Metagenomics and digital cell modeling facilitate targeted high‐throughput sorting of anaerobic hydrogen‐producing microorganisms

This study proposes a novel strategy that prioritizes functional recognition, followed by targeted high-throughput sorting, to enable the comprehensive, rapid, and efficient acquisition of target microorganisms. Using metagenomic sequencing and binning analysis, we identified 215 potential anaerobic hydrogen-producing strains from 12 large-scale biogas samples. Digital cell models were subsequently constructed from metagenome-assembled genomes, which guided the design of 14 selective culture media for enriching these hydrogen-producing bacteria. Flow cytometry-based high-throughput sorting successfully isolated 81 potential anaerobic hydrogen-producing strains, achieving a target acquisition rate above 37% and a survival rate exceeding 70%. This method holds broad potential for the discovery and sorting of functional microorganisms across diverse environments and may ultimately facilitate the development of synthetic microbiomes for industrial applications.

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Publication Details

Journal
iMeta
Published
2025-09-21
DOI
https://doi.org/10.1002/imt2.70082
Primary Topic
Anaerobic Digestion and Biogas Production
Type
article
Field-Weighted Citation Impact
0.00

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article

Metagenomics and digital cell modeling facilitate targeted high‐throughput sorting of anaerobic hydrogen‐producing microorganisms

Bin Liu, Ran Xu, Nanqi Ren, Aijie Wang et al.
iMeta
Anaerobic Digestion and Biogas Production
article

Metagenomics and digital cell modeling facilitate targeted high‐throughput sorting of anaerobic hydrogen‐producing microorganisms

Bin Liu, Ran Xu, Nanqi Ren, Aijie Wang, Jun Gong, Shuang Gao, Yongping Shan, Cong Huang, Jia Zhang, Zhang Xiao-hui, Jianfeng Liu, Wei Xing, Fenghua Yang, Yanan Hou, Nengyao Xu, Qianqian Yuan
article en

Abstract

This study proposes a novel strategy that prioritizes functional recognition, followed by targeted high-throughput sorting, to enable the comprehensive, rapid, and efficient acquisition of target microorganisms. Using metagenomic sequencing and binning analysis, we identified 215 potential anaerobic hydrogen-producing strains from 12 large-scale biogas samples. Digital cell models were subsequently constructed from metagenome-assembled genomes, which guided the design of 14 selective culture media for enriching these hydrogen-producing bacteria. Flow cytometry-based high-throughput sorting successfully isolated 81 potential anaerobic hydrogen-producing strains, achieving a target acquisition rate above 37% and a survival rate exceeding 70%. This method holds broad potential for the discovery and sorting of functional microorganisms across diverse environments and may ultimately facilitate the development of synthetic microbiomes for industrial applications.

iMetaVol. 4(6)
Tianjin University of Science and Technology (CN), Shenzhen Institute of Information Technology (CN), Tianjin Chengjian University (CN), Harbin Institute of Technology (CN), Tianjin Institute of Industrial Biotechnology (CN), Research Center for Eco-Environmental Sciences (CN), University of Chinese Academy of Sciences (CN)
National Natural Science Foundation of China, China Postdoctoral Science Foundation
Openalex Percentile: Top 72%
Anaerobic Digestion and Biogas Production
DOIOpen Access PDFOpenAlex
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