Profiling microbial strains in urban environments using metagenomic sequencing data.

ABSTRACT:

Background

The microbial communities populating human and natural environments have been extensively characterized with shotgun metagenomics, which provides an in-depth representation of the microbial diversity within a sample. Microbes thriving in urban environments may be crucially important for human health, but have received less attention than those of other environments. Ongoing efforts started to target urban microbiomes at a large scale, but the most recent computational methods to profile these metagenomes have never been applied in this context. It is thus currently unclear whether such methods, that have proven successful at distinguishing even closely related strains in human microbiomes, are also effective in urban settings for tasks such as cultivation-free pathogen d

SUBMITTER: Zolfo M 

PROVIDER: S-EPMC5944035 | biostudies-literature | 2018 May

REPOSITORIES: biostudies-literature