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释放动物毛干用于基因组研究的潜力:DNA质量的全面评估

Unlocking the Potential of Animal Hair Shafts for Genomic Studies: A Comprehensive Evaluation of DNA Quality.

作者信息

Zhou Yongheng, Zhang Qi, Gao Peng, Yang Shuhui, Xu Yanchun

机构信息

College of Wildlife and Protected Area, Northeast Forestry University, Harbin 150040, China.

National Forestry and Grassland Administration Research Centre of Engineering Technology for Wildlife Conservation and Utilization, Harbin 150040, China.

出版信息

Biology (Basel). 2025 Mar 28;14(4):353. doi: 10.3390/biology14040353.

DOI:10.3390/biology14040353
PMID:40282218
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC12024741/
Abstract

Hair is a prominent physiological feature of many animals that can be easily and non-invasively sampled. However, most previous studies have focused on human hair, and animal hair has not been widely used as a DNA source in genetic and evolutionary studies. Analysing the DNA quality of animal hair is more challenging than that of human hair because it varies across different species and is influenced by different storage conditions. To address this gap in our knowledge, this study systematically evaluated the DNA quality of various animal hair samples. Our findings show that lightly medullated hairs, which are typical in carnivores, yield greater amounts of DNA and have better sequencing results than highly medullated hairs, which are typical in ungulate herbivores. Furthermore, the roots and middle hair were more productive than the upper hair parts. Tanning and storage time impair DNA yield and sequencing quality and increase nucleotide damage. Moreover, for certain historical specimens and field samples, genomic DNA was more successfully obtained from hair samples than from skin samples. This study provides data and theoretical support for improving the use of animal hair in genetic research.

摘要

毛发是许多动物显著的生理特征,易于非侵入性采样。然而,以往大多数研究都集中在人类毛发上,动物毛发在遗传和进化研究中尚未被广泛用作DNA来源。分析动物毛发的DNA质量比人类毛发更具挑战性,因为它在不同物种间存在差异,且受不同储存条件影响。为填补这一知识空白,本研究系统评估了各种动物毛发样本的DNA质量。我们的研究结果表明,食肉动物典型的轻度髓质化毛发比有蹄类食草动物典型的高度髓质化毛发产生的DNA量更多,测序结果更好。此外,毛发根部和中部比上部更易提取到DNA。鞣制和储存时间会损害DNA产量和测序质量,并增加核苷酸损伤。此外,对于某些历史标本和野外样本,从毛发样本中比从皮肤样本中更成功地获得了基因组DNA。本研究为改进动物毛发在遗传研究中的应用提供了数据和理论支持。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/11e0/12024741/88a12f3dd148/biology-14-00353-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/11e0/12024741/c3158633ca81/biology-14-00353-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/11e0/12024741/61d427b2debd/biology-14-00353-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/11e0/12024741/84d63c32fafc/biology-14-00353-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/11e0/12024741/054490a8243f/biology-14-00353-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/11e0/12024741/88a12f3dd148/biology-14-00353-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/11e0/12024741/c3158633ca81/biology-14-00353-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/11e0/12024741/61d427b2debd/biology-14-00353-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/11e0/12024741/84d63c32fafc/biology-14-00353-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/11e0/12024741/054490a8243f/biology-14-00353-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/11e0/12024741/88a12f3dd148/biology-14-00353-g005.jpg

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本文引用的文献

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Stable isotope analyses of carbon and nitrogen in hair keratin of suspected man-eating wolves from 1880s.对 19 世纪 80 年代疑似食人狼的毛发角蛋白中的碳和氮进行稳定同位素分析。
Sci Rep. 2024 Feb 28;14(1):4946. doi: 10.1038/s41598-024-55521-8.
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A simple and effective method to enrich endogenous DNA from mammalian faeces.一种从哺乳动物粪便中富集内源性 DNA 的简单有效方法。
Mol Ecol Resour. 2024 May;24(4):e13939. doi: 10.1111/1755-0998.13939. Epub 2024 Feb 19.
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Identification of animal species by nucleic acid chromatography of hair samples and investigation of its applicability to human biological samples.
利用毛发样本的核酸层析技术进行动物物种鉴定及其在人类生物样本中适用性的研究。
Forensic Sci Int. 2023 Oct;351:111811. doi: 10.1016/j.forsciint.2023.111811. Epub 2023 Aug 23.
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Test development, optimization and validation of a WGS pipeline for genetic disorders.开发、优化和验证用于遗传疾病的 WGS 管道的测试。
BMC Med Genomics. 2023 Apr 5;16(1):74. doi: 10.1186/s12920-023-01495-x.
5
Detection of deletion/insertion polymorphism profiles from single human hair shafts.从单个人发中检测缺失/插入多态性谱。
Mol Biol Rep. 2022 Feb;49(2):1017-1025. doi: 10.1007/s11033-021-06921-w. Epub 2021 Nov 5.
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DamageProfiler: fast damage pattern calculation for ancient DNA.DamageProfiler:用于古代DNA的快速损伤模式计算
Bioinformatics. 2021 Oct 25;37(20):3652-3653. doi: 10.1093/bioinformatics/btab190.
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Twelve years of SAMtools and BCFtools.SAMtools 和 BCFtools 十二年。
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Reducing the Number of Mismatches between Hairs and Buccal References When Analysing mtDNA Heteroplasmic Variation by Massively Parallel Sequencing.通过大规模平行测序分析线粒体DNA异质性变异时减少毛发与口腔样本参考之间的错配数量
Genes (Basel). 2020 Nov 16;11(11):1355. doi: 10.3390/genes11111355.
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Evaluation of InnoQuant HY and InnoTyper 21 kits in the DNA analysis of rootless hair samples.评价 InnoQuant HY 和 InnoTyper 21 试剂盒在无根毛发样本 DNA 分析中的应用。
Forensic Sci Int Genet. 2019 Mar;39:61-65. doi: 10.1016/j.fsigen.2018.12.005. Epub 2018 Dec 17.
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