亚东鳟（Salmo trutta）的近乎完整的基因组组装

Near complete genome assembly of Yadong trout (Salmo trutta).

作者信息

Li Chen, Han Shenglei, Li Shuo, Liu Kaiqiang, Liu Yuyan, Wang Hong-Yan, Wang Qian, Liu Changlin, Shao Changwei

机构信息

State Key Laboratory of Mariculture Biobreeding and Sustainable Goods, Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Qingdao, Shandong, 266071, China.

School of Graduate, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.

出版信息

Sci Data. 2025 Jan 15;12(1):74. doi: 10.1038/s41597-025-04418-w.

DOI:10.1038/s41597-025-04418-w

PMID:39814780

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11735641/

Abstract

The Yadong trout (Salmo trutta), a species endemic to the Yatung River in Tibet, China, was classified as a second-class protected species in the 20th century. Now, it is considered one of the most important fishery resources in China. In this study, we assembled a near-complete genome of the S. trutta, integrating PacBio HiFi, Hi-C, and ONT sequencing technologies. The genome assembly spans 2.49 Gb, with 96.87% of the sequence anchored onto 40 chromosomes. In this assembly, a total of 12 chromosomes were assembled to a gap-free level, with 8 of them reaching the telomere-to-telomere level. The completeness of this assembly was assessed at 99.50% by BUSCO, containing approximately 63.24% repetitive sequences, and predicted to encode 41,782 protein-coding genes. This is the first near-complete genome assembly of the S. trutta, providing an essential resource for molecular breeding and germplasm conservation of this important species.

摘要

亚东鲑（Salmo trutta）是中国西藏亚东河特有的一种鱼类，在20世纪被列为二级保护物种。现在，它被认为是中国最重要的渔业资源之一。在本研究中，我们整合了PacBio HiFi、Hi-C和ONT测序技术，组装了一个近乎完整的亚东鲑基因组。该基因组组装大小为2.49 Gb，96.87%的序列被锚定到40条染色体上。在这个组装中，共有12条染色体被组装到无间隙水平，其中8条达到了端粒到端粒的水平。通过BUSCO评估，该组装的完整性为99.50%，包含约63.24%的重复序列，并预测编码41,782个蛋白质编码基因。这是首次对亚东鲑进行近乎完整的基因组组装，为该重要物种的分子育种和种质资源保护提供了重要资源。