Three-stage continuous culture system with a self-generated anaerobia to study the regionalized metabolism of the human gut microbiota

Féria-Gervasio, David; Tottey, William; Gaci, Nadia; Alric, Monique; Cardot, Jean‐Michel; Peyret, Pierre; Martin, Jean-François; Pujos, Estelle; Sébédio, Jean‐Louis; Brugère, Jean-François

doi:10.1016/j.mimet.2013.11.015

Cited by 31 publications

(42 citation statements)

References 40 publications

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“…It also enables microbiota differentiations between the compartments from a common fecal bacterial repertoire, and leads to similar microbial signatures between the distal compartment and the fecal inoculum. 18 In the present study, we increased the retention time of media in each compartment in order to simulate an increase of transit time, from a normal intestinal transit time of 48 hours to a slow one of 96 hours. This was realized by adjusting media supply rates, with no other parameters changes in the entry of the in vitro system.…”

Section: Discussionmentioning

confidence: 99%

“…After the 24 hour batch condition, the procedure and medium used were as described previously (Table 1). 18 Figure 1 illustrates the 3S-ECSIM and the overall experimental design. Briefly, an initial retention time of 48 hours was applied to the system and after 240 hours of stabilization; it was increased to 96 hours by a decrease of dilution rate and left to stabilize for 480 hours.…”

Section: Three-stage Environmental Control System For Intestinal Micrmentioning

confidence: 99%

“…17,18 In its 3-stage configuration ( Fig. 1), it simulates the proximal, transversal and distal parts of the human colon in which gut microbes are known to be different, 19 mimicking different physicochemical parameters and substrates availability for gut microbes.…”

mentioning

confidence: 99%

“…1), it simulates the proximal, transversal and distal parts of the human colon in which gut microbes are known to be different, 19 mimicking different physicochemical parameters and substrates availability for gut microbes. 18 This biogeography simulation is obtained by differential development of microbes from a same fecal microbe repertoire in the 3 linked fermenters. A growth medium determined to be representative of nutrients entering the proximal part of the colon under standard diet 15 is given at a dilution rate that can be modified, therefore mimicking various retention times in the proximal part.…”

mentioning

confidence: 99%

“…The same principles are next applied to feed the third reactor/distal part. One of the other main characteristics of the ECSIM systems relies in the genesis of anaerobia which is necessary for microbial development: instead of being maintained by a continuous flush of gases devoid of O 2 , anaerobia is here generated by the fermentative metabolism of the microbes themselves 17,18 supposedly simulating conditions more closely related to the one encountered in vivo. The objective of our study was to evaluate the impact of the increase of the transit time on the gut microbiota in 3 anatomical parts of the colon.…”

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confidence: 99%

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Colonic Transit Time Is a Driven Force of the Gut Microbiota Composition and Metabolism: In Vitro Evidence

Tottey

Féria-Gervasio

Gaci

et al. 2017

J Neurogastroenterol Motil

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Background/AimsHuman gut microbiota harbors numerous metabolic properties essential for the host's health. Increased intestinal transit time affects a part of the population and is notably observed with human aging, which also corresponds to modifications of the gut microbiota. Thus we tested the metabolic and compositional changes of a human gut microbiota induced by an increased transit time simulated in vitro. MethodsThe in vitro system, Environmental Control System for Intestinal Microbiota, was used to simulate the environmental conditions of 3 different anatomical parts of the human colon in a continuous process. The retention times of the chemostat conditions were established to correspond to a typical transit time of 48 hours next increased to 96 hours. The bacterial communities, short chain fatty acids and metabolite fingerprints were determined. ResultsIncrease of transit time resulted in a decrease of biomass and of diversity in the more distal compartments. Short chain fatty acid analyses and metabolite fingerprinting revealed increased activity corresponding to carbohydrate fermentation in the proximal compartments while protein fermentations were increased in the lower parts. ConclusionsThis study provides the evidence that the increase of transit time, independently of other factors, affects the composition and metabolism of the gut microbiota. The transit time is one of the factors that explain some of the modifications seen in the gut microbiota of the elderly, as well as patients with slow transit time.

