野生狒狒肠道微生物组的同步性和变异性。
Synchrony and idiosyncrasy in the gut microbiome of wild baboons.
机构信息
Department of Biological Sciences, University of Notre Dame, Notre Dame, IN, USA.
Program in Computational Biology and Bioinformatics, Duke University, Durham, NC, USA.
出版信息
Nat Ecol Evol. 2022 Jul;6(7):955-964. doi: 10.1038/s41559-022-01773-4. Epub 2022 Jun 2.
Human gut microbial dynamics are highly individualized, making it challenging to link microbiota to health and to design universal microbiome therapies. This individuality is typically attributed to variation in host genetics, diets, environments and medications but it could also emerge from fundamental ecological forces that shape microbiota more generally. Here, we leverage extensive gut microbial time series from wild baboons-hosts who experience little interindividual dietary and environmental heterogeneity-to test whether gut microbial dynamics are synchronized across hosts or largely idiosyncratic. Despite their shared lifestyles, baboon microbiota were only weakly synchronized. The strongest synchrony occurred among baboons living in the same social group, probably because group members range over the same habitat and simultaneously encounter the same sources of food and water. However, this synchrony was modest compared to each host's personalized dynamics. In support, host-specific factors, especially host identity, explained, on average, more than three times the deviance in longitudinal dynamics compared to factors shared with social group members and ten times the deviance of factors shared across the host population. These results contribute to mounting evidence that highly idiosyncratic gut microbiomes are not an artefact of modern human environments and that synchronizing forces in the gut microbiome (for example, shared environments, diets and microbial dispersal) are not strong enough to overwhelm key drivers of microbiome personalization, such as host genetics, priority effects, horizontal gene transfer and functional redundancy.
人类肠道微生物动态具有高度个体性,这使得将微生物组与健康联系起来并设计通用的微生物组疗法具有挑战性。这种个体性通常归因于宿主遗传、饮食、环境和药物的变化,但也可能源于更普遍地塑造微生物组的基本生态力量。在这里,我们利用来自野生狒狒的广泛肠道微生物时间序列——这些宿主经历的个体间饮食和环境异质性很小——来测试肠道微生物动态是否在宿主之间同步或主要是独特的。尽管它们有着共同的生活方式,但狒狒的微生物组仅表现出微弱的同步性。最强的同步发生在生活在同一社会群体中的狒狒之间,这可能是因为群体成员在同一栖息地范围内活动,并同时遇到相同的食物和水源。然而,与每个宿主的个性化动态相比,这种同步性是适度的。支持这一观点的是,宿主特异性因素,尤其是宿主身份,平均解释了纵向动态变化的三倍以上,而与社会群体成员共享的因素则解释了十分之一,与宿主群体共享的因素则解释了十分之一。这些结果有助于证明高度独特的肠道微生物组不是现代人类环境的产物,并且肠道微生物组中的同步力量(例如,共享环境、饮食和微生物传播)不足以克服微生物组个性化的关键驱动因素,例如宿主遗传学、优先效应、水平基因转移和功能冗余。