南极黑鳍冰鱼 Chaenocephalus aceratus 的染色体水平参考基因组。

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

机构信息

Department of Biotechnology, College of Life Sciences and Biotechnology, Korea University, Seoul, Korea.

Korea Polar Research Institute (KOPRI), Yeonsu-gu, Incheon, Korea.

出版信息

Sci Data. 2023 Sep 26;10(1):657. doi: 10.1038/s41597-023-02561-w.

DOI:10.1038/s41597-023-02561-w

PMID:37752129

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC10522714/

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.

摘要

黑鳍冰鱼（Chaenocephalus aceratus）属于冰鱼科和南极次亚目 Notothenioidei，生活在南极。我们通过 Hi-C 分析纠正了先前连锁图谱结果中的错误支架，以获得染色体水平基因组组装的改进结果。最终的组装分析总共得到 3135 个支架，基因组大小为 1065.72 Mb，N50 为 33.46 Mb。820.24 Mb，占总基因组的 88.88%，锚定在 24 条染色体上。使用 RNA 证据、蛋白质和从头预测对最终的 38024 个基因（包括 AFGP）进行了注释。BUSCO 分析的完整百分比为 92.7%。在这项研究中，我们旨在通过改进具有 AFGP 基因的黑鳍冰鱼的基因组序列来促进极地鱼类的研究，这些 AFGP 基因属于 Notothenoidei。