Wageningen University Common Carp Genome Assembly

In this study an improved genome of Common Carp (Cyprinus carpio) is created. Oxford Nanopore long read sequence data and Illumina data was used for primary assembly. Subsequently, sequence errors were removed as much as possible using Illumina short reads for polishing. Finally, a chromosome level assembly was achieved by including HiC data per Dovetail Genomics procedures. The final genome assembly had a scaffold N50 of 28.5 Mbp and was 97% BUSCO-complete (Actinopterygii gene set). Further validation was done by applying linkage map information, which also allowed confirmation that the 50 largest scaffolds are mostly consistent with the 50 chromosomes usually found in the species.

Identifier
Source https://data.blue-cloud.org/search-details?step=~0128CD7EAE9F65557F836E1A4C6118B3282656C553A
Metadata Access https://data.blue-cloud.org/api/collections/8CD7EAE9F65557F836E1A4C6118B3282656C553A
Provenance
Instrument Illumina HiSeq 2500; HiSeq X Ten; MinION; PromethION; ILLUMINA; OXFORD_NANOPORE
Publisher Blue-Cloud Data Discovery & Access service; ELIXIR-ENA
Publication Year 2024
OpenAccess true
Contact blue-cloud-support(at)maris.nl
Representation
Discipline Marine Science
Temporal Coverage Begin 2021-02-10T00:00:00Z
Temporal Coverage End 2021-02-12T00:00:00Z