa boulengeri exhibited stronger bacteriostatic activity when compared to H. guentheri, R. nigromaculata, and R. chensinensis, particularly against Bacillus subtilis. To discover antibacterial related genes in P. boulengeri, the cDNA library of P. boulengeri skin was constructed and subjected to RNA sequencing analysis. The assembly of the Illumina datasets was optimized using various assembly programs and parameters. The final optimized assembly generated 94,108 transcripts with an average length of 1292 bp and N50 of 2257 bp, representing 121.6 Mb of the P. boulengeri transcriptome. Among the 94,108 transcripts, 38,584 (40.1%) transcripts were annotated and 29,260 (31.1%) were matched with unique protein accessions in the Nr database. A total of 3165 potential cDNA-derived simple sequence repeats were identified, which distributed among 3034 transcripts. In addition, 177 antibacterial peptides and nine different Toll-like receptors were identified in P. boulengeri skin based on this transcriptome dataset. Moreover, some AMPs exhibited high expressions in P. boulengeri, such as Japonicin, which reflects mutual evolution between P. boulengeri and environment. These results provide a comprehensive sequence resource and molecular basis for researches on functional genomics and pharmacological activities of P. boulengeri.
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KEYWORD
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Antimicrobial peptide, Paa boulengeri, Simple sequence repeats, Tanscriptome, Toll-like receptors
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