論文

査読有り
2015年11月

Resequencing of the common marmoset genome improves genome assemblies and gene-coding sequence analysis

SCIENTIFIC REPORTS
  • Kengo Sato
  • ,
  • Yoko Kuroki
  • ,
  • Wakako Kumita
  • ,
  • Asao Fujiyama
  • ,
  • Atsushi Toyoda
  • ,
  • Jun Kawai
  • ,
  • Atsushi Iriki
  • ,
  • Erika Sasaki
  • ,
  • Hideyuki Okano
  • ,
  • Yasubumi Sakakibara

5
開始ページ
16894
終了ページ
記述言語
英語
掲載種別
研究論文(学術雑誌)
DOI
10.1038/srep16894
出版者・発行元
NATURE PUBLISHING GROUP

The first draft of the common marmoset (Callithrix jacchus) genome was published by the Marmoset Genome Sequencing and Analysis Consortium. The draft was based on whole-genome shotgun sequencing, and the current assembly version is Callithrix_jacches-3.2.1, but there still exist 187,214 undetermined gap regions and supercontigs and relatively short contigs that are unmapped to chromosomes in the draft genome. We performed resequencing and assembly of the genome of common marmoset by deep sequencing with high-throughput sequencing technology. Several different sequence runs using Illumina sequencing platforms were executed, and 181 Gbp of high-quality bases including mate-pairs with long insert lengths of 3, 8, 20, and 40 Kbp were obtained, that is, approximately 60x coverage. The resequencing significantly improved the MGSAC draft genome sequence. The N50 of the contigs, which is a statistical measure used to evaluate assembly quality, doubled. As a result, 51% of the contigs (total length: 299 Mbp) that were unmapped to chromosomes in the MGSAC draft were merged with chromosomal contigs, and the improved genome sequence helped to detect 5,288 new genes that are homologous to human cDNAs and the gaps in 5,187 transcripts of the Ensembl gene annotations were completely filled.

Web of Science ® 被引用回数 : 16

リンク情報
DOI
https://doi.org/10.1038/srep16894
PubMed
https://www.ncbi.nlm.nih.gov/pubmed/26586576
Web of Science
https://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=JSTA_CEL&SrcApp=J_Gate_JST&DestLinkType=FullRecord&KeyUT=WOS:000365015900001&DestApp=WOS_CPL