Antibiotic resistome in a large-scale healthy human gut microbiota deciphered by metagenomic and network analyses

2017 ◽  
Vol 20 (1) ◽  
pp. 355-368 ◽  
Author(s):  
Jie Feng ◽  
Bing Li ◽  
Xiaotao Jiang ◽  
Ying Yang ◽  
George F. Wells ◽  
...  
Keyword(s):  
Gut Microbiota ◽  
Large Scale ◽  
Human Gut ◽  
Healthy Human ◽  
Network Analyses ◽  
Human Gut Microbiota

scholarly journals Functional heterogeneity in the fermentation capabilities of the healthy human gut microbiota

2020 ◽  
Author(s):  
Thomas Gurry ◽  
Le Thanh Tu Nguyen ◽  
Xiaoqian Yu ◽  
Eric J Alm
Keyword(s):  
Gut Microbiota ◽  
Therapeutic Strategy ◽  
Ex Vivo ◽  
Short Chain Fatty Acids ◽  
Human Gut ◽  
Healthy Human ◽  
Human Gut Microbiota ◽  
Functional Differences ◽  
Rrna Sequencing

AbstractThe human gut microbiota is known for its highly heterogeneous composition across different individuals. However, relatively little is known about functional differences in its ability to ferment complex polysaccharides. Through ex vivo measurements from healthy human donors, we show that individuals vary markedly in their microbial metabolic phenotypes (MMPs), mirroring differences in their microbiota composition, and resulting in the production of different quantities and proportions of Short Chain Fatty Acids (SCFAs) from the same inputs. We also show that aspects of these MMPs can be predicted from composition using 16S rRNA sequencing. From experiments performed using the same dietary fibers in vivo, we demonstrate that an ingested bolus of fiber is almost entirely consumed by the microbiota upon passage. We leverage our ex vivo data to construct a model of SCFA production and absorption in vivo, and argue that inter-individual differences in quantities of absorbed SCFA are directly related to differences in production. Taken together, these data suggest that personalized dietary fiber supplementation based on an individual’s MMP is an attractive therapeutic strategy for treating diseases associated with SCFA production.

scholarly journals Exploring the universal healthy human gut microbiota around the World

2021 ◽  
Author(s):  
Samuel Piquer-Esteban ◽  
Susana Ruiz-Ruiz ◽  
Vicente Arnau ◽  
Wladimiro Diaz ◽  
Andrés Moya
Keyword(s):  
Gut Microbiota ◽  
Human Gut ◽  
Healthy Human ◽  
Human Gut Microbiota ◽  
The World

scholarly journals Bacterial Atlas of Mouse Gut Microbiota

2021 ◽  
Author(s):  
Mengqi Chu ◽  
Xiaobo Zhang
Keyword(s):  
Complex System ◽  
Gut Microbiota ◽  
Bacterial Communities ◽  
Large Scale ◽  
Gut Bacteria ◽  
Human Gut ◽  
The Core ◽  
Human Gut Microbiota ◽  
Human Immunity ◽  
Mouse Gut Microbiota

Abstract Background: Mouse model is one of of the most widely used animal models for exploring the roles of human gut microbiota, a complex system involving in human immunity and metabolism. However, the structure of mouse gut bacterial community has not been explored at a large scale. To address this concern, the diversity and composition of the gut bacteria of 600 mice was characterized in this study. Results: The results showed that the bacteria belonging to 8 genera were found in the gut microbiota of all mouse individuals, indicating that the 8 bacteria were the core bacteria of mouse gut microbiota. The dominant genera of the mouse gut bacteria contained 15 bacterial genera. It was found that the bacteria in the gut microbiota were mainly involved in host’s metabolisms via the collaborations between the gut bacteria. The further analysis demonstrated that the composition of mouse gut microbiota was similar to that of human gut microbiota. Conclusion: Our study presented a bacterial atlas of mouse gut microbiota, providing a solid basis for investing the bacterial communities of mouse gut microbiota.

scholarly journals The microbial eukaryoteBlastocystisis a prevalent and diverse member of the healthy human gut microbiota

2014 ◽  
Vol 90 (1) ◽  
pp. 326-330 ◽  
Author(s):  
Pauline D. Scanlan ◽  
Christen R. Stensvold ◽  
Mirjana Rajilić-Stojanović ◽  
Hans G.H.J. Heilig ◽  
Willem M. De Vos ◽  
...  
Keyword(s):  
Gut Microbiota ◽  
Human Gut ◽  
Healthy Human ◽  
Human Gut Microbiota

scholarly journals Publisher Correction: Large-scale metabolic interaction network of the mouse and human gut microbiota

2020 ◽  
Vol 7 (1) ◽  
Author(s):  
Roktaek Lim ◽  
Josephine Jill T. Cabatbat ◽  
Thomas L. P. Martin ◽  
Haneul Kim ◽  
Seunghyeon Kim ◽  
...  
Keyword(s):  
Gut Microbiota ◽  
Large Scale ◽  
Interaction Network ◽  
Human Gut ◽  
Metabolic Interaction ◽  
Human Gut Microbiota

The impact of Crohn's disease genes on healthy human gut microbiota: a pilot study

