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Mol Ecol Resour. 2018 May;18(3):656-665. doi: 10.1111/1755-0998.12769. Epub 2018 Mar 3.

The genome of the marine medaka Oryzias melastigma.

Author information

1
Department of Biological Science, College of Science, Sungkyunkwan University, Suwon, South Korea.
2
Department of Biomedical Science and Engineering, Konkuk University, Seoul, South Korea.
3
Department of Agriculture and Life Industry, Kangwon National University, Chuncheon, South Korea.

Abstract

Marine medaka (Oryzias melastigma) is considered to be a useful fish model for marine and estuarine ecotoxicology studies and has good potential for field-based population genomics because of its geographical distribution in Asian estuarine and coastal areas. In this study, we present the first whole-genome draft of O. melastigma. The genome assembly consists of 8,602 scaffolds (N50 = 23.737 Mb) and a total genome length of 779.4 Mb. A total of 23,528 genes were predicted, and 12,670 gene families shared with three teleost species (Japanese medaka, mangrove killifish and zebrafish) were identified. Genome analyses revealed that the O. melastigma genome is highly heterozygous and contains a large number of repeat sequences. This assembly represents a useful genomic resource for fish scientists.

KEYWORDS:

Oryzias melastigma ; RACA; genome assembly; marine medaka

PMID:
29451363
DOI:
10.1111/1755-0998.12769
[Indexed for MEDLINE]

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