The Mucosally-Adherent Rectal Microbiota Contains Features Unique to Alcohol-Related Cirrhosis

Shen, Ting-Chin David; Daniel, Scott G.; Patel, Shivali; Kaplan, Elina; Phung, Lillian; Lemelle-Thomas, Kaylin; Chau, Lillian; Herman, Lindsay; Trisolini, Calvin; Stonelake, Aimee; Toal, Emily; Khungar, Vandana; Bittinger, Kyle; Reddy, K. Rajender; Wu, Gary D.

doi:10.1080/19490976.2021.1987781

Cited by 15 publications

(7 citation statements)

References 54 publications

(69 reference statements)

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“…From 247 detected taxa, 26 accounting for nearly one-third of total microbial composition were found to have significantly different relative abundances in the two sampling techniques. The elevated presence of Finegoldia , Porphyromonas , Lachnospiraceae , and WAL 1855D (unclassified sporobacteria) in rectal swabs is in line with previous findings ( 18 , 19 , 33 ). In contrast to prior studies ( 19 ), the abundance of the genus Ruminococcus was lower in stool samples.…”

Section: Discussionsupporting

confidence: 92%

First-Day-of-Life Rectal Swabs Fail To Represent Meconial Microbiota Composition and Underestimate the Presence of Antibiotic Resistance Genes

et al. 2023

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Section: Discussionsupporting

confidence: 92%

First-Day-of-Life Rectal Swabs Fail To Represent Meconial Microbiota Composition and Underestimate the Presence of Antibiotic Resistance Genes

et al. 2023

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“…Earlier studies which compared rectal swabs to colonic biopsy samples did not demonstrate favourable correlation between the microbiota from the two communities 7 , 37 , 38 ; however, mucosal microbiota samples in the studies were obtained after bowel purgatives with the authors acknowledging this limitation 7 . Additionally, rectal swabs may not obtain the same mucosal adherent microbiota as biopsy samples, which may explain the poor correlation between the sampling types 39 . Conversely, the same publications 7 , 38 and recent work 1 , 8 , 40 – 45 have demonstrated rectal swab microbiota communities to be closely related to matched faecal samples.…”

Section: Discussionmentioning

confidence: 99%

Rectal swabs as a viable alternative to faecal sampling for the analysis of gut microbiota functionality and composition

Radhakrishnan

Gallagher

Mullish

et al. 2023

Sci Rep

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Faecal or biopsy samples are frequently used to analyse the gut microbiota, but issues remain with the provision and collection of such samples. Rectal swabs are widely-utilised in clinical practice and previous data demonstrate their potential role in microbiota analyses; however, studies to date have been heterogenous, and there are a particular lack of data concerning the utility of swabs for the analysis of the microbiota’s functionality and metabolome. We compared paired stool and rectal swab samples from healthy individuals to investigate whether rectal swabs are a reliable proxy for faecal sampling. There were no significant differences in key alpha and beta diversity measures between swab and faecal samples, and inter-subject variability was preserved. Additionally, no significant differences were demonstrated in abundance of major annotated phyla. Inferred gut functionality using Tax4Fun2 showed excellent correlation between the two sampling techniques (Pearson’s coefficient r = 0.9217, P < 0.0001). Proton nuclear magnetic resonance (1H NMR) spectroscopy enabled the detection of 20 metabolites, with overall excellent correlation identified between rectal swab and faecal samples for levels all metabolites collectively, although more variable degrees of association between swab and stool for levels of individual metabolites. These data support the utility of rectal swabs in both compositional and functional analyses of the gut microbiota.

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“…Earlier studies which compared rectal swabs to colonic biopsy samples did not demonstrate favorable correlation between the microbiota from the two communities 7,31,32 ; however, mucosal microbiota samples in the studies were obtained after bowel purgatives with the authors acknowledging this limitation 7 . Additionally, rectal swabs may not obtain the same mucosal adherent microbiota as biopsy samples, which may explain the poor correlation between the sampling types 33 . Conversely, the same publications 7,32 and recent work 1,8,34−39 have demonstrated rectal swab microbiota communities to be closely related to matched faecal samples.…”

Section: Discussionmentioning

confidence: 99%

Rectal swabs as a viable alternative to faecal sampling for the analysis of gut microbiota functionality and composition

Mullish

Radhakrishnan

Gallagher

et al. 2022

Preprint

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Faecal or biopsy samples are frequently used to analyse the gut microbiota, but issues remain with the provision and collection of such samples. Rectal swabs are widely-utilised in clinical practice and previous data demonstrate their potential role in microbiota analyses; however, studies to date have been heterogenous, and there is a particular lack of data concerning the utility of swabs for the analysis of the microbiota’s functionality and metabolome. We compared paired stool and rectal swab samples from healthy individuals to investigate whether rectal swabs are a reliable proxy for faecal sampling. There were no significant differences in alpha and beta diversity measures between swab and faecal samples, and inter-subject variability was preserved. Additionally, no significant differences were demonstrated in abundance of major annotated phyla. Inferred gut functionality using Tax4Fun2 showed excellent correlation between the two sampling techniques (Pearson’s coefficient r = 0.9217, P < 0.0001). Proton nuclear magnetic resonance (1H NMR) spectroscopy enabled the detection of 20 metabolites with good correlation between rectal swab and faecal samples for butyrate, succinate and 5-aminovalerate relative abundances, though more variable degrees of association for other identified metabolites. These data support the utility of rectal swabs in both compositional and functional analyses of the gut microbiota.

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The Mucosally-Adherent Rectal Microbiota Contains Features Unique to Alcohol-Related Cirrhosis

Cited by 15 publications

References 54 publications

First-Day-of-Life Rectal Swabs Fail To Represent Meconial Microbiota Composition and Underestimate the Presence of Antibiotic Resistance Genes

First-Day-of-Life Rectal Swabs Fail To Represent Meconial Microbiota Composition and Underestimate the Presence of Antibiotic Resistance Genes

Rectal swabs as a viable alternative to faecal sampling for the analysis of gut microbiota functionality and composition

Rectal swabs as a viable alternative to faecal sampling for the analysis of gut microbiota functionality and composition

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