斑头雁（Anser indicus）染色体水平基因组组装。

Chromosome-level genome assembly of the bar-headed goose (Anser indicus).

机构信息

National Engineering Laboratory for Animal Breeding, Plateau Animal Genetics Research Center, China Agricultural University, Beijing, 100193, China.

Institute of Animal Science, Wenzhou Academy of Agricultural Sciences, Wenzhou, 325006, China.

出版信息

Sci Data. 2022 Nov 3;9(1):668. doi: 10.1038/s41597-022-01801-9.

DOI:10.1038/s41597-022-01801-9

PMID:36329062

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC9633837/

Abstract

Bar-headed geese (Anser indicus) are adaptable to plateau environments. In this study, we sequenced and assembled a high-quality chromosome-level genome of the bar-headed goose using PacBio long reads and Hi-C technique, and generated 115.73 Gb of Illumina short-reads and 95.89 Gb of PacBio long-reads. The assembled bar-headed goose genome, with a contig N50 of 5.734 Mb and a scaffold N50 of 65.77 Mb, is 1.129 Gb in length and includes 33 chromosomes and 451 fragments. BUSCO assessment yielded a completeness score of 94.4%. In total, 15,376 protein-coding genes were predicted, of which 94.95% had homologs in protein databases. We identified 78 positively selected genes (PSGs) in the bar-headed goose genome, which were mainly enriched in calcium ion and ATP-binding. This bar-headed goose genome will be an important resource for increasing our understanding regarding the genetic basis of adaptation to life at a high altitude.

摘要

斑头雁（Anser indicus）能够适应高原环境。在这项研究中，我们使用 PacBio 长读长和 Hi-C 技术对斑头雁进行了测序和组装，得到了 115.73 Gb 的 Illumina 短读长和 95.89 Gb 的 PacBio 长读长。组装得到的斑头雁基因组，contig N50 为 5.734 Mb，scaffold N50 为 65.77 Mb，全长 1.129 Gb，包含 33 条染色体和 451 个片段。BUSCO 评估得到的完整性评分为 94.4%。总共预测到 15376 个蛋白质编码基因，其中 94.95%在蛋白质数据库中有同源基因。我们在斑头雁基因组中鉴定出 78 个正选择基因（PSGs），这些基因主要富集在钙离子和 ATP 结合上。这个斑头雁基因组将成为一个重要的资源，有助于增加我们对适应高海拔生活的遗传基础的理解。