Gut ◽  
2013 ◽  
Vol 62 (6) ◽  
pp. 952.1-954 ◽  
Author(s):  
Christopher Quince ◽  
Elin E Lundin ◽  
Anna N Andreasson ◽  
Dario Greco ◽  
Joseph Rafter ◽  
...  
Keyword(s):  
Crohn’S Disease ◽  
Pilot Study ◽  
Crohn's Disease ◽  
Gut Microbiota ◽  
Disease Genes ◽  
Human Gut ◽  
Healthy Human ◽  
Human Gut Microbiota ◽  
The Impact

scholarly journals Functional heterogeneity in the fermentation capabilities of the healthy human gut microbiota

PLoS ONE ◽  
2021 ◽  
Vol 16 (7) ◽  
pp. e0254004
Author(s):  
Thomas Gurry ◽  
Le Thanh Tu Nguyen ◽  
Xiaoqian Yu ◽  
Eric J. Alm
Keyword(s):  
Gut Microbiota ◽  
Ex Vivo ◽  
Short Chain Fatty Acids ◽  
Human Gut ◽  
Healthy Human ◽  
Human Gut Microbiota ◽  
Functional Differences ◽  
Rrna Sequencing ◽  
Quantitative Understanding

The human gut microbiota is known for its highly heterogeneous composition across different individuals. However, relatively little is known about functional differences in its ability to ferment complex polysaccharides. Through ex vivo measurements from healthy human donors, we show that individuals vary markedly in their microbial metabolic phenotypes (MMPs), mirroring differences in their microbiota composition, and resulting in the production of different quantities and proportions of Short Chain Fatty Acids (SCFAs) from the same inputs. We also show that aspects of these MMPs can be predicted from composition using 16S rRNA sequencing. From experiments performed using the same dietary fibers in vivo, we demonstrate that an ingested bolus of fiber is almost entirely consumed by the microbiota upon passage. We leverage our ex vivo data to construct a model of SCFA production and absorption in vivo, and argue that inter-individual differences in quantities of absorbed SCFA are directly related to differences in production. Though in vivo studies are required to confirm these data in the context of the gut, in addition to in vivo read outs of SCFAs produced in response to specific fiber spike-ins, these data suggest that optimizing SCFA production in a given individual through targeted fiber supplementation requires quantitative understanding of their MMP.

scholarly journals Developmental trajectory of the healthy human gut microbiota during the first 5 years of life

2021 ◽  
Author(s):  
Josefine Roswall ◽  
Lisa M. Olsson ◽  
Petia Kovatcheva-Datchary ◽  
Staffan Nilsson ◽  
Valentina Tremaroli ◽  
...  
Keyword(s):  
Gut Microbiota ◽  
Developmental Trajectory ◽  
Human Gut ◽  
Healthy Human ◽  
Human Gut Microbiota

scholarly journals A Putative Type V Pilus Contributes toBacteroides thetaiotaomicronBiofilm Formation Capacity

2019 ◽  
Vol 201 (18) ◽  
Author(s):  
Jovana Mihajlovic ◽  
Nathalie Bechon ◽  
Christa Ivanova ◽  
Florian Chain ◽  
Alexandre Almeida ◽  
...  
Keyword(s):  
Gut Microbiota ◽  
Selection Procedure ◽  
Bacteroides Thetaiotaomicron ◽  
Human Gut ◽  
Healthy Human ◽  
Content Type ◽  
Human Gut Microbiota ◽  
Type V

ABSTRACTBacteroides thetaiotaomicronis a prominent anaerobic member of the healthy human gut microbiota. While the majority of functional studies onB. thetaiotaomicronaddressed its impact on the immune system and the utilization of diet polysaccharides,B. thetaiotaomicronbiofilm capacity and its contribution to intestinal colonization are still poorly characterized. We tested the natural adhesion of 34B. thetaiotaomicronisolates and showed that although biofilm capacity is widespread amongB. thetaiotaomicronstrains, this phenotype is masked or repressed in the widely used reference strain VPI 5482. Using transposon mutagenesis followed by a biofilm positive-selection procedure, we identified VPI 5482 mutants with increased biofilm capacity corresponding to an alteration in the C-terminal region of BT3147, encoded by theBT3148-BT3147locus, which displays homology with Mfa-like type V pili found in manyBacteroidetes. We show that BT3147 is exposed on theB. thetaiotaomicronsurface and that BT3147-dependent adhesion also requires BT3148, suggesting that BT3148 and BT3147 correspond to the anchor and stalk subunits of a new type V pilus involved inB. thetaiotaomicronadhesion. This study therefore introducesB. thetaiotaomicronas a model to study proteinaceous adhesins and biofilm-related phenotypes in this important intestinal symbiont.IMPORTANCEAlthough the gut anaerobeBacteroides thetaiotaomicronis a prominent member of the healthy human gut microbiota, little is known about its capacity to adhere to surfaces and form biofilms. Here, we identify that alteration of a surface-exposed protein corresponding to a type of pili found in manyBacteroidetesincreasesB. thetaiotaomicronbiofilm formation. This study lays the ground for establishing this bacterium as a model organism forin vitroandin vivostudies of biofilm-related phenotypes in gut anaerobes.

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