ArticlePloS one2014
Transcriptome analysis of the Portunus trituberculatus: de novo assembly, growth-related gene identification and marker discovery.
Article in PloS one, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 39 papers.
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39 citing papers in PubMed, 99 citations in OpenAlex.
- Characterization of Myf6 and association with growth traits in swimming crab (Portunus trituberculatus).BMC genomics · 2024Article
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- Genomic and Transcriptional Profiling Analysis and Insights into Rhodomyrtone Yield inPlants (Basel, Switzerland) · 2023Article
- Microsatellite markers reveal genetic diversity and population structure of Portunus trituberculatus in the Bohai Sea, China.Scientific reports · 2023Article
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- Transcriptome of the pygmy grasshopperPeerJ · 2023Article
- Development of Microsatellite Markers Based on Transcriptome Sequencing and Evaluation of Genetic Diversity in Swimming Crab (Frontiers in genetics · 2022Article
- Full-Length Transcriptome Analysis Provides New Insights Into the Diversity of Immune-Related Genes inFrontiers in immunology · 2022Article
- De Novo Transcriptomic Characterization Enables Novel Microsatellite Identification and Marker Development inLife (Basel, Switzerland) · 2021Article
- Transcriptomic Analysis and Specific Expression of Transcription Factor Genes in the Root and Sporophyll ofInternational journal of molecular sciences · 2020Article
- Identification of a transforming growth factor-β type I receptor transcript in Eriocheir sinensis and its molting-related expression in muscle tissues.Molecular biology reports · 2020Article
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- The Single-molecule long-read sequencing of Scylla paramamosain.Scientific reports · 2019Article
- Transcriptome analysis of air-breathing land slug, Incilaria fruhstorferi reveals functional insights into growth, immunity, and reproduction.BMC genomics · 2019Article
- Quantitative Trait Loci Mapping and Marker Identification for Low Salinity Tolerance Trait in the Swimming Crab (Frontiers in genetics · 2019Article
- Article
- Transcriptome analysis of the threatened snail Ellobium chinense reveals candidate genes for adaptation and identifies SSRs for conservation genetics.Genes & genomics · 2018Article
- De novo assembly, characterization and annotation for the transcriptome of Sphaeroma terebrans and microsatellite marker discovery.Genes & genomics · 2018Article
- Identification of SNPs potentially related to immune responses and growth performance inPeerJ · 2018Article
- Article
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Authors and funding
7 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundThe swimming crab, Portunus trituberculatus, is an important farmed species in China, has been attracting extensive studies, which require more and more genome background knowledge. To date, the sequencing of its whole genome is unavailable and transcriptomic information is also scarce for this species. In the present study, we performed de novo transcriptome sequencing to produce a comprehensive transcript dataset for major tissues of Portunus trituberculatus by the Illumina paired-end sequencing technology.
resultsTotal RNA was isolated from eyestalk, gill, heart, hepatopancreas and muscle. Equal quantities of RNA from each tissue were pooled to construct a cDNA library. Using the Illumina paired-end sequencing technology, we generated a total of 120,137 transcripts with an average length of 1037 bp. Further assembly analysis showed that all contigs contributed to 87,100 unigenes, of these, 16,029 unigenes (18.40% of the total) can be matched in the GenBank non-redundant database. Potential genes and their functions were predicted by GO, KEGG pathway mapping and COG analysis. Based on our sequence analysis and published literature, many putative genes with fundamental roles in growth and muscle development, including actin, myosin, tropomyosin, troponin and other potentially important candidate genes were identified for the first time in this specie. Furthermore, 22,673 SSRs and 66,191 high-confidence SNPs were identified in this EST dataset.
conclusionThe transcriptome provides an invaluable new data for a functional genomics resource and future biological research in Portunus trituberculatus. The data will also instruct future functional studies to manipulate or select for genes influencing growth that should find practical applications in aquaculture breeding programs. The molecular markers identified in this study will provide a material basis for future genetic linkage and quantitative trait loci analyses, and will be essential for accelerating aquaculture breeding programs with this species.
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