藏羚羊（Pantholops hodgsonii）高质量染色体水平参考基因组组装。

A high-quality chromosome-level reference genome assembly of Tibetan antelope (Pantholops hodgsonii).

机构信息

Key Laboratory of Adaptation and Evolution of Plateau Biota, Northwest Institute of Plateau Biology, Chinese Academy of Sciences, Xining, 810008, Qinghai, China.

University of Chinese Academy of Sciences, Beijing, 100049, China.

出版信息

Sci Data. 2024 Nov 12;11(1):1215. doi: 10.1038/s41597-024-04089-z.

DOI:10.1038/s41597-024-04089-z

PMID:39532915

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11557879/

Abstract

Tibetan antelope (Pantholops hodgsonii), a wild ruminant endemic to the Qinghai-Tibetan Plateau (QTP) in China, has evolved a series of genetic and physiological adaptation strategies to thrive in the harsh plateau environments. However, limited research on the genome of this species exists. Here, we established a high-quality chromosome-level reference genome assembly of the Tibetan antelope using PacBio HiFi, DNBSEQ, and Hi-C sequencing data. The assembly, totaling 3.13 GB, consists of 31 chromosomes (29 + X + partial Y), with a Scaffold N50 length of 92.23 Mb. The quality value (QV) and Benchmarking Universal Single-Copy Ortholog (BUSCO) score were 70.14 and 98.20%, respectively, indicating that our genome sequence is of high quality and completeness. Our genome not only contribute to the genetic conservation of Tibetan antelope but also provides a valuable resource for genetic, ecological, and evolutionary research within the sub-family Caprinae.

摘要

藏羚羊（Pantholops hodgsonii）是一种野生反刍动物，分布于中国青藏高原（QTP），已进化出一系列遗传和生理适应策略，以在恶劣的高原环境中生存。然而，对该物种的基因组研究有限。在这里，我们使用 PacBio HiFi、DNBSEQ 和 Hi-C 测序数据建立了藏羚羊的高质量染色体水平参考基因组组装。组装总大小为 3.13GB，由 31 条染色体（29+X+部分 Y）组成，Scaffold N50 长度为 92.23Mb。质量值（QV）和基准通用单拷贝同源物（BUSCO）评分为 70.14%和 98.20%，表明我们的基因组序列质量和完整性都很高。我们的基因组不仅为藏羚羊的遗传保护做出了贡献，还为该亚科内的遗传、生态和进化研究提供了宝贵的资源。