Novel transcriptome assembly and improved annotation of the whiteleg shrimp (Litopenaeus vannamei), a dominant crustacean in global seafood mariculture
نویسندگان
چکیده
We present a new transcriptome assembly of the Pacific whiteleg shrimp (Litopenaeus vannamei), the species most farmed for human consumption. Its functional annotation, a substantial improvement over previous ones, is provided freely. RNA-Seq with Illumina HiSeq technology was used to analyze samples extracted from shrimp abdominal muscle, hepatopancreas, gills and pleopods. We used the Trinity and Trinotate software suites for transcriptome assembly and annotation, respectively. The quality of this assembly and the affiliated targeted homology searches greatly enrich the curated transcripts currently available in public databases for this species. Comparison with the model arthropod Daphnia allows some insights into defining characteristics of decapod crustaceans. This large-scale gene discovery gives the broadest depth yet to the annotated transcriptome of this important species and should be of value to ongoing genomics and immunogenetic resistance studies in this shrimp of paramount global economic importance.
منابع مشابه
Genome survey and high-density genetic map construction provide genomic and genetic resources for the Pacific White Shrimp Litopenaeus vannamei
The Pacific white shrimp Litopenaeus vannamei is the dominant crustacean species in global seafood mariculture. Understanding the genome and genetic architecture is useful for deciphering complex traits and accelerating the breeding program in shrimp. In this study, a genome survey was conducted and a high-density linkage map was constructed using a next-generation sequencing approach. The geno...
متن کاملAnalysis of multiple tissue-specific cDNA libraries from the Pacific whiteleg shrimp, Litopenaeus vannamei.
Multiple small-scale transcriptome studies have been undertaken for various members of the Penaeidae. Penaeid shrimp are important both as members of diverse ecosystems around the world and for their importance as commercial commodities. Of the many shrimps, the most important from this family is the Pacific whiteleg shrimp, Litopenaeus vannamei, as it is the primary shrimp used in worldwide aq...
متن کاملNitrogen and phosphorous budgets for integrated culture of whiteleg shrimp Litopenaeus vannamei with red seaweed Gracilaria corticata in zero water exchange system
In this study, a 2×3 factorial design with two levels of shrimp density (25 and 50 shrimp per m2) and three levels of red algae density (0, 200 and 400g per m2) was applied to calculate nitrogen and phosphorous budgets in the integrated culture of Litopenaeus vannamei with Gracilaria corticata during 45 days in a zero water exchange system. Juveniles of...
متن کاملThe effects of different concentrations of selenium and zinc nanoparticles on growth performance, survival and chemical composition of Whiteleg shrimp (Litopenaeus vannamei)
This study was conducted to evaluate the effect of different concentrations of selenium and zinc nanoparticles on growth performance, survival and chemical composition of Whiteleg shrimp (Litopenaeus vannamei). For this purpose, shrimp with an average weight of 5.1±0.2 g were distributed in 12 fiberglass tanks with 25 shrimp density and were fed for 56 days with different concentrations of sele...
متن کامل