Assessment of microbial diversity in human colonic samples by 16S rDNA sequence analysis

Hold, Georgina L.; Pryde, Susan E.; Russell, Valerie J.; Furrie, Elizabeth; Flint, Harry J.

doi:10.1111/j.1574-6941.2002.tb00904.x

Cited by 344 publications

(296 citation statements)

References 39 publications

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“…By contrast, Bacteroides sp. are among the most predominant genera of intestinal microbiota (Hold et al, 2002) and have been found to be dominant among bacteria on the ileal mucosal surface (Wang et al, 2005) and in accordance with the hypothesis of invasion of microorganisms through an ascending infection by duodenal biliary reflux (Sung et al, 1992) were observed in a high number (approximately 20%) of stent communities. This also explains the high prevalence in stent communities of acid-tolerant Streptococcus spp.…”

Section: Discussionsupporting

confidence: 74%

Characterization of the complex bacterial communities colonizing biliary stents reveals a host-dependent diversity

et al. 2009

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This study provides a comprehensive survey of the spatial and temporal bacterial composition of biliary stent biofilms. The bacterial diversity, distribution and dynamics of 59 biliary and 4 pancreatic stent communities from 40 patients being treated at two different hospitals, which implant stents either simultaneously or consecutively, were characterized by single-strand conformation polymorphism (SSCP) analysis. Fifty-one phylotypes belonging to 5 bacterial phyla and 24 bacterial families were detected across 63 stents. This is a much broader diversity than previously detected through culture-dependent methods, particularly in regard to the diversity of obligate anaerobes. Stent bacterial diversity was patient-dependent and more similar when stents were implanted simultaneously rather than consecutively. Stent bacterial community composition differed between hospitals specifically because of the difference in abundance of Bifidobacteria. Co-colonization of Veillonella sp., Streptococcus anginosus and organisms closely related to Fusobacterium nucleatum revealed a potentially important attachment and survival strategy that has yet to be reported in biliary stents. This work reveals a more complete survey of the identities of bacterial species that form biofilms in biliary stents, their co-colonization patterns and the natural variation in species composition between different patients, hospitals and locations along the stent. Consideration of the community composition from individual patients will allow tailoring of prophylactic antibiotic treatments and thus will make the management of stent biofilms more effective.

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Section: Discussionsupporting

confidence: 74%

Characterization of the complex bacterial communities colonizing biliary stents reveals a host-dependent diversity

et al. 2009

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“…Based on 16S rRNA-targeted molecular analyses, the majority of bacteria detected in faecal samples from healthy human volunteers belong to two phyla, Bacteroidetes and Firmicutes (4)(5)(6) . The Gram-negative Bacteroidetes phylum includes the genera Bacteroides, Prevotella, Parabacteroides and Alistipes.…”

Section: Microbial Utilisation Of Dietary Polysaccharidesmentioning

confidence: 99%

Links between diet, gut microbiota composition and gut metabolism

et al. 2014

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The gut microbiota and its metabolic products interact with the host in many different ways, influencing gut homoeostasis and health outcomes. The species composition of the gut microbiota has been shown to respond to dietary change, determined by competition for substrates and by tolerance of gut conditions. Meanwhile, the metabolic outputs of the microbiota, such as SCFA, are influenced both by the supply of dietary components and via diet-mediated changes in microbiota composition. There has been significant progress in identifying the phylogenetic distribution of pathways responsible for formation of particular metabolites among human colonic bacteria, based on combining cultural microbiology and sequencebased approaches. Formation of butyrate and propionate from hexose sugars, for example, can be ascribed to different bacterial groups, although propionate can be formed via alternative pathways from deoxy-sugars and from lactate by a few species. Lactate, which is produced by many gut bacteria in pure culture, can also be utilised by certain Firmicutes to form butyrate, and its consumption may be important for maintaining a stable community. Predicting the impact of diet upon such a complex and interactive system as the human gut microbiota not only requires more information on the component groups involved but, increasingly, the integration of such information through modelling approaches.

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“…In unfed pigs with an intracaecal perfusion of [1][2][3][4][5][6][7][8][9][10][11][12][13] ]C-butyrate, the parietal utilisation of butyrate varied from 60 to 120 mmol/min when the concentration of perfused [1][2][3][4][5][6][7][8][9][10][11][12][13] ]C-butyrate varied from 0 to 160 mmol/min (L Martin, unpublished results).…”

Section: Absorption Of Butyrate Scfa Membrane Receptor and Transportmentioning

confidence: 99%

From the gut to the peripheral tissues: the multiple effects of butyrate

et al. 2010

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Butyrate is a natural substance present in biological liquids and tissues. The present paper aims to give an update on the biological role of butyrate in mammals, when it is naturally produced by the gastrointestinal microbiota or orally ingested as a feed additive. Recent data concerning butyrate production delivery as well as absorption by the colonocytes are reported. Butyrate cannot be detected in the peripheral blood, which indicates fast metabolism in the gut wall and/or in the liver. In physiological conditions, the increase in performance in animals could be explained by the increased nutrient digestibility, the stimulation of the digestive enzyme secretions, a modification of intestinal luminal microbiota and an improvement of the epithelial integrity and defence systems. In the digestive tract, butyrate can act directly (upper gastrointestinal tract or hindgut) or indirectly (small intestine) on tissue development and repair. Direct trophic effects have been demonstrated mainly by cell proliferation studies, indicating a faster renewal of necrotic areas. Indirect actions of butyrate are believed to involve the hormono-neuro-immuno system. Butyrate has also been implicated in down-regulation of bacteria virulence, both by direct effects on virulence gene expression and by acting on cell proliferation of the host cells. In animal production, butyrate is a helpful feed additive, especially when ingested soon after birth, as it enhances performance and controls gut health disorders caused by bacterial pathogens. Such effects could be considered for new applications in human nutrition

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Assessment of microbial diversity in human colonic samples by 16S rDNA sequence analysis

Cited by 344 publications

References 39 publications

Characterization of the complex bacterial communities colonizing biliary stents reveals a host-dependent diversity

Characterization of the complex bacterial communities colonizing biliary stents reveals a host-dependent diversity

Links between diet, gut microbiota composition and gut metabolism

From the gut to the peripheral tissues: the multiple effects of butyrate

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