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.
Highlights
Background & SummaryGammarid amphipods are animals that typically measure a few millimetres long and present in a wide range of aquatic habitats[1]
The data presented in this article consist of assembled transcriptome sequences for 14 different gammarids, seven males and seven females, namely Gammarus fossarum A (Müller type A), G. fossarum B (Müller type B), G. fossarum C (Müller type C), Gammarus wautieri, Gammarus pulex, Echinogammarus berilloni, and Echinogammarus marinus
One population of Gammarus fossarum was sampled in north-eastern France (Seebach river), which was previously shown to harbour the cryptic type A subspecies according to the three types defined in Müller et al.[45], Westram et al.[46], and Weiss et al.[47]
Summary
Background & SummaryGammarid amphipods are animals that typically measure a few millimetres long and present in a wide range of aquatic habitats[1]. Code Name EGSF EGSM EGUF EGUM GFAF GFAM GFBF GFBM GFCF GFCM GPCF GPCM GWF GWM This approach was successful after developing a protein sequence database from an RNA-Seq transcriptome translated in all the possible reading frames.
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