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基于使用DNA条形码的公开基因组数据,对原生动物相互作用进行大规模研究
Jiazheng Xie1, Bowen Tan1, Yi Zhang1
1Chongqing Key Laboratory of Big Data for Bio Intelligence, Chongqing University of Posts and Telecommunications, Chongqing 400065, China.
Animals : an open access journal from MDPI
|July 29, 2023
概括
基因组数据库中含有大量的前列腺污染,影响了动物基因组分析. 这项研究在1507个元生动物组合中确定了17036个受污染的结合体,揭示了宿主特异性模式,并帮助了宿主微生物相互作用研究.
科学领域:
- 基因组学就是基因组学.
- 生物信息学是一种生物信息学.
- 寄生虫学的寄生虫学
背景情况:
- 下一代测序 (NGS) 已经导致公共基因组数据的大量增加.
- 在基因组组件中的外源污染和细胞内寄生虫序列可能会阻碍准确的分析.
- 然而,这些污染物为研究宿主微生物相互作用提供了机会.
研究的目的:
- 系统地扫描GenBank全基因组快枪/转录基因组快枪组合 (WGS/TSA) 数据库,以检测甲基动物组合中的原生体污染.
- 分析不同动物种群中前列腺污染物的分布和宿主特异性.
- 为了利用检测到的原生体序列来理解picoeukaryote多样性及其与Metazoa的关系.
主要方法:
- 采用DNA条形码策略来识别甲基动物组合中的原生体序列.
- 分析了原生态原始物起源的结合物,并计算了各种种类的污染率.
- 对线粒体蛋白质 (COX1和CYTB) 的遗传学分析进行,以确认原生质原点的起源和分布.
主要成果:
- 在13,952个甲动物群中,在1507个中发现了总共17,036个原生虫污染物,污染率为10.8%.
- 在Cnidaria (150/281), Crustacea (237/480) 和 Mollusca (107/410) 中观察到更高的污染率.
- 宿主特定的污染模式是显而易见的,其中Apicomplexa,Ciliophora,Oomycota和Symbiodiniaceae分别表现出对哺乳动物/鸟类,甲类,昆虫和Cnidaria的偏好.
结论:
- 蛋白质质污染是公开的甲动物基因组数据库中的一个重要问题.
- 已识别的污染物表现出明显的宿主关联,提供了对宿主微生物相互作用的见解.
- 这种大规模的污染扫描为探索原生动物多样性及其在元动物宿主中的生态作用提供了宝贵的资源.
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