Opportunities and challenges of using metagenomic data to bring uncultured microbes into cultivation

文献类型： 外文期刊

第一作者： Liu, Sijia

作者： Liu, Sijia;Zheng, Nan;Zhao, Shengguo;Wang, Jiaqi;Liu, Sijia;Moon, Christina D.;Huws, Sharon;Huws, Sharon

作者机构：

期刊名称：MICROBIOME （ 影响因子：16.837； 五年影响因子：19.813 ）

ISSN： 2049-2618

年卷期： 2022 年 10 卷 1 期

页码：

收录情况： SCI

摘要： Although there is now an extensive understanding of the diversity of microbial life on earth through culture-independent metagenomic DNA sequence analyses, the isolation and cultivation of microbes remains critical to directly study them and confirm their metabolic and physiological functions, and their ecological roles. The majority of environmental microbes are as yet uncultured however; therefore, bringing these rare or poorly characterized groups into culture is a priority to further understand microbiome functions. Moreover, cultivated isolates may find utility in a range of applications, such as new probiotics, biocontrol agents, and agents for industrial processes. The growing abundance of metagenomic and meta-transcriptomic sequence information from a wide range of environments provides more opportunities to guide the isolation and cultivation of microbes of interest. In this paper, we discuss a range of successful methodologies and applications that have underpinned recent metagenome-guided isolation and cultivation of microbe efforts. These approaches include determining specific culture conditions to enrich for taxa of interest, to more complex strategies that specifically target the capture of microbial species through antibody engineering and genome editing strategies. With the greater degree of genomic information now available from uncultivated members, such as via metagenome-assembled genomes, the theoretical understanding of their cultivation requirements will enable greater possibilities to capture these and ultimately gain a more comprehensive understanding of the microbiomes.

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