A chromosome-level reference genome of the Antarctic blackfin icefish Chaenocephalus aceratus

Seung Jae Lee; Jinmu Kim; Eun Kyung Choi; Euna Jo; Minjoo Cho; Jeong Hoon Kim; Hyun Park

doi:10.1038/s41597-023-02561-w

A chromosome-level reference genome of the Antarctic blackfin icefish Chaenocephalus aceratus

Seung Jae Lee, Jinmu Kim, Eun Kyung Choi, Euna Jo, Minjoo Cho, Jeong Hoon Kim, Hyun Park

Research output: Contribution to journal › Article › peer-review

1 Citation (Scopus)

Abstract

The blackfin Icefish (Chaenocephalus aceratus) belongs to the family Channichthyidae and the suborder Notothenioidei which lives in the Antarctic. We corrected the mis-scaffolds in the previous linkage map results by Hi-C analysis to obtain improved results for chromosome-level genome assembly. The final assembly analysis resulted in a total of 3,135 scaffolds, a genome size of 1,065.72 Mb, and an N50 of 33.46 Mb. 820.24 Mb, representing 88.88% of the total genome, is anchored to 24 chromosomes. The final gene set of 38,024 genes, including AFGPs, was annotated using RNA evidence, proteins, and ab-initio predictions. The complete percentage of BUSCO analysis is 92.7%. In this study, we aim to contribute to the study of polar fishes by improving the genome sequences of the blackfin icefish with the AFGP genes belonging to the Notothenoidei.

Original language	English
Article number	657
Journal	Scientific data
Volume	10
Issue number	1
DOIs	https://doi.org/10.1038/s41597-023-02561-w
Publication status	Published - 2023 Dec
Externally published	Yes

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© 2023, Springer Nature Limited.

ASJC Scopus subject areas

Statistics and Probability
Information Systems
Education
Computer Science Applications
Statistics, Probability and Uncertainty
Library and Information Sciences

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abstract = "The blackfin Icefish (Chaenocephalus aceratus) belongs to the family Channichthyidae and the suborder Notothenioidei which lives in the Antarctic. We corrected the mis-scaffolds in the previous linkage map results by Hi-C analysis to obtain improved results for chromosome-level genome assembly. The final assembly analysis resulted in a total of 3,135 scaffolds, a genome size of 1,065.72 Mb, and an N50 of 33.46 Mb. 820.24 Mb, representing 88.88% of the total genome, is anchored to 24 chromosomes. The final gene set of 38,024 genes, including AFGPs, was annotated using RNA evidence, proteins, and ab-initio predictions. The complete percentage of BUSCO analysis is 92.7%. In this study, we aim to contribute to the study of polar fishes by improving the genome sequences of the blackfin icefish with the AFGP genes belonging to the Notothenoidei.",

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doi = "10.1038/s41597-023-02561-w",

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AU - Jo, Euna

AU - Cho, Minjoo

AU - Kim, Jeong Hoon

AU - Park, Hyun

PY - 2023/12

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A chromosome-level reference genome of the Antarctic blackfin icefish Chaenocephalus aceratus

Abstract

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