与蜜蜂相关的乳酸细菌的收性还原进化
Ana Pontes1,2, Marie-Claire Harrison3,4, Antonis Rokas3,4
1Associate Laboratory i4HB, Institute for Health and Bioeconomy and UCIBIO, Applied Molecular Biosciences Unit, Department of Life Sciences, NOVA School of Science and Technology, Universidade NOVA de Lisboa, Caparica, Portugal.
Applied and environmental microbiology
|October 23, 2024
概括
适应蜜蜂环境的乳酸细菌 (LAB) 独立地丢失了类似的基因,推动了诸如果友性等特征的融合进化. 这种基因组融合凸显了基因丢失作为与蜜蜂相关的LAB适应的关键驱动因素.
科学领域:
- 微生物学和进化生物学
- 基因组学和生物信息学
背景情况:
- 远距离相关的生物可以在适应类似的生态时演化出类似的特征 (融合进化).
- 乳酸细菌 (LAB) 经常居住在花环境中,一些物种表现出与蜜蜂协会相关的特殊基因组和表型特征.
研究的目的:
- 为了测试特定基因组和表型特征在与蜜蜂相关的LAB中演变趋同的假设.
- 调查基因丧失在LAB适应花蜜蜂环境中的作用.
主要方法:
- 对369个LAB基因组进行了家族基因组分析,比较了与蜜蜂相关的和与蜜蜂无关的物种.
- 机器学习模型被用来识别区分蜜蜂相关LAB的基因组特征.
- 对基因含量,基因组大小,GC含量和特定基因损失的分析,包括乙甲基醇脱酶 (adhE).
主要成果:
- 在LAB.中发现了7个独立的生态转移到蜜蜂环境中.
- 与蜜蜂相关的LAB表现出基因组大小,基因谱和GC含量的显著减少.
- 机器学习精确地区分了与蜜蜂相关的和与蜜蜂无关的物种 (准确率为94%) 基于缺乏特定基因.
- 在多个与蜜蜂相关的血统中观察到关键基因的独立损失,包括adhE,这与果的进化有关.
结论:
- 与蜜蜂相关的LAB的融合进化在很大程度上是由相同基因组的独立损失所驱动的.
- 基因丢失显著影响了基因组轨迹和LAB适应蜜蜂的独特特征.
- 机器学习是检测适应指纹和融合进化的强大工具.
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