Acquisition, transmission and strain diversity of human gut-colonizing crAss-like phages
Acquisition, transmission and strain diversity of human gut-colonizing crAss-like phages
复制标题
DOI：
10.1038/s41467-019-14103-3
复制
发表时间：
2020-01-15
影响因子：
16.6
通讯作者：
Bhatt, Ami S.
中科院分区：
文献类型：
--
作者：
Siranosian, Benjamin A.;Tamburini, Fiona B.;Bhatt, Ami S.
CrAss样病毒是在人类肠道微生物组中普遍存在的双链DNA病毒。在这里，我们分析了来自母婴对和接受粪便微生物群移植的患者的肠道宏基因组数据，以评估crAss-like peptide的获取，传播和菌株多样性的模式。我们发现，crAss样细菌在出生时很少被检测到，但在一个月后的婴儿微生物组中越来越普遍。我们在50%的病例中观察到几乎相同的基因组，其中在母亲和婴儿中检测到相同的crAss样进化枝，这表明垂直传播。在假定传播原型crAsphage（p-crAsphage）的情况下，我们发现在婴儿中检测到母亲中存在的一部分菌株，并且婴儿中的菌株多样性随着时间的推移而增加。与其他基因相比，推定的尾纤蛋白富含非同义菌株变异，这表明在特定基因中保持菌株多样性具有潜在的进化益处。最后，我们表明，p-crAs年龄可以通过粪便微生物群移植获得。
CrAss-like phages are double-stranded DNA viruses that are prevalent in human gut microbiomes. Here, we analyze gut metagenomic data from mother-infant pairs and patients undergoing fecal microbiota transplantation to evaluate the patterns of acquisition, transmission and strain diversity of crAss-like phages. We find that crAss-like phages are rarely detected at birth but are increasingly prevalent in the infant microbiome after one month of life. We observe nearly identical genomes in 50% of cases where the same crAss-like clade is detected in both the mother and the infant, suggesting vertical transmission. In cases of putative transmission of prototypical crAssphage (p-crAssphage), we find that a subset of strains present in the mother are detected in the infant, and that strain diversity in infants increases with time. Putative tail fiber proteins are enriched for nonsynonymous strain variation compared to other genes, suggesting a potential evolutionary benefit to maintaining strain diversity in specific genes. Finally, we show that p-crAssphage can be acquired through fecal microbiota transplantation.