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Metagenomics: a path to understanding the gut microbiome

The gut microbiome is a major determinant of host health, yet it is only in the last 2 decades that the advent of next-generation sequencing has enabled it to be studied at a genomic level. Shotgun sequencing is beginning to provide insight into the prokaryotic as well as eukaryotic and viral compon...

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Detalles Bibliográficos
Autores principales: Yen, Sandi, Johnson, Jethro S.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Springer US 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8295064/
https://www.ncbi.nlm.nih.gov/pubmed/34259891
http://dx.doi.org/10.1007/s00335-021-09889-x
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author Yen, Sandi
Johnson, Jethro S.
author_facet Yen, Sandi
Johnson, Jethro S.
author_sort Yen, Sandi
collection PubMed
description The gut microbiome is a major determinant of host health, yet it is only in the last 2 decades that the advent of next-generation sequencing has enabled it to be studied at a genomic level. Shotgun sequencing is beginning to provide insight into the prokaryotic as well as eukaryotic and viral components of the gut community, revealing not just their taxonomy, but also the functions encoded by their collective metagenome. This revolution in understanding is being driven by continued development of sequencing technologies and in consequence necessitates reciprocal development of computational approaches that can adapt to the evolving nature of sequence datasets. In this review, we provide an overview of current bioinformatic strategies for handling metagenomic sequence data and discuss their strengths and limitations. We then go on to discuss key technological developments that have the potential to once again revolutionise the way we are able to view and hence understand the microbiome.
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spelling pubmed-82950642021-07-23 Metagenomics: a path to understanding the gut microbiome Yen, Sandi Johnson, Jethro S. Mamm Genome Article The gut microbiome is a major determinant of host health, yet it is only in the last 2 decades that the advent of next-generation sequencing has enabled it to be studied at a genomic level. Shotgun sequencing is beginning to provide insight into the prokaryotic as well as eukaryotic and viral components of the gut community, revealing not just their taxonomy, but also the functions encoded by their collective metagenome. This revolution in understanding is being driven by continued development of sequencing technologies and in consequence necessitates reciprocal development of computational approaches that can adapt to the evolving nature of sequence datasets. In this review, we provide an overview of current bioinformatic strategies for handling metagenomic sequence data and discuss their strengths and limitations. We then go on to discuss key technological developments that have the potential to once again revolutionise the way we are able to view and hence understand the microbiome. Springer US 2021-07-14 2021 /pmc/articles/PMC8295064/ /pubmed/34259891 http://dx.doi.org/10.1007/s00335-021-09889-x Text en © The Author(s) 2021 https://creativecommons.org/licenses/by/4.0/Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Article
Yen, Sandi
Johnson, Jethro S.
Metagenomics: a path to understanding the gut microbiome
title Metagenomics: a path to understanding the gut microbiome
title_full Metagenomics: a path to understanding the gut microbiome
title_fullStr Metagenomics: a path to understanding the gut microbiome
title_full_unstemmed Metagenomics: a path to understanding the gut microbiome
title_short Metagenomics: a path to understanding the gut microbiome
title_sort metagenomics: a path to understanding the gut microbiome
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8295064/
https://www.ncbi.nlm.nih.gov/pubmed/34259891
http://dx.doi.org/10.1007/s00335-021-09889-x
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