Application of nanopore sequencing in environmental microbiology research.

Zhonghong LI; Caili DU; Yanfeng Lin; Lieyu Zhang; Xiaoguang LI; Jiaxi LI; Suhua Chen

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Application of nanopore sequencing in environmental microbiology research.

Author: Zhonghong LI ¹ ; Caili DU ¹ ; Yanfeng LIN ² ; Lieyu ZHANG ¹ ; Xiaoguang LI ¹ ; Jiaxi LI ¹ ; Suhua CHEN ³
Author Information

1. State Environmental Protection Key Laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing 100012, China.
2. Department of Biological Safety, Center for Disease Control and Prevention of People's Liberation Army of China, Beijing 100071, China.
3. School of Environmental and Chemical Engineering, Nanchang Hangkong University, Nanchang 330063, Jiangxi, China.
Publication Type:Review
Keywords: amplicon sequencing; environmental microbiology; metagenome; nanopore sequencing technique; whole genome sequencing
MeSH: Environmental Microbiology; High-Throughput Nucleotide Sequencing; Metagenome; Nanopore Sequencing; Nanopores
From: Chinese Journal of Biotechnology 2022;38(1):5-13
CountryChina
Language:Chinese
Abstract: The development of high-throughput sequencing techniques enabled a deeper and more comprehensive understanding of environmental microbiology. Specifically, the third-generation sequencing techniques represented by nanopore sequencing have greatly promoted the development of environmental microbiology research due to its advantages such as long sequencing reads, fast sequencing speed, real-time monitoring of sequencing data, and convenient machine carrying, as well as no GC bias and no PCR amplification requirement. This review briefly summarized the technical principle and characteristics of nanopore sequencing, followed by discussing the application of nanopore sequencing techniques in the amplicon sequencing, metagenome sequencing and whole genome sequencing of environmental microorganisms. The advantages and challenges of nanopore sequencing in the application of environmental microbiology research were also analyzed.