Strain-level functional variation in the human gut microbiota based on bacterial binding to artificial food particles

Patnode, Michael L.; Guruge, Janaki L.; Castillo, Juan José; Couture, Garret; Lombard, Vincent; Terrapon, Nicolas; Henrissat, Bernard; Lebrilla, Carlito B.; Gordon, Jeffrey I.

doi:10.1016/j.chom.2021.01.007

Cited by 34 publications

(33 citation statements)

References 43 publications

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“…Thus, despite the lower hydrophobicity of ZJU_AH817 which might make it difficult to adhere to the gut, higher tolerance of the acid and bile salt could contribute to the existence of ZJU_AH817 in wild pigs for further properties. What is more, differential tolerance of acid, bile salt, and Zn 2+ between strains (ZJU_AH813, ZJU_AH814, ZJU_AH815, ZJU_AH816, ZJU_AH817, ZJU_AH818) even from the same species L. mucosae was observed, suggesting that the variation of bacteria at the strain level also demonstrated differential function in adhesion ( 33 ), immunity ( 34 ), and diseases ( 35 ). The lower auto-aggregation of mixed LAB strains than other strains also suggested the variation between different strains ( 36 ).…”

Section: Discussionmentioning

confidence: 99%

Lactic Acid Bacteria Mixture Isolated From Wild Pig Alleviated the Gut Inflammation of Mice Challenged by Escherichia coli

Zhong

Deng

et al. 2022

Front. Immunol.

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Wild pigs usually showed high tolerance and resistance to several diseases in the wild environment, suggesting that the gut bacteria of wild pigs could be a good source for discovering potential probiotic strains. In our study, wild pig feces were sequenced and showed a higher relative abundance of the genus Lactobacillus (43.61% vs. 2.01%) than that in the domestic pig. A total of 11 lactic acid bacteria (LAB) strains including two L. rhamnosus, six L. mucosae, one L. fermentum, one L. delbrueckii, and one Enterococcus faecalis species were isolated. To investigate the synergistic effects of mixed probiotics strains, the mixture of 11 LAB strains from an intestinal ecology system was orally administrated in mice for 3 weeks, then the mice were challenged with Escherichia coli ATCC 25922 (2 × 109 CFU) and euthanized after challenge. Mice administrated with LAB strains showed higher (p < 0.05) LAB counts in feces and ileum. Moreover, alterations of specific bacterial genera occurred, including the higher (p < 0.05) relative abundance of Butyricicoccus and Clostridium IV and the lower (p < 0.05) abundance of Enterorhabdus in mice fed with mixed LAB strains. Mice challenged with Escherichia coli showed vacuolization of the liver, lower GSH in serum, and lower villus to the crypt proportion and Claudin-3 level in the gut. In contrast, administration of mixed LAB strains attenuated inflammation of the liver and gut, especially the lowered IL-6 and IL-1β levels (p < 0.05) in the gut. Our study highlighted the importance of gut bacterial diversity and the immunomodulation effects of LAB strains mixture from wild pig in gut health.

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Section: Discussionmentioning

confidence: 99%

Lactic Acid Bacteria Mixture Isolated From Wild Pig Alleviated the Gut Inflammation of Mice Challenged by Escherichia coli

Zhong

Deng

et al. 2022

Front. Immunol.

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“…Diversification of the microbiota manifests multiple new features within the microbial community, including adaptations to nutrients and synthesis of different metabolites (Blaut and Clavel, 2007). Such changes may not apply to individual microbial species but rather reflect a feature of complex community interactions (Patnode et al ., 2021). This raises the possibility for a conserved ubiquitously produced metabolite across all living microbes that indicates microbial vitality, but at the same time, serves as a molecular motif for immune recognition and activation that can indirectly impact MP homeostasis.…”

Section: Resultsmentioning

confidence: 99%

Microbial Energy Metabolism Fuels a CSF2-dependent Intestinal Macrophage Niche within Tertiary Lymphoid Organs

Chiaranunt

Burrows

Ngai

et al. 2022

Preprint

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Maintaining intestinal macrophage (MP) heterogeneity is critical to ensure tissue homeostasis and host defense. The gut microbiota and host factors are thought to synergistically shape colonic MP development, although there remains a fundamental gap in our understanding of the details of such collaboration. Here, we report tertiary lymphoid organs (TLOs), enriched in group 3 innate lymphoid cells (ILC3s), as a microbiota-operated intestinal niche for the development of monocyte-derived MPs. ILC3-derived colony stimulating factor 2 (CSF2) serves as a developmental and functional determinant for MPs and required microbe-derived extracellular adenosine triphosphate (ATP) as a trigger. Microbial communities rich in extracellular ATP promoted MP turnover via ILC3 activity in an NLRP3-dependent fashion. Single cell RNA-sequencing of MPs revealed unique TLO-associated, CSF2-dependent MP populations critical for anti-microbial defense against enteric infection. Collectively, these findings describe a fundamental framework that constitutes an intestinal MP niche fueled by microbial energy metabolism.

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“…Strategies for carbohydrate metabolisation should be understood both at the level of individual microorganisms and at the level of the intermingled microbial community [ 67 , 87 ]. Carbohydrate metabolisation varies according to the nutrient acquisition strategies, leading to different interdependent catalytic mechanisms that preferentially support the growth of certain microbes.…”

Section: The Gut Microbiota: An Ecosystem Designed For Carbohydrate B...mentioning

confidence: 99%

Prebiotics and the Human Gut Microbiota: From Breakdown Mechanisms to the Impact on Metabolic Health

et al. 2022

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The colon harbours a dynamic and complex community of microorganisms, collectively known as the gut microbiota, which constitutes the densest microbial ecosystem in the human body. These commensal gut microbes play a key role in human health and diseases, revealing the strong potential of fine-tuning the gut microbiota to confer health benefits. In this context, dietary strategies targeting gut microbes to modulate the composition and metabolic function of microbial communities are of increasing interest. One such dietary strategy is the use of prebiotics, which are defined as substrates that are selectively utilised by host microorganisms to confer a health benefit. A better understanding of the metabolic pathways involved in the breakdown of prebiotics is essential to improve these nutritional strategies. In this review, we will present the concept of prebiotics, and focus on the main sources and nature of these components, which are mainly non-digestible polysaccharides. We will review the breakdown mechanisms of complex carbohydrates by the intestinal microbiota and present short-chain fatty acids (SCFAs) as key molecules mediating the dialogue between the intestinal microbiota and the host. Finally, we will review human studies exploring the potential of prebiotics in metabolic diseases, revealing the personalised responses to prebiotic ingestion. In conclusion, we hope that this review will be of interest to identify mechanistic factors for the optimization of prebiotic-based strategies.

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Strain-level functional variation in the human gut microbiota based on bacterial binding to artificial food particles

Cited by 34 publications

References 43 publications

Lactic Acid Bacteria Mixture Isolated From Wild Pig Alleviated the Gut Inflammation of Mice Challenged by Escherichia coli

Lactic Acid Bacteria Mixture Isolated From Wild Pig Alleviated the Gut Inflammation of Mice Challenged by Escherichia coli

Microbial Energy Metabolism Fuels a CSF2-dependent Intestinal Macrophage Niche within Tertiary Lymphoid Organs

Prebiotics and the Human Gut Microbiota: From Breakdown Mechanisms to the Impact on Metabolic Health

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