RNA sequence analysis of growth-related genes in Penaeus monodon



Penaeus monodon is one of the most economically important shrimp species in Thailand. However, little information is available about the functional genomics related to its growth performance. In this study, Illumina paired-end sequencing was used to analyze transcriptomes related to growth performance in P. monodon muscle. A total 38.4 million reads were generated. The pooled reads from 10 libraries were de novo assembled into 117,265 transcripts. For cluster analysis, 113,991 genes were obtained with an average length of 337 bp. Gene expression was analyzed with the edgeR program, which revealed 705 differentially expressed contigs (p<0.05) in fast-growth shrimp compared to slow-growth shrimp. The InterPro scan results were merged with BLAST-derived GO annotations and the Kyoto Encyclopedia of Genes and Genomes (KEGG) database and then analyzed. The results show the 234 up-regulated contigs in fast-growth shrimp are mostly underlined genes involving the metabolism pathway. Quantitative real-time polymerase chain reaction (RT-PCR) revealed seven genes involved in the cell cycle that were expressed more in fast-growth shrimp (p<0.05) than in slow-growth shrimp and moderately to strongly correlated with shrimp body weight. These genes may be good candidates for growth performance improvement in P. monodon.


Penaeus monodon, RNA sequencing, qRT-PCR, growth-related genes, growth improvement


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