Effects of polysaccharopeptide from<i>Trametes Versicolor</i>and amoxicillin on the gut microbiome of healthy volunteers

Pallav, Kumar; Dowd, Scot E.; Villafuerte, Javier; Yang, Xiudong; Kabbani, Toufic; Hansen, Joshua; Dennis, Melinda; Leffler, Daniel A.; Newburg, David S.; Kelly, CiarÃ¡n P

doi:10.4161/gmic.29558

Cited by 67 publications

(50 citation statements)

References 46 publications

(72 reference statements)

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“…In recent studies using molecular techniques based on analysis of the prokaryotic 16S ribosomal RNA (16S rRNA) gene, loss of diversity and dramatic short‐term changes in several bacterial taxa have been a consistent finding after antibiotics exposure . Long‐term effects on microbial composition have also been reported in some studies, but with marked inter‐individual differences and even intra‐individual differences in the response to the same antibiotic ; thus, substantial relative changes in microbial abundances were seen several months after cessation of treatment with antibiotics in some studies , whereas other studies showed more modest effects on absolute bacterial numbers after treatment with antibiotics .…”

Section: Effects Of Antibiotics On the Human Gut Microbiotamentioning

confidence: 91%

Effect of antibiotics on gut microbiota, glucose metabolism and body weight regulation: a review of the literature

Mikkelsen

Allin

Knop

2016

Diabetes Obesity Metabolism

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Gut bacteria are involved in a number of host metabolic processes and have been implicated in the development of obesity and type 2 diabetes in humans. The use of antibiotics changes the composition of the gut microbiota and there is accumulating evidence from observational studies for an association between exposure to antibiotics and development of obesity and type 2 diabetes. In the present paper, we review human studies examining the effects of antibiotics on body weight regulation and glucose metabolism and discuss whether the observed findings may relate to alterations in the composition and function of the gut microbiota.

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Section: Effects Of Antibiotics On the Human Gut Microbiotamentioning

confidence: 91%

Effect of antibiotics on gut microbiota, glucose metabolism and body weight regulation: a review of the literature

Mikkelsen

Allin

Knop

2016

Diabetes Obesity Metabolism

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“…Dysbiosis is commonly characterized by a reduced diversity of the phyla Firmicutes and Bacteroidetes, and often accompanied by an overgrowth of the family Enterobacteriaceae [12,13,22,23,24,25]. This may become critical, as the healthy microbiota conveys colonization resistance towards invading pathogenic bacteria [26], and dysbiosis increases vulnerability for post-antibiotic expansion of enteropathogenic strains like Clostridium difficile [27] and antibiotic-resistant pathogens such as vancomycin-resistant Enterococcus [28].…”

Section: General Consequences Of Antibiotic Use On Gut Microbiota Commentioning

confidence: 99%

Effects of Antibiotics on Gut Microbiota

Lange

Buerger²,

Stallmach³

et al. 2016

Dig Dis

475

311

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The gut microbiota influences essential human functions including digestion, energy metabolism, and inflammation by modulating multiple endocrine, neural, and immune pathways of the host. Its composition and complexity varies markedly across individuals and across different sites of the gut, but provides a certain level of resilience against external perturbation. Short-term antibiotic treatment is able to shift the gut microbiota to long-term alternative dysbiotic states, which may promote the development and aggravation of disease. Common features of post-antibiotic dysbiosis include a loss of taxonomic and functional diversity combined with reduced colonization resistance against invading pathogens, which harbors the danger of antimicrobial resistance. This review summarizes the antibiotic-related changes of the gut microbiota and potential consequences in health and disease.

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“…Although it is well known that antibiotics can disrupt gut microbial communities, 52,53 GePMI’s results indicate that most samples could still be correctly assigned to the original subjects after antibiotic treatment with no false positives. We noticed that some treated samples were no longer similar to the original samples.…”

Section: Resultsmentioning

confidence: 98%

“…23,33,65,66 A healthy individual’s microbial community is robust against external perturbations, demonstrated by its ability to maintain homeostasis and to recover from disease. 52,58,67 However, the exact process and path of its moving between a healthy state and a disease state remains a mystery, although we can distinguish the microbiota in an individual’s health state from that in the disease state. PMI may be applied to such cases to help us to understand this process and to design efficient intervention methods to cure the disease.…”

Section: Discussionmentioning

confidence: 99%

GePMI: A statistical model for personal intestinal microbiome identification

Wang

Lou

Wang

et al. 2018

npj Biofilms Microbiomes

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Human gut microbiomes consist of a large number of microbial genomes, which vary by diet and health conditions and from individual to individual. In the present work, we asked whether such variation or similarity could be measured and, if so, whether the results could be used for personal microbiome identification (PMI). To address this question, we herein propose a method to estimate the significance of similarity among human gut metagenomic samples based on reference-free, long k-mer features. Using these features, we find that pairwise similarities between the metagenomes of any two individuals obey a beta distribution and that a p value derived accordingly well characterizes whether two samples are from the same individual or not. We develop a computational framework called GePMI (Generating inter-individual similarity distribution for Personal Microbiome Identification) and apply it to several human gut metagenomic datasets (>300 individuals and >600 samples in total). From the results of GePMI, most of the human gut microbiomes can be identified (auROC = 0.9470, auPRC = 0.8702). Even after antibiotic treatment or fecal microbiota transplantation, the individual k-mer signature still maintains a certain specificity.

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Effects of polysaccharopeptide fromTrametes Versicolorand amoxicillin on the gut microbiome of healthy volunteers

Cited by 67 publications

References 46 publications

Effect of antibiotics on gut microbiota, glucose metabolism and body weight regulation: a review of the literature

Effect of antibiotics on gut microbiota, glucose metabolism and body weight regulation: a review of the literature

Effects of Antibiotics on Gut Microbiota

GePMI: A statistical model for personal intestinal microbiome identification

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