ArticleScientific reports2014
Novel transcriptome assembly and improved annotation of the whiteleg shrimp (Litopenaeus vannamei), a dominant crustacean in global seafood mariculture.
Article in Scientific reports, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 48 papers.
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48 citing papers in PubMed, 104 citations in OpenAlex.
- Integrated Transcriptomic and Metabolomic Analyses Reveal the Adaptive Mechanisms of a Low-Salinity Selected Population of Pacific White Shrimp (Litopenaeus vannamei).Marine biotechnology (New York, N.Y.) · 2025Article
- Unveiling the Genomic Symphony: Identification Cultivar-Specific Genes and Enhanced Insights on Sweet Sorghum Genomes Through Comprehensive superTranscriptomic Analysis.Journal of molecular evolution · 2024Article
- Cellular-resolution gene expression mapping reveals organization in the head ganglia of the gastropod, Berghia stephanieae.The Journal of comparative neurology · 2024Article
- Shrimp Glucose-6-phosphatase 2 (G6Pase 2): a second isoform of G6Pase in the Pacific white shrimp and regulation of G6Pase 1 and 2 isoforms via HIF-1 during hypoxia and reoxygenation in juveniles.Journal of bioenergetics and biomembranes · 2023Article
- Embedded-AMP: A Multi-Thread Computational Method for the Systematic Identification of Antimicrobial Peptides Embedded in Proteome Sequences.Antibiotics (Basel, Switzerland) · 2023Article
- Characterization of the Gene Repertoire and Environmentally Driven Expression Patterns in Tanner Crab (Chionoecetes bairdi).Marine biotechnology (New York, N.Y.) · 2022Article
- Identification, diversity and domain structure analysis of mucin and mucin-like genes in sea anemonePeerJ · 2022Article
- First Report ofAnimals : an open access journal from MDPI · 2021Article
- Data on the first functionally-annotatedData in brief · 2021Article
- The gluconeogenic glucose-6-phosphatase gene is expressed during oxygen-limited conditions in the white shrimp Penaeus (Litopenaeus) vannamei: Molecular cloning, membrane protein modeling and transcript modulation in gills and hepatopancreas.Journal of bioenergetics and biomembranes · 2021Article
- Different Immune Responses of the Lymphoid Organ in Shrimp at Early Challenge Stage ofAnimals : an open access journal from MDPI · 2021Article
- Adaptive mitochondrial response of the whiteleg shrimp Litopenaeus vannamei to environmental challenges and pathogens.Journal of comparative physiology. B, Biochemical, systemic, and environmental physiology · 2021Article
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- Identification of Functional SSR Markers in Freshwater Ornamental Shrimps Neocaridina denticulata Using Transcriptome Sequencing.Marine biotechnology (New York, N.Y.) · 2020Article
- Doing More with Less: A Comparison of 16S Hypervariable Regions in Search of Defining the Shrimp Microbiota.Microorganisms · 2020Article
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- Temporal changes in transcriptome profile provide insights of White Spot Syndrome Virus infection in Litopenaeus vannamei.Scientific reports · 2019Article
- Mitochondrial uncoupling proteins UCP4 and UCP5 from the Pacific white shrimp Litopenaeus vannamei.Journal of bioenergetics and biomembranes · 2019Article
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Authors and funding
17 authors at 6 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
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.
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