In-depth transcriptome analysis of Larimichthys polyactis, de novo assembly, functional annotation.

Liu LW, Sui YZ, Zhu WB et al.

Scientific Observing and Experimental Station of Fishery Resources for Key Fishing Grounds, Ministry of Agriculture, Key Laboratory of Sustainable Utilization of Technology Research for Fisheries Resources of Zhejiang Province, Marine Fisheries Research Institute of Zhejiang, Zhoushan 316021, PR China; Zhejiang Ocean University, Zhoushan 316022, PR China.

Marine genomics. Feb 2017.

Larimichthys polyactis (small yellow croaker) is a commercially important marine benthic fish, and is the main catching target of fisheries in China, Japan and Korea. Researches across different fields have progressed the understanding of this species; however, no genomics studies of this fish have been reported so far. In this study, we performed de novo transcriptome sequencing of eight cDNA libraries from brain, gill, heart, intestine, liver, muscle, ovary, and testis tissues of L. polyactis. A total of 182,227,948 paired-end reads (>200bp) were generated, from which 134,439 transcripts were assembled. These transcripts yielded a total of 93,990 non-redundant transcripts (unigenes) that were assigned functional annotations based on BlastX searches (E-value<1×10(-5)) against the following databases: NCBI NR, Swiss-Prot, TrEMBL, CDD, Pfam, and COG. In addition, 12,539 simple sequence repeats (SSRs) were identified. Our study provides a valuable resource of L. polyactis transcriptomic data that are expected to be useful for gene expression and functional studies of L. polyactis. Pubmed

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