Trascriptome analysis of the Paciﬁc white shrimp Litopenaeus vannamei exposed to nitrite by RNA-seq.
In the present study, transcriptome of nitrite-exposed Litopenaeus vannamei was performed using a newly developed high-throughput sequencing technology (Illumina RNA-seq). As many as 42,336 unigenes were generated with 561 bp of average length and 736 bp of unigene N50 after filtering and assembly. These unigenes from the de novo assembly were further annotated using BLAST and BLAST2GO softwares. A total of 23,532 unigenes were unambiguous alignments to the reference when BLAST against non-redundant protein sequence (Nr), non-redundant nucleotide (Nt), Swiss-Prot, Gene Ontology database (GO), Clusters of Orthologous Groups (COG) and Kyoto Encyclopedia of Genes and Genomes (KEGG) databases available at NCBI. Numerous candidate genes associated with immune response, detoxification, apoptosis pathway were identified. Ten candidate genes related to immune responses and apoptosis were selected for validating the results of assembly and annotation by real-time quantitative PCR. Results revealed that the expressions of all these ten genes were up-regulated after nitrite exposure. Combining to our previous study, we speculate that all these selected genes may be involved in the response to nitrite stress. The study shows a systematic overview of the transcriptome analysis in L. vannamei, and provides valuable gene information for studying molecular mechanisms under nitrite exposure.
Key Laboratory of Ecology and Environmental Science of Guangdong Higher Education Institutes, Guangdong Provincial Key Laboratory for Healthy and Safe Aquaculture, School of Life Science, South China Normal University, Guangzhou 510631, People's Republic of China.
Hui
H
Guo
Chao-Xia
CX
Ye
An-Li
AL
Wang
Jian-An
JA
Xian
Shao-An
SA
Liao
Yu-Tao
YT
Miao
Sheng-Peng
SP
Zhang
D000818:Animals; D017209:Apoptosis / Q000187:drug effects; D020869:Gene Expression Profiling; D007113:Immunity, Innate / Q000187:drug effects; D008658:Inactivation, Metabolic; D009573:Nitrites / Q000633:toxicity*; D033561:Penaeidae / Q000187:drug effects* / Q000235:genetics*; D012333:RNA, Messenger / Q000235:genetics / Q000378:metabolism; D060888:Real-Time Polymerase Chain Reaction; D017423:Sequence Analysis, RNA; D014874:Water Pollutants, Chemical / Q000633:toxicity*
D009573:Nitrites; D012333:RNA, Messenger; D014874:Water Pollutants, Chemical
Apoptosis; Immune response; Litopenaeus vannamei; Nitrite; RNA-seq