Comparison of the exomes of common carp (Cyprinus carpio) and zebrafish (Danio rerio).

ABSTRACT: Research on common carp, Cyprinus carpio, is beneficial for zebrafish research because of resources available owing to its large body size, such as the availability of sufficient organ material for transcriptomics, proteomics, and metabolomics. Here we describe the shot gun sequencing of a clonal double-haploid common carp line. The assembly consists of 511891 scaffolds with an N50 of 17 kb, predicting a total genome size of 1.4-1.5 Gb. A detailed analysis of the ten largest scaffolds indicates that the carp genome has a considerably lower repeat coverage than zebrafish, whilst the average intron size is significantly smaller, making it comparable to the fugu genome. The quality of the scaffolding was confirmed by comparisons with RNA deep sequencing data sets and a manual analysis for syn

SUBMITTER: Henkel CV 

PROVIDER: S-EPMC3371262 | biostudies-literature | 2012 Jun

REPOSITORIES: biostudies-literature