Seven facts and five initiatives for gut microbiome research

Li, Danyi; Gao, Chunhui; Zhang, Faming; Lan, Canhui; Ma, Yonghui; Wang, Jun

doi:10.1007/s13238-020-00697-8

Cited by 23 publications

(19 citation statements)

References 125 publications

(123 reference statements)

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“… 9 Researchers can now analyze the taxonomic composition and structure of the gut microbiome but also study and verify the function of the microbiome and its association with health and disease. 10 …”

Section: Introductionmentioning

confidence: 99%

Practical and Robust NMR-Based Metabolic Phenotyping of Gut Health in Early Life

et al. 2021

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While substantial efforts have been made to optimize and standardize fecal metabolomics for studies in adults, the development of a standard protocol to analyze infant feces is, however, still lagging behind. Here, we present the development of a hands-on and robust protocol for proton 1 H NMR spectroscopy of infant feces. The influence of extraction solvent, dilution ratio, homogenization method, filtration, and duration of centrifugation on the biochemical composition of infant feces was carefully evaluated using visual inspection of 1 H NMR spectra in combination with multivariate statistical modeling. The optimal metabolomics protocol was subsequently applied on feces from seven infants collected at 8 weeks, 4, and 9 months of age. Interindividual variation was exceeding the variation induced by different fecal sample preparation methods, except for filtration. We recommend extracting fecal samples using water with a dilution ratio of 1:5 feces-to-water to homogenize using bead beating and to remove particulates using centrifugation. Samples collected from infants aged 8 weeks and 4 months showed elevated concentrations of milk oligosaccharide derivatives and lactic acid, whereas short-chain fatty acids (SCFAs) and branched-chain amino acids (BCAAs) were higher in the 9 month samples. The established protocol enables hands-on and robust analyses of the infant gut metabolome. The wide-ranging application of this protocol will facilitate interlaboratory comparison of infants’ metabolic profiles and finally aid in a better understanding of infant gut health.

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Section: Introductionmentioning

confidence: 99%

Practical and Robust NMR-Based Metabolic Phenotyping of Gut Health in Early Life

et al. 2021

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“…However, the efficacy and safety reports by different research centers varied due to many reasons including the methodology of preparation of fecal microbiota and the delivery way of FMT[ 3 , 6 , 16 ]. These controversial reports might be the evidence for questioning the scientific basis of gut microbiome studies and criticizing that many of them are farfetched[ 17 ]. Therefore, the useful delivery of microbiota to gut is the core issue to result in the real efficacy of FMT.…”

Section: Introductionmentioning

confidence: 99%

Awareness and attitude of fecal microbiota transplantation through transendoscopic enteral tubing among inflammatory bowel disease patients

Zhong¹,

Sun²,

Wang³

et al. 2020

WJCC

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BACKGROUND Transendoscopic enteral tubing (TET) has been used in China as a novel delivery route for fecal microbiota transplantation (FMT) into the whole colon with a high degree of patient satisfaction among adults. AIM To explore the recognition and attitudes of FMT through TET in patients with inflammatory bowel disease (IBD). METHODS An anonymous questionnaire, evaluating their awareness and attitudes toward FMT and TET was distributed among IBD patients in two provinces of Eastern and Southwestern China. Question formats included single-choice questions, multiple-choice questions and sorting questions. Patients who had not undergone FMT were mainly investigated for their cognition and acceptance of FMT and TET. Patients who had experience of FMT, the way they underwent FMT and acceptance of TET were the main interest. Then all the patients were asked whether they would recommend FMT and TET. This study also analyzed the preference of FMT delivery in IBD patients and the patient-related factors associated with it. RESULTS A total of 620 eligible questionnaires were included in the analysis. The survey showed that 44.6% (228/511) of patients did not know that FMT is a therapeutic option in IBD, and 80.6% (412/511) of them did not know the concept of TET. More than half (63.2%, 323/511) of the participants stated that they would agree to undergo FMT through TET. Of the patients who underwent FMT via TET [62.4% (68/109)], the majority [95.6% (65/68)] of them were satisfied with TET. Patients who had undergone FMT and TET were more likely to recommend FMT than patients who had not (94.5% vs 86.3%, P = 0.018 and 98.5% vs 87.8%, P = 0.017). Patients’ choice for the delivery way of FMT would be affected by the type of disease and whether the patient had the experience of FMT. When compared to patients without experience of FMT, Crohn’s disease and ulcerative colitis patients who had experience of FMT preferred mid-gut TET ( P < 0.001) and colonic TET ( P < 0.001), respectively. CONCLUSION Patients’ experience of FMT through TET lead them to maintain a positive attitude towards FMT. The present findings highlighted the significance of patient education on FMT and TET.

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“…It was not that long ago that beneficial microbes, not pathogens, were in the limelight, and the microbiome was one of the hottest topics in biology. In the years leading up to the COVID-19 pandemic, biologists had gradually moved away from thinking of microbes primarily as disease-causing “germs” and began to appreciate the diverse communities of nonpathogenic microbes that often colonize hosts—i.e., the host-associated microbiome ( 4 , 5 ). In microbiome science, as in much work on SARS-CoV-2, the fundamental questions are also often inherently ecological or evolutionary in nature, as we highlight in Table 1 (see also references 6 – 8 ).…”

Section: Commentarymentioning

confidence: 99%

Microbial Ecology and Evolution Are Essential for Understanding Pandemics

Frederickson

Reese

2021

mBio

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Seven facts and five initiatives for gut microbiome research

Abstract: FACT 2. BASIC AND TRANSLATIONAL RESEARCH OF THE GUT MICROBIOME IS EXPANDING GLOBALLY The rapid development of the gut microbiome research in recent years is not only related to the scientific community's

Cited by 23 publications

References 125 publications

Practical and Robust NMR-Based Metabolic Phenotyping of Gut Health in Early Life

Practical and Robust NMR-Based Metabolic Phenotyping of Gut Health in Early Life

Awareness and attitude of fecal microbiota transplantation through transendoscopic enteral tubing among inflammatory bowel disease patients

Microbial Ecology and Evolution Are Essential for Understanding Pandemics

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