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...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2022-08-01
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| Series: | Frontiers in Cellular and Infection Microbiology |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fcimb.2022.920986/full |
| _version_ | 1811308769993293824 |
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| author | Jianan Yin Xiuzhao Chen Xiaobo Li Guangbo Kang Guangbo Kang Ping Wang Yanqing Song Umer Zeeshan Ijaz Huabing Yin He Huang |
| author_facet | Jianan Yin Xiuzhao Chen Xiaobo Li Guangbo Kang Guangbo Kang Ping Wang Yanqing Song Umer Zeeshan Ijaz Huabing Yin He Huang |
| author_sort | Jianan Yin |
| collection | DOAJ |
| 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. |
| first_indexed | 2024-04-13T09:29:20Z |
| format | Article |
| id | doaj.art-b056893040364f8faf470b2dad443469 |
| institution | Directory Open Access Journal |
| issn | 2235-2988 |
| language | English |
| last_indexed | 2024-04-13T09:29:20Z |
| publishDate | 2022-08-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Cellular and Infection Microbiology |
| spelling | doaj.art-b056893040364f8faf470b2dad4434692022-12-22T02:52:20ZengFrontiers Media S.A.Frontiers in Cellular and Infection Microbiology2235-29882022-08-011210.3389/fcimb.2022.920986920986A droplet-based microfluidic approach to isolating functional bacteria from gut microbiotaJianan Yin0Xiuzhao Chen1Xiaobo Li2Guangbo Kang3Guangbo Kang4Ping Wang5Yanqing Song6Umer Zeeshan Ijaz7Huabing Yin8He Huang9Key Laboratory of Systems Bioengineering (Ministry of Education), Frontiers Science Center for Synthetic Biology, School of Chemical Engineering and Technology, Tianjin University, Tianjin, ChinaKey Laboratory of Systems Bioengineering (Ministry of Education), Frontiers Science Center for Synthetic Biology, School of Chemical Engineering and Technology, Tianjin University, Tianjin, ChinaNew Technology R & D Department, Tianjin Modern Innovative TCM Technology Co. Ltd., Tianjin, ChinaKey Laboratory of Systems Bioengineering (Ministry of Education), Frontiers Science Center for Synthetic Biology, School of Chemical Engineering and Technology, Tianjin University, Tianjin, ChinaInstitute of Shaoxing, Tianjin University, Zhejiang, ChinaNew Technology R & D Department, Tianjin Modern Innovative TCM Technology Co. Ltd., Tianjin, ChinaJames Watt School of Engineering, University of Glasgow, Glasgow, United KingdomJames Watt School of Engineering, University of Glasgow, Glasgow, United KingdomJames Watt School of Engineering, University of Glasgow, Glasgow, United KingdomKey Laboratory of Systems Bioengineering (Ministry of Education), Frontiers Science Center for Synthetic Biology, School of Chemical Engineering and Technology, Tianjin University, Tianjin, ChinaMetabolic 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.https://www.frontiersin.org/articles/10.3389/fcimb.2022.920986/fullgut microbiotamicrofluidicsdropletanaerobic cultureprobiotics |
| spellingShingle | Jianan Yin Xiuzhao Chen Xiaobo Li Guangbo Kang Guangbo Kang Ping Wang Yanqing Song Umer Zeeshan Ijaz Huabing Yin He Huang A droplet-based microfluidic approach to isolating functional bacteria from gut microbiota Frontiers in Cellular and Infection Microbiology gut microbiota microfluidics droplet anaerobic culture probiotics |
| 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 | gut microbiota microfluidics droplet anaerobic culture probiotics |
| url | https://www.frontiersin.org/articles/10.3389/fcimb.2022.920986/full |
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