Cargando…

A droplet-based microfluidic approach to isolating functional bacteria from gut microbiota

Metabolic interactions within gut microbiota play a vital role in human health and disease. Targeting metabolically interacting bacteria could provide effective treatments; however, obtaining functional bacteria remains a significant challenge due to the complexity of gut microbiota. Here, we develo...

Descripción completa

Detalles Bibliográficos
Autores principales: Yin, Jianan, Chen, Xiuzhao, Li, Xiaobo, Kang, Guangbo, Wang, Ping, Song, Yanqing, Ijaz, Umer Zeeshan, Yin, Huabing, Huang, He
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9433703/
https://www.ncbi.nlm.nih.gov/pubmed/36061857
http://dx.doi.org/10.3389/fcimb.2022.920986
_version_ 1784780682152640512
author Yin, Jianan
Chen, Xiuzhao
Li, Xiaobo
Kang, Guangbo
Wang, Ping
Song, Yanqing
Ijaz, Umer Zeeshan
Yin, Huabing
Huang, He
author_facet Yin, Jianan
Chen, Xiuzhao
Li, Xiaobo
Kang, Guangbo
Wang, Ping
Song, Yanqing
Ijaz, Umer Zeeshan
Yin, Huabing
Huang, He
author_sort Yin, Jianan
collection PubMed
description Metabolic interactions within gut microbiota play a vital role in human health and disease. Targeting metabolically interacting bacteria could provide effective treatments; however, obtaining functional bacteria remains a significant challenge due to the complexity of gut microbiota. Here, we developed a facile droplet-based approach to isolate and enrich functional gut bacteria that could utilize metabolites from an engineered butyrate-producing bacteria (EBPB) of anti-obesity potential. This involves the high throughput formation of single-bacteria droplets, followed by culturing “droplets” on agar plates to form discrete single-cell colonies. This approach eliminates the need for sophisticated s instruments to sort droplets and thus allows the operation hosted in a traditional anaerobic chamber. In comparison to the traditional culture, the droplet-based approach obtained a community of substantially higher diversity and evenness. Using the conditioned plates containing metabolites from the EBPB supernatant, we obtained gut bacteria closely associated or interacting with the EBPB. These include anaerobic Lactobacillus and Bifidobacterium, which are often used as probiotics. The study illustrates the potential of our approach in the search for the associated bacteria within the gut microbiota and retrieving those yet-to-be cultured.
format Online
Article
Text
id pubmed-9433703
institution National Center for Biotechnology Information
language English
publishDate 2022
publisher Frontiers Media S.A.
record_format MEDLINE/PubMed
spelling pubmed-94337032022-09-02 A droplet-based microfluidic approach to isolating functional bacteria from gut microbiota Yin, Jianan Chen, Xiuzhao Li, Xiaobo Kang, Guangbo Wang, Ping Song, Yanqing Ijaz, Umer Zeeshan Yin, Huabing Huang, He Front Cell Infect Microbiol Cellular and Infection Microbiology Metabolic interactions within gut microbiota play a vital role in human health and disease. Targeting metabolically interacting bacteria could provide effective treatments; however, obtaining functional bacteria remains a significant challenge due to the complexity of gut microbiota. Here, we developed a facile droplet-based approach to isolate and enrich functional gut bacteria that could utilize metabolites from an engineered butyrate-producing bacteria (EBPB) of anti-obesity potential. This involves the high throughput formation of single-bacteria droplets, followed by culturing “droplets” on agar plates to form discrete single-cell colonies. This approach eliminates the need for sophisticated s instruments to sort droplets and thus allows the operation hosted in a traditional anaerobic chamber. In comparison to the traditional culture, the droplet-based approach obtained a community of substantially higher diversity and evenness. Using the conditioned plates containing metabolites from the EBPB supernatant, we obtained gut bacteria closely associated or interacting with the EBPB. These include anaerobic Lactobacillus and Bifidobacterium, which are often used as probiotics. The study illustrates the potential of our approach in the search for the associated bacteria within the gut microbiota and retrieving those yet-to-be cultured. Frontiers Media S.A. 2022-08-18 /pmc/articles/PMC9433703/ /pubmed/36061857 http://dx.doi.org/10.3389/fcimb.2022.920986 Text en Copyright © 2022 Yin, Chen, Li, Kang, Wang, Song, Ijaz, Yin and Huang https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Cellular and Infection Microbiology
Yin, Jianan
Chen, Xiuzhao
Li, Xiaobo
Kang, Guangbo
Wang, Ping
Song, Yanqing
Ijaz, Umer Zeeshan
Yin, Huabing
Huang, He
A droplet-based microfluidic approach to isolating functional bacteria from gut microbiota
title A droplet-based microfluidic approach to isolating functional bacteria from gut microbiota
title_full A droplet-based microfluidic approach to isolating functional bacteria from gut microbiota
title_fullStr A droplet-based microfluidic approach to isolating functional bacteria from gut microbiota
title_full_unstemmed A droplet-based microfluidic approach to isolating functional bacteria from gut microbiota
title_short A droplet-based microfluidic approach to isolating functional bacteria from gut microbiota
title_sort droplet-based microfluidic approach to isolating functional bacteria from gut microbiota
topic Cellular and Infection Microbiology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9433703/
https://www.ncbi.nlm.nih.gov/pubmed/36061857
http://dx.doi.org/10.3389/fcimb.2022.920986
work_keys_str_mv AT yinjianan adropletbasedmicrofluidicapproachtoisolatingfunctionalbacteriafromgutmicrobiota
AT chenxiuzhao adropletbasedmicrofluidicapproachtoisolatingfunctionalbacteriafromgutmicrobiota
AT lixiaobo adropletbasedmicrofluidicapproachtoisolatingfunctionalbacteriafromgutmicrobiota
AT kangguangbo adropletbasedmicrofluidicapproachtoisolatingfunctionalbacteriafromgutmicrobiota
AT wangping adropletbasedmicrofluidicapproachtoisolatingfunctionalbacteriafromgutmicrobiota
AT songyanqing adropletbasedmicrofluidicapproachtoisolatingfunctionalbacteriafromgutmicrobiota
AT ijazumerzeeshan adropletbasedmicrofluidicapproachtoisolatingfunctionalbacteriafromgutmicrobiota
AT yinhuabing adropletbasedmicrofluidicapproachtoisolatingfunctionalbacteriafromgutmicrobiota
AT huanghe adropletbasedmicrofluidicapproachtoisolatingfunctionalbacteriafromgutmicrobiota
AT yinjianan dropletbasedmicrofluidicapproachtoisolatingfunctionalbacteriafromgutmicrobiota
AT chenxiuzhao dropletbasedmicrofluidicapproachtoisolatingfunctionalbacteriafromgutmicrobiota
AT lixiaobo dropletbasedmicrofluidicapproachtoisolatingfunctionalbacteriafromgutmicrobiota
AT kangguangbo dropletbasedmicrofluidicapproachtoisolatingfunctionalbacteriafromgutmicrobiota
AT wangping dropletbasedmicrofluidicapproachtoisolatingfunctionalbacteriafromgutmicrobiota
AT songyanqing dropletbasedmicrofluidicapproachtoisolatingfunctionalbacteriafromgutmicrobiota
AT ijazumerzeeshan dropletbasedmicrofluidicapproachtoisolatingfunctionalbacteriafromgutmicrobiota
AT yinhuabing dropletbasedmicrofluidicapproachtoisolatingfunctionalbacteriafromgutmicrobiota
AT huanghe dropletbasedmicrofluidicapproachtoisolatingfunctionalbacteriafromgutmicrobiota