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血雉的基因组草图：系统发育与高原适应性

The draft genome of the blood pheasant (): Phylogeny and high-altitude adaptation.

作者信息

Zhou Chuang, Liu Yi, Qiao Lu, Liu Yang, Yang Nan, Meng Yang, Yue Bisong

机构信息

Key Laboratory of Bioresources and Ecoenvironment (Ministry of Education) College of Life Sciences Sichuan University Chengdu China.

Chengdu Zoo/Chengdu Wildlife Research Institute Chengdu China.

出版信息

Ecol Evol. 2020 Sep 28;10(20):11440-11452. doi: 10.1002/ece3.6782. eCollection 2020 Oct.

DOI:10.1002/ece3.6782
PMID:33144976
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC7593199/
Abstract

The blood pheasant (), the only species in the genus , lives in an extremely inhospitable high-altitude environment, coping with hypoxia and ultraviolet (UV) radiation. To further investigate the phylogeny of Phasianidae species based on complete genomes and understand the molecular genetic mechanisms of the high-altitude adaptation of the blood pheasant, we de novo assembled and annotated the complete genome of the blood pheasant. The blood pheasant genome size is 1.04 Gb with scaffold N50 of 10.88 Mb. We identified 109.92 Mb (10.62%) repetitive elements, 279,037 perfect microsatellites, and 17,209 protein-coding genes. The phylogenetic tree of Phasianidae based on whole genomes revealed three highly supported major clades with the blood pheasant included in the "erectile clade." Comparative genomics analysis showed that many genes were positively selected in the blood pheasant, which was associated with response to hypoxia and/or UV radiation. More importantly, among these positively selected genes (PSGs) which were related to high-altitude adaptation, sixteen PSGs had blood pheasant-specific missense mutations. Our data and analysis lay solid foundation to the study of Phasianidae phylogeny and provided new insights into the potential adaptation mechanisms to the high altitude employed by the blood pheasant.

摘要

血雉（）是属的唯一物种，生活在极端恶劣的高海拔环境中，应对缺氧和紫外线（UV）辐射。为了基于完整基因组进一步研究雉科物种的系统发育，并了解血雉高海拔适应的分子遗传机制，我们对血雉的完整基因组进行了从头组装和注释。血雉基因组大小为1.04Gb，支架N50为10.88Mb。我们鉴定出109.92Mb（10.62%）的重复元件、279,037个完美微卫星和17,209个蛋白质编码基因。基于全基因组的雉科系统发育树揭示了三个得到高度支持的主要分支，血雉包含在“勃起分支”中。比较基因组学分析表明，血雉中有许多基因受到正选择，这与对缺氧和/或紫外线辐射的反应有关。更重要的是，在这些与高海拔适应相关的正选择基因（PSG）中，有16个PSG具有血雉特有的错义突变。我们的数据和分析为雉科系统发育研究奠定了坚实基础，并为血雉采用的高海拔潜在适应机制提供了新见解。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/e764/7593199/3e3a46f00df7/ECE3-10-11440-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/e764/7593199/ff4c29f12339/ECE3-10-11440-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/e764/7593199/3a4c177a9f3a/ECE3-10-11440-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/e764/7593199/d9f37b245286/ECE3-10-11440-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/e764/7593199/d508e14c2814/ECE3-10-11440-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/e764/7593199/3e3a46f00df7/ECE3-10-11440-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/e764/7593199/ff4c29f12339/ECE3-10-11440-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/e764/7593199/3a4c177a9f3a/ECE3-10-11440-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/e764/7593199/d9f37b245286/ECE3-10-11440-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/e764/7593199/d508e14c2814/ECE3-10-11440-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/e764/7593199/3e3a46f00df7/ECE3-10-11440-g005.jpg

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DDB2 regulates Epithelial-to-Mesenchymal Transition (EMT) in Oral/Head and Neck Squamous Cell Carcinoma.DDB2调节口腔/头颈鳞状细胞癌中的上皮-间质转化（EMT）。
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