High-Throughput Metagenomic Technologies for Complex Microbial Community Analysis: Open and Closed Formats

ABSTRACT Understanding the structure, functions, activities and dynamics of microbial communities in natural environments is one of the grand challenges of 21st century science. To address this challenge, over the past decade, numerous technologies have been developed for interrogating microbial c...

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Autores principales:	Jizhong Zhou, Zhili He, Yunfeng Yang, Ye Deng, Susannah G. Tringe, Lisa Alvarez-Cohen
Formato:	article
Lenguaje:	EN
Publicado:	American Society for Microbiology 2015
Materias:	Microbiology QR1-502
Acceso en línea:	https://doaj.org/article/246d3d2ba7f14caf945a493537cf8d25
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spelling	oai:doaj.org-article:246d3d2ba7f14caf945a493537cf8d252021-11-15T15:41:19ZHigh-Throughput Metagenomic Technologies for Complex Microbial Community Analysis: Open and Closed Formats10.1128/mBio.02288-142150-7511https://doaj.org/article/246d3d2ba7f14caf945a493537cf8d252015-02-01T00:00:00Zhttps://journals.asm.org/doi/10.1128/mBio.02288-14https://doaj.org/toc/2150-7511ABSTRACT Understanding the structure, functions, activities and dynamics of microbial communities in natural environments is one of the grand challenges of 21st century science. To address this challenge, over the past decade, numerous technologies have been developed for interrogating microbial communities, of which some are amenable to exploratory work (e.g., high-throughput sequencing and phenotypic screening) and others depend on reference genes or genomes (e.g., phylogenetic and functional gene arrays). Here, we provide a critical review and synthesis of the most commonly applied “open-format” and “closed-format” detection technologies. We discuss their characteristics, advantages, and disadvantages within the context of environmental applications and focus on analysis of complex microbial systems, such as those in soils, in which diversity is high and reference genomes are few. In addition, we discuss crucial issues and considerations associated with applying complementary high-throughput molecular technologies to address important ecological questions.Jizhong ZhouZhili HeYunfeng YangYe DengSusannah G. TringeLisa Alvarez-CohenAmerican Society for MicrobiologyarticleMicrobiologyQR1-502ENmBio, Vol 6, Iss 1 (2015)
institution	DOAJ
collection	DOAJ
language	EN
topic	Microbiology QR1-502
spellingShingle	Microbiology QR1-502 Jizhong Zhou Zhili He Yunfeng Yang Ye Deng Susannah G. Tringe Lisa Alvarez-Cohen High-Throughput Metagenomic Technologies for Complex Microbial Community Analysis: Open and Closed Formats
description	ABSTRACT Understanding the structure, functions, activities and dynamics of microbial communities in natural environments is one of the grand challenges of 21st century science. To address this challenge, over the past decade, numerous technologies have been developed for interrogating microbial communities, of which some are amenable to exploratory work (e.g., high-throughput sequencing and phenotypic screening) and others depend on reference genes or genomes (e.g., phylogenetic and functional gene arrays). Here, we provide a critical review and synthesis of the most commonly applied “open-format” and “closed-format” detection technologies. We discuss their characteristics, advantages, and disadvantages within the context of environmental applications and focus on analysis of complex microbial systems, such as those in soils, in which diversity is high and reference genomes are few. In addition, we discuss crucial issues and considerations associated with applying complementary high-throughput molecular technologies to address important ecological questions.
format	article
author	Jizhong Zhou Zhili He Yunfeng Yang Ye Deng Susannah G. Tringe Lisa Alvarez-Cohen
author_facet	Jizhong Zhou Zhili He Yunfeng Yang Ye Deng Susannah G. Tringe Lisa Alvarez-Cohen
author_sort	Jizhong Zhou
title	High-Throughput Metagenomic Technologies for Complex Microbial Community Analysis: Open and Closed Formats
title_short	High-Throughput Metagenomic Technologies for Complex Microbial Community Analysis: Open and Closed Formats
title_full	High-Throughput Metagenomic Technologies for Complex Microbial Community Analysis: Open and Closed Formats
title_fullStr	High-Throughput Metagenomic Technologies for Complex Microbial Community Analysis: Open and Closed Formats
title_full_unstemmed	High-Throughput Metagenomic Technologies for Complex Microbial Community Analysis: Open and Closed Formats
title_sort	high-throughput metagenomic technologies for complex microbial community analysis: open and closed formats
publisher	American Society for Microbiology
publishDate	2015
url	https://doaj.org/article/246d3d2ba7f14caf945a493537cf8d25
work_keys_str_mv	AT jizhongzhou highthroughputmetagenomictechnologiesforcomplexmicrobialcommunityanalysisopenandclosedformats AT zhilihe highthroughputmetagenomictechnologiesforcomplexmicrobialcommunityanalysisopenandclosedformats AT yunfengyang highthroughputmetagenomictechnologiesforcomplexmicrobialcommunityanalysisopenandclosedformats AT yedeng highthroughputmetagenomictechnologiesforcomplexmicrobialcommunityanalysisopenandclosedformats AT susannahgtringe highthroughputmetagenomictechnologiesforcomplexmicrobialcommunityanalysisopenandclosedformats AT lisaalvarezcohen highthroughputmetagenomictechnologiesforcomplexmicrobialcommunityanalysisopenandclosedformats
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High-Throughput Metagenomic Technologies for Complex Microbial Community Analysis: Open and Closed Formats

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