Protist细胞培养中潜伏的细菌多样性

IF 1.1 3区 环境科学与生态学 Q3 BIODIVERSITY CONSERVATION
Ameris Aponte, Yangtsho Gyaltshen, J. Burns, Aaron A. Heiss, Eunsoo Kim, Sally D. Warring
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引用次数: 3

摘要

异养原生生物的实验室培养物通常是异种的,这意味着培养物包含不止一种微生物。在这项研究中,我们分析了四种海洋原生鞭毛虫——海洋malawimonad Imasa heleensis,未描述的mantamonad菌株SRT-306,盘状Ophirina amphinema和隐状Palpitomonas bilix——培养的基因组组装数据,专门寻找共培养细菌的基因组。由于原生生物的原始培养物中没有添加外部细菌,因此共培养的细菌很可能来自分离原生生物的原始水样。这些细菌中至少有一部分被原生生物作为食物来源消耗,所有这些原生生物都是专性异养生物。从这些混合培养物的四个独立的宏基因组从头组装中,我们确定了28个支架,BUSCO分析表明它们代表了完整或接近完整的细菌基因组。这些支架的长度在3,139,436至6,090,282 bp之间,编码2873至5666个基因。28个支架中只有8个与NCBI基因组数据库中的条目相对应,这意味着其中20个支架代表了假定的新细菌物种的基因组。我们的研究结果强调,这些经常被丢弃或忽视的数据可以成为新基因组和/或物种的来源。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
The Bacterial Diversity Lurking in Protist Cell Cultures
Laboratory cultures of heterotrophic protists are often xenic, meaning that the culture contains more than one microbial organism. In this study, we analyzed genome-assembly data from cultures of four marine protist flagellates—the marine malawimonad Imasa heleensis , the undescribed mantamonad strain SRT-306, the discobid Ophirina amphinema , and the cryptist Palpitomonas bilix —specifically to search for genomes of cocultured bacteria. As no external bacteria have been added to the protist stock cultures, it is probable that the cocultured bacteria came from the original water samples from which the protists were isolated. At least some of these bacteria are consumed as a food source by the protists, all of which are obligate hetero-trophs. From four separate metagenomic de novo assemblies for these mixed cultures, we identified 28 scaffolds, which BUSCO analyses suggest represent complete or near-complete bacterial genomes. These scaffolds range in length from 3,139,436 to 6,090,282 bp and encode 2873 to 5666 genes. Only eight of the 28 scaffolds corresponded to entries in the NCBI genome database, meaning that 20 of these scaffolds represent genomes from putatively novel bacterial species. Our findings highlight that data like these, which are often discarded or overlooked, can be a source of novel genomes and/or species.
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来源期刊
American Museum Novitates
American Museum Novitates 环境科学-动物学
CiteScore
3.00
自引率
6.70%
发文量
8
审稿时长
>36 weeks
期刊介绍: The Novitates (Latin for "new acquaintances"), published continuously and numbered consecutively since 1921, are short papers that contain descriptions of new forms and reports in zoology, paleontology, and geology.
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