Transcriptome profiling of the Pacific oyster Crassostrea gigas by Illumina RNA-seq
2016
Lim, H.J., National Fisheries Research and Development Institute, Incheon, Republic of Korea | Lim, J.S., Seoul National University, Seoul, Republic of Korea | Lee, J.S., Seoul National University, Seoul, Republic of Korea | Choi, B.S., Seoul National University, Seoul, Republic of Korea | Kim, D.I., Seoul National University, Seoul, Republic of Korea | Kim, H.W., National Fisheries Research and Development Institute, Incheon, Republic of Korea | Rhee, J.S., Incheon National University, Incheon, Republic of Korea | Choi, I.Y., Seoul National University, Seoul, Republic of Korea
In this study, the whole transcriptome of the Pacific oyster Crassostrea gigas was sequenced using Illumina RNA-seq. De novo assembly was performed with 33,750,764 raw reads using Trinity, which assembled 87,887 contigs. Transdecoder found 41,542 candidate coding contigs which showed homology to other species by BLAST analysis. Functional gene annotation was performed by Gene Ontology and KEGG pathway analyses. Finally, we identified a number of expressed gene pathways for C. gigas representing a useful model animal for gene information-based study such as environmental monitoring, immune-relevant aquaculture, and ecotoxicogenomics studies to uncover molecular mechanisms of stress-triggered sensitivity and physiological response to C. gigas.
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