Genomic Microdiversity of Bifidobacterium pseudocatenulatum Underlying Differential Strain-Level Responses to Dietary Carbohydrate Intervention.
Genomic Microdiversity of Bifidobacterium pseudocatenulatum Underlying Differential Strain-Level Responses to Dietary Carbohydrate Intervention.
复制标题
假链状双歧杆菌的基因组微多样性是对膳食碳水化合物干预的不同菌株水平反应的基础
DOI：
10.1128/mbio.02348-16
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发表时间：
2017-02-14
期刊：
影响因子：
6.4
通讯作者：
Zhang M
中科院分区：
文献类型：
--
作者：
Wu G;Zhang C;Wu H;Wang R;Shen J;Wang L;Zhao Y;Pang X;Zhang X;Zhao L;Zhang M
人类肠道有益细菌对饮食干预的反应的基因组基础仍然难以捉摸，这阻碍了对人类健康微生物群的精确操纵。在接受富含不可消化碳水化合物的饮食干预105天后，患有Prader-Willi综合征的遗传性肥胖儿童体重减轻了18.4%，生物临床参数显着改善。我们从干预后的粪便样本中获得了五个分离株（C1，C15，C55，C62和C95），其中一个最丰富的促进有益的物种，假小链双歧杆菌。有趣的是，这五种B. pseudocatenulatum菌株在饮食干预期间显示出不同的反应。两个菌株基本上不受影响，而其他三个不同程度地促进了饮食碳水化合物资源的变化。这些菌株的差异反应与它们基于COG（Clusters of Orthopathy Groups）的功能聚类一致，包括与ABC型糖转运系统相关的功能聚类，表明菌株特异性基因组变异可能有助于生态位适应。特别地，具有最多样化类型和最高基因拷贝数的靶向植物多糖的碳水化合物活性酶的B. pseudocatenulatum C15在饮食干预后具有最高丰度。这些研究表明，如果要实现精确的营养方法，了解肠道微生物群特定成员的基因组多样性非常重要。通过饮食方法操纵肠道微生物群是改善人类健康的一个有前途的选择。我们的研究结果表明，从同一栖息地分离的多个B. pseudocatenulatum菌株对饮食干预的反应不同，以及菌株特异性与宿主生物临床参数的相关性。比较基因组学揭示了相关功能基因的基因组水平微多样性，这可能是导致这些差异的原因。这些结果强调了理解菌株水平差异的必要性，如果要实现通过饮食方法精确操纵肠道微生物群。
The genomic basis of the response to dietary intervention of human gut beneficial bacteria remains elusive, which hinders precise manipulation of the microbiota for human health. After receiving a dietary intervention enriched with nondigestible carbohydrates for 105 days, a genetically obese child with Prader-Willi syndrome lost 18.4% of his body weight and showed significant improvement in his bioclinical parameters. We obtained five isolates (C1, C15, C55, C62, and C95) of one of the most abundantly promoted beneficial species, Bifidobacterium pseudocatenulatum, from a postintervention fecal sample. Intriguingly, these five B. pseudocatenulatum strains showed differential responses during the dietary intervention. Two strains were largely unaffected, while the other three were promoted to different extents by the changes in dietary carbohydrate resources. The differential responses of these strains were consistent with their functional clustering based on the COGs (Clusters of Orthologous Groups), including those involved with the ABC-type sugar transport systems, suggesting that the strain-specific genomic variations may have contributed to the niche adaption. Particularly, B. pseudocatenulatum C15, which had the most diverse types and highest gene copy numbers of carbohydrate-active enzymes targeting plant polysaccharides, had the highest abundance after the dietary intervention. These studies show the importance of understanding genomic diversity of specific members of the gut microbiota if precise nutrition approaches are to be realized. The manipulation of the gut microbiota via dietary approaches is a promising option for improving human health. Our findings showed differential responses of multiple B. pseudocatenulatum strains isolated from the same habitat to the dietary intervention, as well as strain-specific correlations with bioclinical parameters of the host. The comparative genomics revealed a genome-level microdiversity of related functional genes, which may have contributed to these differences. These results highlight the necessity of understanding strain-level differences if precise manipulation of gut microbiota through dietary approaches is to be realized.