Data from: Genome- and transcriptome-assisted development of nuclear insertion/deletion markers for Calanus species (Copepoda: Calanoida) identification

• Main Authors: Smolina, Irina, Kollias, Spyros, Poortvliet, Marloes, Nielsen, Torkel, Lindeque, Penelope, Castellani, Claudia, Møller, Eva, Blanco-Bercial, Leocadio, Hoarau, Galice
• Format: Dataset
• Language: unknown
• Published: 2014
• Subjects: Bioinfomatics; Calanus helgolandicus; Calanus marshallae; Crustaceans; Calanus finmarchicus; Calanus glacialis; Copepoda; Calanus hyperboreus; Phyloinfomatics; Arctic; Zooplankton; Copepods
• Online Access: https://zenodo.org/record/5004958; https://doi.org/10.5061/dryad.n8f30

Copepods of the genus Calanus are key zooplankton species in temperate to arctic marine ecosystems. Despite their ecological importance, species identification remains challenging. Furthermore, the recent report of hybrids among Calanus species highlights the need for diagnostic nuclear markers in order to efficiently identify parental species and hybrids. Using Next Generation Sequencing analysis of both the genome and transcriptome from two sibling species, C. finmarchichus and C. glacialis, we developed a panel of 12 nuclear insertion/deletion markers. All the markers showed species specific amplicon length. Furthermore most of the markers were successfully amplified in other Calanus species allowing the molecular identification of C. helgolandicus, C hyperboreus and C. marshallae. C. finmarchicus genome (contigs)Contigs of C. finmarchicus genome assembled with Geneious 6.1.6. Sequencing technology: Ion Torrent, 200 bp. File contain consensus sequences in fastq file.Cfin_Genome_Contigs.fastaC. glacialis genome (contigs)Contigs of C. glacialis genome assembled with Geneious 6.1.6. Sequencing technology: Ion Torrent, 200 bp. File contain consensus sequences in fastq file.Cgla_Genome_Contigs.fastaC. finmarchicus transcriptome (contigs)Contigs of C. finmarchicus transcriptome assembled with Geneious 6.1.6. Sequencing technology: Ion Torrent, 200 bp. File contain consensus sequences in fastq file.Cfin_Transcriptome_Contigs.fastaC. glacialis transcriptome (contigs)Contigs of C. glacialis transcriptome assembled with Geneious 6.1.6. Sequencing technology: Ion Torrent, 200 bp. File contain consensus sequences in fastq file.Cgla_Transcriptome_Contigs.fastaMicrosatellites_GenotypesTable of microsatellite genotyping for species identification of Calanus finmarchicus and C. glacialisMsat_Genotypes_SuppInfo.xlsx