RNA Sequence Analysis of Growth-Related Genes in Penaeus monodon

Nifareesa CHEALOH; Sataporn DIREKBUSARAKOM; Piyapong CHOTIPUNTU; Pitchanee JARIYAPONG; Hidehiro KONDO; Ikuo HIRONO; Suwit WUTHISUTHIMETHAVEE

doi:10.48048/wjst.2020.5518

Authors

Nifareesa CHEALOH Research Center of Excellence on Shrimp, Walailak University, Nakhon Si Thammarat 80161, Thailand
Sataporn DIREKBUSARAKOM School of Agricultural Technology, Walailak University, Nakhon Si Thammarat 80161, Thailand
Piyapong CHOTIPUNTU School of Agricultural Technology, Walailak University, Nakhon Si Thammarat 80161, Thailand
Pitchanee JARIYAPONG School of Medicine, Walailak University, Nakhon Si Thammarat 80161, Thailand
Hidehiro KONDO Laboratory of Genome Science, Graduate School of Marine Science and Technology, Tokyo University of Marine Science and Technology, Minato, Tokyo 1088477, Japan
Ikuo HIRONO Laboratory of Genome Science, Graduate School of Marine Science and Technology, Tokyo University of Marine Science and Technology, Minato, Tokyo 1088477, Japan
Suwit WUTHISUTHIMETHAVEE School of Agricultural Technology, Walailak University, Nakhon Si Thammarat 80161, Thailand

DOI:

https://doi.org/10.48048/wjst.2020.5518

Keywords:

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

Abstract

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 of 38.4 million reads were generated. The pooled reads, from 10 libraries, were de novo assembled into 113,991 genes, 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 results show the 234 up-regulated contigs in fast-growth shrimp are mostly underlined genes involving the metabolic pathway. Quantitative real-time polymerase chain reaction (qRT-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.

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