The evolution and changing ecology of the African hominid oral microbiome.
The evolution and changing ecology of the African hominid oral microbiome.
复制标题
DOI：
10.1073/pnas.2021655118
复制
发表时间：
2021-05-18
影响因子：
11.1
通讯作者：
Warinner C
中科院分区：
文献类型：
--
作者：
Fellows Yates JA;Velsko IM;Aron F;Posth C;Hofman CA;Austin RM;Parker CE;Mann AE;Nägele K;Arthur KW;Arthur JW;Bauer CC;Crevecoeur I;Cupillard C;Curtis MC;Dalén L;Díaz-Zorita Bonilla M;Díez Fernández-Lomana JC;Drucker DG;Escribano Escrivá E;Francken M;Gibbon VE;González Morales MR;Grande Mateu A;Harvati K;Henry AG;Humphrey L;Menéndez M;Mihailović D;Peresani M;Rodríguez Moroder S;Roksandic M;Rougier H;Sázelová S;Stock JT;Straus LG;Svoboda J;Teßmann B;Walker MJ;Power RC;Lewis CM;Sankaranarayanan K;Guschanski K;Wrangham RW;Dewhirst FE;Salazar-García DC;Krause J;Herbig A;Warinner C
微生物组在人类健康中起着关键作用，但对其进化知之甚少。我们通过分析过去10万年来人类和尼安德特人的牙齿生物膜，并将其与黑猩猩，大猩猩和吼猴的牙齿生物膜进行比较，来研究非洲原始人口腔微生物组的进化历史。我们确定了10个核心细菌属，这些细菌属一直保持在人类谱系中，并发挥关键的生物膜结构作用。然而，许多人仍然没有得到充分的研究和命名。我们发现，人和黑猩猩的口腔微生物组之间的主要分类和功能差异，但尼安德特人和现代人之间的高度相似性，包括一个明显的人特异性收购淀粉消化能力的口腔链球菌，表明微生物与宿主饮食的共适应。口腔微生物组在人类生物学、健康和疾病中起着关键作用，但人们对这种微生物群落的全球多样性、变异或进化知之甚少。为了更好地了解人类口腔微生物组的进化和不断变化的生态，我们分析了来自人类的124个牙齿生物膜宏基因组，包括尼安德特人和晚更新世到当今现代人类、黑猩猩和大猩猩，以及新世界吼猴进行比较。我们发现，主要生物膜结构类群的核心微生物组一直保持在整个非洲原始人的进化，这些微生物群也与吼猴共享，这表明它们一直是重要的口腔成员，因为之前的卡他鼻-阔鼻分裂CA。40英里。然而，群落结构和个体微生物的共生性并不能密切反映宿主关系，人和黑猩猩的牙齿生物膜的主要分类和功能差异。通过重建10万年前的口腔宏基因组，我们发现尼安德特人和现代人的微生物特征高度相似，在营养代谢方面具有共同的功能适应性。这些包括一个明显的同源特异性收购唾液淀粉酶结合能力的口腔链球菌，表明微生物与宿主饮食的共适应。我们还发现了尼安德特人和旧石器时代晚期现代人口腔细菌中共享遗传多样性的证据，这在后来的现代人群中没有观察到。非洲原始人口腔微生物组的差异为人类进化、人类微生物组的祖先状态以及理解微生物健康和疾病的时间框架提供了见解。
The microbiome plays key roles in human health, but little is known about its evolution. We investigate the evolutionary history of the African hominid oral microbiome by analyzing dental biofilms of humans and Neanderthals spanning the past 100,000 years and comparing them with those of chimpanzees, gorillas, and howler monkeys. We identify 10 core bacterial genera that have been maintained within the human lineage and play key biofilm structural roles. However, many remain understudied and unnamed. We find major taxonomic and functional differences between the oral microbiomes of Homo and chimpanzees but a high degree of similarity between Neanderthals and modern humans, including an apparent Homo-specific acquisition of starch digestion capability in oral streptococci, suggesting microbial coadaptation with host diet. The oral microbiome plays key roles in human biology, health, and disease, but little is known about the global diversity, variation, or evolution of this microbial community. To better understand the evolution and changing ecology of the human oral microbiome, we analyzed 124 dental biofilm metagenomes from humans, including Neanderthals and Late Pleistocene to present-day modern humans, chimpanzees, and gorillas, as well as New World howler monkeys for comparison. We find that a core microbiome of primarily biofilm structural taxa has been maintained throughout African hominid evolution, and these microbial groups are also shared with howler monkeys, suggesting that they have been important oral members since before the catarrhine–platyrrhine split ca. 40 Mya. However, community structure and individual microbial phylogenies do not closely reflect host relationships, and the dental biofilms of Homo and chimpanzees are distinguished by major taxonomic and functional differences. Reconstructing oral metagenomes from up to 100 thousand years ago, we show that the microbial profiles of both Neanderthals and modern humans are highly similar, sharing functional adaptations in nutrient metabolism. These include an apparent Homo-specific acquisition of salivary amylase-binding capability by oral streptococci, suggesting microbial coadaptation with host diet. We additionally find evidence of shared genetic diversity in the oral bacteria of Neanderthal and Upper Paleolithic modern humans that is not observed in later modern human populations. Differences in the oral microbiomes of African hominids provide insights into human evolution, the ancestral state of the human microbiome, and a temporal framework for understanding microbial health and disease.
登录
查看更多内容
影响因子：
15.5
作者：
Davis, Nicole M;Proctor, Diana M;Callahan, Benjamin J
通讯作者：
Callahan, Benjamin J
影响因子：
14.9
作者：
Briggs AW;Stenzel U;Meyer M;Krause J;Kircher M;Pääbo S
通讯作者：
Pääbo S
影响因子：
3.4
作者：
De Caceres, Miquel;Legendre, Pierre;Moretti, Marco
通讯作者：
Moretti, Marco
影响因子：
5.8
作者：
Conway, Jake R.;Lex, Alexander;Gehlenborg, Nils
通讯作者：
Gehlenborg, Nils
影响因子：
1.9
作者：
Deimling, D;Breschi, L;Hannig, M
通讯作者：
Hannig, M