对六种Paracoccus型菌株基因组的泛基因组分析揭示了生活方式特征
Jacqueline Hollensteiner1, Dominik Schneider1, Anja Poehlein1
1Genomic and Applied Microbiology and Göttingen Genomics Laboratory, Institute of Microbiology and Genetics, Georg-August University of Göttingen, Göttingen, Germany.
PloS one
|December 20, 2023
概括
多样化的Paracoccus属通过基因组可塑性和移动遗传元素适应各种环境. 自由生活的菌株表现出更大的基因组和更多的移动元素,而与宿主相关的菌株则具有特定功能的基因.
科学领域:
- 微生物学 微生物学
- 基因组学就是基因组学.
- 进化生物学 进化生物学
背景情况:
- 全球分布的Paracoccus属居住在各种海洋和陆地中.
- 帕拉科库斯表现出显著的分类学,代谢和生活方式的多样性.
- 对帕拉科克斯适应各种生态的机制的理解仍然有限.
研究的目的:
- 为了对Paracoccus属进行基因组学分析,并对未被分配的菌株进行分类.
- 来自各种生态领域的Paracoccus菌株进行泛基因组分析.
- 阐明基因组设备和生活方式在利基适应中的作用.
主要方法:
- 对160种Paracoccus菌株进行了基因组学分析.
- 来自不同环境的Paracoccus类型菌株的泛基因组分析.
- 使用短读和长读技术,对六个完整的Paracoccus基因组进行新的混合组装.
主要成果:
- 16种Paracoccus菌株被分类,并确定了五种错误分类.
- 全基因组分析揭示了一个开放的全基因组 (13,819个基因) 与一个小核心 (8.84%),突出了基因组适应潜力和染色体外元素的影响.
- 基因组是由移动遗传元素 (基因组岛屿,prophages,转移酶,插入序列) 塑造的,这表明了基因组的可塑性.
- 与宿主相关基因组相比,自由生活的Paracoccus基因组往往更大,拥有更多的染色体外元素,基因组岛屿和插入序列.
- 宿主关联基因组包含分子运输,细胞壁修饰,附着,应激保护,DNA修复和代谢的基因.
结论:
- 帕拉科库斯表现出由移动遗传元素驱动的显著基因组可塑性,促进了对各种环境的适应.
- 生活方式显著影响基因组内容,自由生活和与宿主相关的菌株表现出明显的遗传特征.
- 广泛的适应性基因库允许Paracoccus快速响应环境变化.
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