ArticleScientific data2019
De novo transcriptomes of 14 gammarid individuals for proteogenomic analysis of seven taxonomic groups.
Article in Scientific data, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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12 citing papers in PubMed.
- De novo transcriptome assembly and annotation of the common freshwater amphipod (Gammarus pulex) a valuable resource for ecotoxicogenomics.Scientific data · 2025Article
- Behavioural rhythms of two amphipod species Marinogammarus marinus and Gammarus pulex under increasing levels of light at night.PloS one · 2025Article
- Sample Preparation for Proteogenomics of Aquatic Invertebrates.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Examination of gammarid transcriptomes reveals a widespread occurrence of key metabolic genes from epibiont bdelloid rotifers in freshwater species.Open biology · 2023Article
- Organ-oriented proteogenomics functional atlas of three aquatic invertebrate sentinel species.Scientific data · 2023Article
- Mitochondrial Genomes, Phylogenetic Associations, and SNP Recovery for the Key Invasive Ponto-Caspian Amphipods in Europe.International journal of molecular sciences · 2021Article
- Review
- The diversity of opsins in Lake Baikal amphipods (Amphipoda: Gammaridae).BMC ecology and evolution · 2021Article
- Transcriptional frontloading contributes to cross-tolerance between stressors.Evolutionary applications · 2021Article
- Continental-scale patterns of hyper-cryptic diversity within the freshwater model taxon Gammarus fossarum (Crustacea, Amphipoda).Scientific reports · 2020Article
- Transcriptomic data on the transgenerational exposure of the keystone amphipodData in brief · 2020Article
- Shotgun proteomics datasets acquired onData in brief · 2019Article
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12 authors.
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Abstract
Gammarids are amphipods found worldwide distributed in fresh and marine waters. They play an important role in aquatic ecosystems and are well established sentinel species in ecotoxicology. In this study, we sequenced the transcriptomes of a male individual and a female individual for seven different taxonomic groups belonging to the two genera Gammarus and Echinogammarus: Gammarus fossarum A, G. fossarum B, G. fossarum C, Gammarus wautieri, Gammarus pulex, Echinogammarus berilloni, and Echinogammarus marinus. These taxa were chosen to explore the molecular diversity of transcribed genes of genotyped individuals from these groups. Transcriptomes were de novo assembled and annotated. High-quality assembly was confirmed by BUSCO comparison against the Arthropod dataset. The 14 RNA-Seq-derived protein sequence databases proposed here will be a significant resource for proteogenomics studies of these ecotoxicologically relevant non-model organisms. These transcriptomes represent reliable reference sequences for whole-transcriptome and proteome studies on other gammarids, for primer design to clone specific genes or monitor their specific expression, and for analyses of molecular differences between gammarid species.
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