Zou Angela, Sharif Shayan, Parkinson John
Program in Molecular Medicine, Hospital for Sick Children, Peter Gilgan Center for Research and Learning, 686 Bay Street, Toronto, ON M5G 0A4 Canada.
2Department of Biochemistry, University of Toronto, Toronto, ON Canada.
NPJ Biofilms Microbiomes. 2018 Nov 9;4:27. doi: 10.1038/s41522-018-0070-5. eCollection 2018.
The poultry industry has traditionally relied on the use of antibiotic growth promoters (AGPs) to improve production efficiency and minimize infection. With the recent drive to eliminate the use of AGPs, novel alternatives are urgently required. Recently attention has turned to the use of synthetic communities that may be used to 'seed' the developing microbiome. The current challenge is identifying keystone taxa whose influences in the gut can be leveraged for probiotic development. To help define such taxa we present a meta-analysis of 16S rRNA surveys of 1572 cecal microbiomes generated from 19 studies. Accounting for experimental biases, consistent with previous studies, we find that AGP exposure can result in reduced microbiome diversity. Network community analysis defines groups of taxa that form stable clusters and further reveals to elicit a polarizing effect on the cecal microbiome, exhibiting relatively equal numbers of positive and negative interactions with other taxa. Our identification of stable taxonomic associations provides a valuable framework for developing effective microbial consortia as alternatives to AGPs.
家禽业传统上依靠使用抗生素生长促进剂（AGP）来提高生产效率并减少感染。随着最近消除AGP使用的推动，迫切需要新的替代品。最近，人们的注意力转向了使用合成群落，这些群落可用于“播种”发育中的微生物群。当前的挑战是识别关键类群，其在肠道中的影响可用于益生菌开发。为了帮助定义此类类群，我们对来自19项研究的1572个盲肠微生物群的16S rRNA调查进行了荟萃分析。考虑到与先前研究一致的实验偏差，我们发现AGP暴露会导致微生物群多样性降低。网络群落分析定义了形成稳定簇的类群组，并进一步揭示其对盲肠微生物群产生极化效应，与其他类群的正负相互作用数量相对相等。我们对稳定分类关联的识别为开发有效的微生物联合体作为AGP的替代品提供了有价值的框架。
