A compendium of predicted growths and derived symbiotic relationships between 803 gut microbes in 13 different diets

Singh, Rohan P.; Dutta, Anirban; Bose, T. K.; Mande, Sharmila S.

doi:10.1016/j.crmicr.2022.100127

Cited by 4 publications

(4 citation statements)

References 46 publications

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“…In silico simulations, coupled with in vitro and in vivo data can contribute to mechanistically describe physiological and metabolic process, such as prediction of the glycemic index of biscuits using chicken duodenum (Priyadarshini et al 2021 ), characterization of the precipitation kinetics of drugs, and the prediction of their concentration in small intestine after human oral administration (Hens et al 2014 , Kambayashi et al 2016 ). Additionally, metabolic models can be used to predict growth patterns of gut microbiota when exposed to different nutrients (Singh et al 2022 ). Genome-scale metabolic reconstructions coupled with metabolomic data and dietary composition, allow to study interspecies interactions (Magnúsdóttir et al 2015 , Singh et al 2022 ).…”

Section: Future Perspectivesmentioning

confidence: 99%

“…Additionally, metabolic models can be used to predict growth patterns of gut microbiota when exposed to different nutrients (Singh et al 2022 ). Genome-scale metabolic reconstructions coupled with metabolomic data and dietary composition, allow to study interspecies interactions (Magnúsdóttir et al 2015 , Singh et al 2022 ). Furthermore, protein–protein interaction bioinformatic workflows, based on intestinal microbiota composition, are available, combining metataxonomic analysis with domain-mediated protein–protein interaction approaches (Orsini et al 2020 ).…”

Section: Future Perspectivesmentioning

confidence: 99%

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The small intestine: dining table of host–microbiota meetings

Delbaere

Roegiers

Bron

et al. 2023

FEMS Microbiology Reviews

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Growing evidence suggests the importance of the small intestinal bacteria in the diet-host-microbiota dialogue in various facets of health and disease. Yet, this body site is still poorly explored and its ecology and mechanisms of interaction with the host are just starting to be unraveled. In this review, we describe the current knowledge on the small intestinal ecology, its composition and diversity, and how the intestinal bacteria in homeostatic conditions participate in nutrient digestion and absorption. We illustrate the importance of a controlled bacterial density and of the preservation of absorptive surface for the host's nutritional status. In particular, we discuss these aspects of the small intestinal environment in the framework of two disease conditions, namely small intestinal bacterial overgrowth (SIBO) and short bowel syndrome (SBS). We also detail in vivo, ex vivo and in vitro models developed to simulate the small intestinal environment, some applied for (diet-)host-bacteria interaction studies. Lastly, we highlight recent technological, medical and scientific advances applicable to investigate this complex and yet understudied body environment to broaden our knowledge in support of further progress in the medical practice, and to proceed towards the integration of the (small)intestinal bacteria in personalized therapeutic approaches.

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Section: Future Perspectivesmentioning

confidence: 99%

Section: Future Perspectivesmentioning

confidence: 99%

The small intestine: dining table of host–microbiota meetings

Delbaere

Roegiers

Bron

et al. 2023

FEMS Microbiology Reviews

View full text Add to dashboard Cite

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“…Likewise, consuming a diet that is high in prebiotic fibers can promote the growth of bacterial groups that are capable of producing butyrate through the fermentation of non-digestible polysaccharides [40]. The Mediterranean diet, for example, which is high in fiber, promotes a mutualistic relationship between Bifidobacterium adolescentis and Eubacterium hallii; the latter is well known for its butyrate production [9].…”

Section: Discussionmentioning

confidence: 99%

“…The Mediterranean microbiota protects against CVD and tumor pathologies due to its production of more SCFAs by fiber-degrading bacteria [8]. Moreover, plant protein and high-fiber regimens, such as the MD, stimulate the growth of probiotic species like Bifidobacteria, which are commonly inhibited under a Western-style diet [9].…”

mentioning

confidence: 99%

Intestinal Dysbiosis in Subjects with Obesity from Western Mexico and Its Association with a Proinflammatory Profile and Disturbances of Folate (B9) and Carbohydrate Metabolism

Riggen-Bueno,

Del Toro-Arreola,

Baltazar-Díaz

et al. 2024

Metabolites

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Obesity is a public health problem with a growing prevalence worldwide. In Mexico, it is estimated that one out of three adults suffer from obesity. In these patients, the intestinal microbiota (IM) undergoes pathological changes that are associated with a dysbiotic state; however, the microbiota profile of adult subjects with obesity from western Mexico has not been described. To assess this, fecal samples were obtained from 65 participants (Obese = 38; Control = 27). The microbial composition was characterized by 16S rRNA amplicon sequencing. The IM of the group with obesity revealed a clear decrease in richness and diversity (p < 0.001), as well as a significant increase in proinflammatory bacterial groups, mainly genera belonging to the Negativicutes class, Escherichia/Shigella, and Prevotella. Likewise, an increase in short-chain fatty acid-producing bacteria was found, especially the genus Lachnoclostridium. Additionally, PICRUSt2 analysis showed a depletion of vitamin B9 metabolism and an increase in saccharolytic pathways. The IM of patients with obesity possesses a dysbiotic, proinflammatory environment, possibly contributing to lipogenesis and adiposity. Thus, assessing the IM will allow for a better understanding of the pathophysiology of metabolic diseases of high prevalence, such as obesity. These findings are described for the first time in the adult population of western Mexico.

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