title: In-depth transcriptome analysis of Coilia ectenes, an important fish resource in the Yangtze River: de novo assembly, gene annotation.
abstract: Coilia ectenes is an important teleost species in the Yangtze River and a model organism that can be used to study the protection of fish resources. In this report, we performed de novo transcriptome sequencing of ten cDNA libraries from the brain, gill, heart, intestine, kidney, liver, muscle, stomach, ovary, and testis tissues. A total of 352 million raw reads of 100 base pairs were generated, and 130,113 transcripts, corresponding to 65,350 non-redundant transcripts, with a mean length of 1520 bp, were assembled. BLASTx-based gene annotation (E-value<1 × 10(-5)) allowed the identification of 73,900 transcripts against at least one of four databases, including the NCBI non-redundant database, the GO database, the COG database, and the KEGG database. Our study provides a valuable resource for C. ectenes genomic and transcriptomic data that will facilitate future functional studies of C. ectenes.
authors: Key Laboratory of Freshwater Fisheries and Germplasm Resources Utilization, Ministry of Agriculture, Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences, Wuxi 214081, PR China; Wuxi Fisheries College, Nanjing Agricultural University, Nanjing, 210095, PR China.
authors: Huaishun
authors: H
authors: Shen
authors: Key Laboratory of Freshwater Fisheries and Germplasm Resources Utilization, Ministry of Agriculture, Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences, Wuxi 214081, PR China.
authors: Ruobo
authors: R
authors: Gu
authors: Key Laboratory of Freshwater Fisheries and Germplasm Resources Utilization, Ministry of Agriculture, Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences, Wuxi 214081, PR China.
authors: Gangchun
authors: G
authors: Xu
authors: Key Laboratory of Freshwater Fisheries and Germplasm Resources Utilization, Ministry of Agriculture, Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences, Wuxi 214081, PR China; Wuxi Fisheries College, Nanjing Agricultural University, Nanjing, 210095, PR China. Electronic address: Xup@ffrc.cn.
authors: Pao
authors: P
authors: Xu
authors: Key Laboratory of Freshwater Fisheries and Germplasm Resources Utilization, Ministry of Agriculture, Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences, Wuxi 214081, PR China.
authors: Zijuan
authors: Z
authors: Nie
authors: Wuxi Fisheries College, Nanjing Agricultural University, Nanjing, 210095, PR China.
authors: Yacheng
authors: Y
authors: Hu
mesh_terms: D000818:Animals; D002681:China; D004247:DNA / Q000235:genetics; D005399:Fishes / Q000235:genetics*; D005786:Gene Expression Regulation / Q000502:physiology; D016678:Genome; D045483:Rivers; D059467:Transcriptome / Q000235:genetics*
chemical_list: D004247:DNA
keywords: Coilia ectenes; Next generation sequencing; Transcript; Transcriptome