The genome of the European estuarine calanoid copepod Eurytemora affinis: Potential use in molecular ecotoxicology
2021
Choi, Beom-Soon | Kim, Duck-Hyun | Kim, Min-Sub | Park, Jun Chul | Lee, Young-Hwan | Kim, Hee-Jin | Jeong, Chang-Bum | Hagiwara, A. (Atsushi) | Souissi, Sami | Lee, Jae-seong
In this study, we sequenced and assembled the genome of a European estuarine calanoid copepod using Oxford Nanopore PromethION and Illumina HiSeq 2500 platforms. The length of the assembled genome was 776.1 Mb with N50 = 474.9 kb (BUSCO 85.9%), and the genome consisted of 2473 contigs. A total of 18,014 genes were annotated and orthologous gene clusters were analyzed in comparison to other copepods. In addition, genome-wide identification of cytochrome P450s, glutathione S-transferases, and ATP-binding cassette transporters in E. affinis was performed to determine gene repertoire of these detoxification-related gene families. Results revealed the presence of species-specific gene inventories, indicating that these gene families have evolved through species-specific gene loss/expansion processes, possibly due to adaptation to different environmental stressors. Our study provides a new inventory of the European estuarine calanoid copepod E. affinis genome with emphasis on phase I, II, and III detoxification systems.
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