ArticleBMC genomics2015
De novo assembly of the Carcinus maenas transcriptome and characterization of innate immune system pathways.
Article in BMC genomics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
19 citing papers in PubMed.
- Allatostatin-C signaling in the crab Carcinus maenas is implicated in the ecdysis program.The Journal of experimental biology · 2025Article
- The role of octopamine and crustacean hyperglycemic hormone (CHH) in branchial acid-base regulation in the European green crab, Carcinus maenas.Journal of comparative physiology. B, Biochemical, systemic, and environmental physiology · 2023Article
- Characterization of the Gene Repertoire and Environmentally Driven Expression Patterns in Tanner Crab (Chionoecetes bairdi).Marine biotechnology (New York, N.Y.) · 2022Article
- Multiple transcriptome mining coupled with tissue specific molecular cloning and mass spectrometry provide insights into agatoxin-like peptide conservation in decapod crustaceans.General and comparative endocrinology · 2020Article
- Integrated transcriptomic and functional immunological approach for assessing the invasiveness of bivalve alien species.Scientific reports · 2019Article
- Article
- Genomic and developmental characterisation of a novel bunyavirus infecting the crustacean Carcinus maenas.Scientific reports · 2019Article
- The Single-molecule long-read sequencing of Scylla paramamosain.Scientific reports · 2019Article
- Cotton rat lung transcriptome reveals host immune response to Respiratory Syncytial Virus infection.Scientific reports · 2018Article
- Investigating the genetic and epigenetic basis of big biological questions with the parthenogenetic marbled crayfish: A review and perspectives.Journal of biosciences · 2018Review
- Comparative transcriptomics of cyprinid minnows and carp in a common wild setting: a resource for ecological genomics in freshwater communities.DNA research : an international journal for rapid publication of reports on genes and genomes · 2018Article
- Comparative genomic analysis of innate immunity reveals novel and conserved components in crustacean food crop species.BMC genomics · 2017Article
- New Paradigms to Help Solve the Global Aquaculture Disease Crisis.PLoS pathogens · 2017Article
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- Resources and Recommendations for Using Transcriptomics to Address Grand Challenges in Comparative Biology.Integrative and comparative biology · 2016Review
- The effect of silencing 20E biosynthesis relative genes by feeding bacterially expressed dsRNA on the larval development of Chilo suppressalis.Scientific reports · 2016Article
- Article
- RNAi knockdown of acetyl-CoA carboxylase gene eliminates jinggangmycin-enhanced reproduction and population growth in the brown planthopper, Nilaparvata lugens.Scientific reports · 2015Article
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Authors and funding
7 authors.
Funding
Abstract
backgroundThe European shore crab, Carcinus maenas, is used widely in biomonitoring, ecotoxicology and for studies into host-pathogen interactions. It is also an important invasive species in numerous global locations. However, the genomic resources for this organism are still sparse, limiting research progress in these fields. To address this resource shortfall we produced a C. maenas transcriptome, enabled by the progress in next-generation sequencing technologies, and applied this to assemble information on the innate immune system in this species.
resultsWe isolated and pooled RNA for twelve different tissues and organs from C. maenas individuals and sequenced the RNA using next generation sequencing on an Illumina HiSeq 2500 platform. After de novo assembly a transcriptome was generated encompassing 212,427 transcripts (153,699 loci). The transcripts were filtered, annotated and characterised using a variety of tools (including BLAST, MEGAN and RSEM) and databases (including NCBI, Gene Ontology and KEGG). There were differential patterns of expression for between 1,223 and 2,741 transcripts across tissues and organs with over-represented Gene Ontology terms relating to their specific function. Based on sequence homology to immune system components in other organisms, we show both the presence of transcripts for a series of known pathogen recognition receptors and response proteins that form part of the innate immune system, and transcripts representing the RNAi, Toll-like receptor signalling, IMD and JAK/STAT pathways.
conclusionsWe have produced an assembled transcriptome for C. maenas that provides a significant molecular resource for wide ranging studies in this species. Analysis of the transcriptome has revealed the presence of a series of known targets and functional pathways that form part of their innate immune system and illustrate tissue specific differences in their expression patterns.
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