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宿主系统发育和宿主生态在不同分类尺度上构建了哺乳动物的肠道微生物群。

Host phylogeny and host ecology structure the mammalian gut microbiota at different taxonomic scales.

作者信息

Rojas Connie A, Ramírez-Barahona Santiago, Holekamp Kay E, Theis Kevin R

机构信息

Department of Integrative Biology, Michigan State University, East Lansing, MI, USA.

Ecology, Evolution, and Behavior Program, Michigan State University, East Lansing, MI, USA.

出版信息

Anim Microbiome. 2021 Apr 23;3(1):33. doi: 10.1186/s42523-021-00094-4.


DOI:10.1186/s42523-021-00094-4
PMID:33892813
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC8063394/
Abstract

The gut microbiota is critical for host function. Among mammals, host phylogenetic relatedness and diet are strong drivers of gut microbiota structure, but one factor may be more influential than the other. Here, we used 16S rRNA gene sequencing to determine the relative contributions of host phylogeny and host diet in structuring the gut microbiotas of 11 herbivore species from 5 families living sympatrically in southwest Kenya. Herbivore species were classified as grazers, browsers, or mixed-feeders and dietary data (% C4 grasses in diet) were compiled from previously published sources. We found that herbivore gut microbiotas were highly species-specific, and that host taxonomy accounted for more variation in the gut microbiota (30%) than did host dietary guild (10%) or sample month (8%). Overall, similarity in the gut microbiota increased with host phylogenetic relatedness (r = 0.74) across the 11 species of herbivores, but among 7 closely related Bovid species, dietary %C4 grass values more strongly predicted gut microbiota structure (r = 0.64). Additionally, within bovids, host dietary guild explained more of the variation in the gut microbiota (17%) than did host species (12%). Lastly, while we found that the gut microbiotas of herbivores residing in southwest Kenya converge with those of distinct populations of conspecifics from central Kenya, fine-scale differences in the abundances of bacterial amplicon sequence variants (ASVs) between individuals from the two regions were also observed. Overall, our findings suggest that host phylogeny and taxonomy strongly structure the gut microbiota across broad host taxonomic scales, but these gut microbiotas can be further modified by host ecology (i.e., diet, geography), especially among closely related host species.

摘要

肠道微生物群对宿主功能至关重要。在哺乳动物中,宿主系统发育相关性和饮食是肠道微生物群结构的重要驱动因素,但其中一个因素可能比另一个更具影响力。在这里,我们使用16S rRNA基因测序来确定宿主系统发育和宿主饮食对生活在肯尼亚西南部同域分布的5个科的11种草食动物物种肠道微生物群结构的相对贡献。草食动物物种被分类为食草动物、食叶动物或混合食性动物,并从先前发表的来源汇编饮食数据(饮食中C4草的百分比)。我们发现,草食动物的肠道微生物群具有高度的物种特异性,并且宿主分类学在肠道微生物群中的变异占比(30%)高于宿主饮食类型(10%)或采样月份(8%)。总体而言,在11种草食动物物种中,肠道微生物群的相似性随着宿主系统发育相关性的增加而增加(r = 0.74),但在7种密切相关的牛科动物中,饮食中C4草的百分比更能强烈预测肠道微生物群结构(r = 0.64)。此外,在牛科动物中,宿主饮食类型对肠道微生物群变异的解释(17%)多于宿主物种(12%)。最后,虽然我们发现生活在肯尼亚西南部的草食动物的肠道微生物群与来自肯尼亚中部的同物种不同种群的肠道微生物群趋同,但也观察到两个地区个体之间细菌扩增子序列变体(ASV)丰度的细微差异。总体而言,我们的研究结果表明,宿主系统发育和分类学在广泛的宿主分类尺度上强烈构建了肠道微生物群,但这些肠道微生物群可以通过宿主生态(即饮食、地理)进一步改变,特别是在密切相关的宿主物种之间。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/26dc/8063394/74d3c30e3945/42523_2021_94_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/26dc/8063394/1783af4efbee/42523_2021_94_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/26dc/8063394/8924a7d4e207/42523_2021_94_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/26dc/8063394/711b7653f1c9/42523_2021_94_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/26dc/8063394/74d3c30e3945/42523_2021_94_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/26dc/8063394/1783af4efbee/42523_2021_94_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/26dc/8063394/8924a7d4e207/42523_2021_94_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/26dc/8063394/711b7653f1c9/42523_2021_94_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/26dc/8063394/74d3c30e3945/42523_2021_94_Fig4_HTML.jpg

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本文引用的文献

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Hum Microb J. 2020-3

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