Cited by 125Gut microbiota and healthProbiotics and Fermented FoodsMicrobial Metabolic Engineering and Bioproduction

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Anoxic Conditions Promote Species-Specific Mutualism between Gut Microbes In Silico

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Heinken, Almut, Thiele, Ines·2015·Applied and Environmental Microbiology

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Abstract

The human gut is inhabited by thousands of microbial species, most of which are still uncharacterized. Gut microbes have adapted to each other's presence as well as to the host and engage in complex cross feeding. Constraint-based modeling has been successfully applied to predicting microbe-microbe interactions, such as commensalism, mutualism, and competition. Here, we apply a constraint-based approach to model pairwise interactions between 11 representative gut microbes. Microbe-microbe interactions were computationally modeled in conjunction with human small intestinal enterocytes, and the microbe pairs were subjected to three diets with various levels of carbohydrate, fat, and protein in normoxic or anoxic environments. Each microbe engaged in species-specific commensal, parasitic, mutualistic, or competitive interactions. For instance, Streptococcus thermophilus efficiently outcompeted microbes with which it was paired, in agreement with the domination of streptococci in the small intestinal microbiota. Under anoxic conditions, the probiotic organism Lactobacillus plantarum displayed mutualistic behavior toward six other species, which, surprisingly, were almost entirely abolished under normoxic conditions. This finding suggests that the anoxic conditions in the large intestine drive mutualistic cross feeding, leading to the evolvement of an ecosystem more complex than that of the small intestinal microbiota. Moreover, we predict that the presence of the small intestinal enterocyte induces competition over host-derived nutrients. The presented framework can readily be expanded to a larger gut microbial community. This modeling approach will be of great value for subsequent studies aiming to predict conditions favoring desirable microbes or suppressing pathogens.

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“Microbes can also exhibit cooperative and mutualistic behaviours within the gut, such as the cross-feeding enzyme system between Bacteroides vulgatus and B. ovatus (Coyte & Rakoff-Nahoum, 2019) or between Lactobacillus plantarum and various gut microbes (Heinken & Thiele, 2015).”
Resources and tools for the high-throughput, multi-omic study of intestinal microbiota
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“namely, different dietary regimes as well as anoxic and oxic conditions, in the human gut ecosystem [321].”
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In Silico Prediction of Novel Probiotic Species Limiting Pathogenic Vibrio Growth Using Constraint-Based Genome Scale Metabolic Modeling
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“A healthy intestine provides an environment that favors the growth of anaerobes.(31,32) However, significant differences characterize bacterial diversity among individuals.”
Background
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BackgroundMethod
In silico prediction of potential indigenous microbial biomarkers in Penaeus vannamei identified through meta-analysis and genome-scale metabolic modelling
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Authors: Heinken, A., & Thiele, I.
Affiliations: University of Luxembourg (LU)
ORCID: Heinken, Almut
Thiele, Ines
Venue: Applied and Environmental Microbiology
Publisher: American Society for Microbiology
Published: 2015-06-15
Volume: 81
Issue: 12
Pages: 4049-4061
ISSN: 0099-2240 (ISSN-L)
1098-5336
DOI: 10.1128/aem.00101-15
PMC: PMC4524141
OpenAlex: W1976253726
Cited by: 123
References: 61
Citations by year: 2026: 3 · 2025: 7 · 2024: 14 · 2023: 8 · 2022: 18 · 2021: 12 · 2020: 10 · 2019: 18 · 2018: 6 · 2017: 12 · 2016: 12 · 2015: 3
FWCI: 4.78
Type: journal article
Language: en
Open access: bronze
doi.org
Licence: journals.asm.org/non-commercial-tdm-license (tdm)
Locations: Applied and Environmental Microbiology (publishedVersion)
Europe PMC (PubMed Central) (publishedVersion)
PubMed Central (publishedVersion)
PubMed (publishedVersion)
Open Repository and Bibliography (University of Luxembourg) (submittedVersion)
Topics: Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gut microbiota and health
Life Sciences › Agricultural and Biological Sciences › Food Science › Probiotics and Fermented Foods
Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Microbial Metabolic Engineering and Bioproduction
Keywords: gut microbiota, microbial mutualism, anoxia, cross-feeding, constraint-based modeling, Lactobacillus plantarum, Streptococcus thermophilus, enterocytes, diet composition, small intestinal microbiota, large intestine, commensalism, competition (biology), probiotics
MeSH terms: Anaerobiosis, Computer Simulation, Diet, Humans, Oxygen, Species Specificity, Symbiosis, Enterocytes, Gastrointestinal Tract, Streptococcus thermophilus, Microbial Interactions, Microbiota

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Anoxic Conditions Promote Species-Specific Mutualism between Gut Microbes In Silico

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