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Section: Discussionmentioning

confidence: 99%

Section: Three-stage Environmental Control System For Intestinal Micrmentioning

confidence: 99%

mentioning

confidence: 99%

mentioning

confidence: 99%

mentioning

confidence: 99%

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Colonic Transit Time Is a Driven Force of the Gut Microbiota Composition and Metabolism: In Vitro Evidence

Tottey

Féria-Gervasio

Gaci

et al. 2017

J Neurogastroenterol Motil

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Technological tools and strategies for culturing human gut microbiota in engineered in vitro models

Sardelli

Perottoni

Tunesi

et al. 2021

Biotech & Bioengineering

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The gut microbiota directly impacts the pathophysiology of different human body districts. Consequently, microbiota investigation is an hot topic of research and its in vitro culture has gained extreme interest in different fields. However, the high sensitivity of microbiota to external stimuli, such as sampling procedure, and the physicochemical complexity of the gut environment make its in vitro culture a challenging task. New engineered microfluidic gut-on-a-chip devices have the potential to model some important features of the intestinal structure, but they are usually unable to sustain culture of microbiota over an extended period of time. The integration of gut-on-a-chip devices with bioreactors for continuous bacterial culture would lead to fast advances in the study of microbiota-host crosstalk. In this review, we summarize the main technologies for the continuous culture of microbiota as upstream systems to be coupled with microfluidic devices to study bacteriahost cells communication. The engineering of integrated microfluidic platforms, capable of sustaining both anaerobic and aerobic cultures, would be the starting point to unveil complex biological phenomena proper of the microbiota-host crosstalks, paving to way to multiple research and technological applications.

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PETR: A novel peristaltic mixed tubular bioreactor simulating human colonic conditions

Vorländer,

Schultz,

Hoffmann

et al. 2023

Biotech & Bioengineering

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A novel bioreactor simulating human colonic conditions for in vitro cultivation of intestinal microbiota is presented. The PEristaltic mixed Tubular bioReactor (PETR) is modular designed and periodically kneaded to simulate intestinal peristalsis. The reactor is introduced, characterized from a bioprocess engineer's perspective and discussed in its ability to mimic colon conditions. PETR provides physiological temperature and appropriate anaerobic conditions, simulates intestinal peristalsis, and has a mean residence time of 32.8 ± 0.8 h comparable to the adult human colon. The single‐tube design enables a time‐constant and longitudinally progressive pH gradient from 5.5 to 7.0. Using a dialysis liquid containing high molecular weight polyethylene glycol, the integrated dialysis system efficiently absorbs short chain fatty acids (up to 60%) and water (on average 850 mL d−1). Cultivation of a typical gut bacterium (Bifidobacterium animalis) was performed to demonstrate the applicability for controlled microbiota cultivation. PETR is unique in combining simulation of the entire colon, peristaltic mixing, dialytic water and metabolite absorption, and a progressive pH gradient in a single‐tube design. PETR is a further step to precise replication of colonic conditions in vitro for reliable and reproducible microbiota research, such as studying the effect of food compounds, prebiotics or probiotics, or the development and treatment of infections with enteric pathogens, but also for further medical applications such as drug delivery studies or to study the effect of drugs on and their degradation by the microbiota.

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Three-stage continuous culture system with a self-generated anaerobia to study the regionalized metabolism of the human gut microbiota

Cited by 31 publications

References 40 publications

Colonic Transit Time Is a Driven Force of the Gut Microbiota Composition and Metabolism: In Vitro Evidence

Colonic Transit Time Is a Driven Force of the Gut Microbiota Composition and Metabolism: In Vitro Evidence

Technological tools and strategies for culturing human gut microbiota in engineered in vitro models

PETR: A novel peristaltic mixed tubular bioreactor simulating human colonic conditions

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