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Article: Comparison of four DNA extraction kits efficiency for 16SrDNA microbiota profiling of diverse human samples.

Gall-David, Sandrine Le / Boudry, Gaëlle / Buffet-Bataillon, Sylvie

Future science OA

2023 Volume 9, Issue 1, Page(s) FSO837

Abstract: Aim: The current study investigated the performance of 4 widely used DNA extraction kits using different types of high (stool) and low biomass samples (chyme, broncho alveolar lavage and sputum).: Methods: Qiagen Powerfecal Pro DNA kit, Macherey ... ...

Abstract	Aim: The current study investigated the performance of 4 widely used DNA extraction kits using different types of high (stool) and low biomass samples (chyme, broncho alveolar lavage and sputum). Methods: Qiagen Powerfecal Pro DNA kit, Macherey Nucleospin Soil kit, Macherey Nucleospin Tissue Kit and MagnaPure LC DNA isolation kit III were evaluated in terms of DNA quantity, quality, diversity and composition profiles. Results: The quantity and quality of DNA varied among the four kits. The microbiota of the stool samples showed similar diversity and compositional profiles for the 4 kits. Conclusion: Despite differences in DNA quality and quantity, the 4 kits yielded similar results for stool samples, while all kits were not sensitive enough for low biomass samples.
Language	English
Publishing date	2023-03-09
Publishing country	England
Document type	Journal Article
ISSN	2056-5623
ISSN	2056-5623
DOI	10.2144/fsoa-2022-0072
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Article ; Online: Mitochondrial function in intestinal epithelium homeostasis and modulation in diet-induced obesity.

Guerbette, Thomas / Boudry, Gaëlle / Lan, Annaïg

Molecular metabolism

2022 Volume 63, Page(s) 101546

Abstract: Background: Systemic low-grade inflammation observed in diet-induced obesity has been associated with dysbiosis and disturbance of intestinal homeostasis. This latter relies on an efficient epithelial barrier and coordinated intestinal epithelial cell ( ... ...

Abstract	Background: Systemic low-grade inflammation observed in diet-induced obesity has been associated with dysbiosis and disturbance of intestinal homeostasis. This latter relies on an efficient epithelial barrier and coordinated intestinal epithelial cell (IEC) renewal that are supported by their mitochondrial function. However, IEC mitochondrial function might be impaired by high fat diet (HFD) consumption, notably through gut-derived metabolite production and fatty acids, that may act as metabolic perturbators of IEC. Scope of review: This review presents the current general knowledge on mitochondria, before focusing on IEC mitochondrial function and its role in the control of intestinal homeostasis, and featuring the known effects of nutrients and metabolites, originating from the diet or gut bacterial metabolism, on IEC mitochondrial function. It then summarizes the impact of HFD on mitochondrial function in IEC of both small intestine and colon and discusses the possible link between mitochondrial dysfunction and altered intestinal homeostasis in diet-induced obesity. Major conclusions: HFD consumption provokes a metabolic shift toward fatty acid β-oxidation in the small intestine epithelial cells and impairs colonocyte mitochondrial function, possibly through downstream consequences of excessive fatty acid β-oxidation and/or the presence of deleterious metabolites produced by the gut microbiota. Decreased levels of ATP and concomitant O
MeSH term(s)	Diet, High-Fat/adverse effects ; Dysbiosis/metabolism ; Fatty Acids/metabolism ; Homeostasis ; Humans ; Intestinal Mucosa/metabolism ; Mitochondria/metabolism ; Obesity/metabolism
Chemical Substances	Fatty Acids
Language	English
Publishing date	2022-07-08
Publishing country	Germany
Document type	Journal Article ; Review ; Research Support, Non-U.S. Gov't
ZDB-ID	2708735-9
ISSN	2212-8778 ; 2212-8778
ISSN (online)	2212-8778
ISSN	2212-8778
DOI	10.1016/j.molmet.2022.101546
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Article: Saturated fatty acids differently affect mitochondrial function and the intestinal epithelial barrier depending on their chain length in the

Guerbette, Thomas / Rioux, Vincent / Bostoën, Mégane / Ciesielski, Vincent / Coppens-Exandier, Hugo / Buraud, Marine / Lan, Annaïg / Boudry, Gaëlle

Frontiers in cell and developmental biology

2024 Volume 12, Page(s) 1266842

Abstract: Introduction: ...

Abstract	Introduction:
Language	English
Publishing date	2024-02-01
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2737824-X
ISSN	2296-634X
ISSN	2296-634X
DOI	10.3389/fcell.2024.1266842
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Article ; Online: Culture of Piglet Intestinal 3D Organoids from Cryopreserved Epithelial Crypts and Establishment of Cell Monolayers.

Mussard, Eloïse / Lencina, Corinne / Boudry, Gaëlle / Achard, Caroline S / Klotz, Christian / Combes, Sylvie / Beaumont, Martin

Journal of visualized experiments : JoVE

2023 , Issue 192

Abstract: Intestinal organoids are increasingly being used to study the gut epithelium for digestive disease modeling, or to investigate interactions with drugs, nutrients, metabolites, pathogens, and the microbiota. Methods to culture intestinal organoids are now ...

Abstract	Intestinal organoids are increasingly being used to study the gut epithelium for digestive disease modeling, or to investigate interactions with drugs, nutrients, metabolites, pathogens, and the microbiota. Methods to culture intestinal organoids are now available for multiple species, including pigs, which is a species of major interest both as a farm animal and as a translational model for humans, for example, to study zoonotic diseases. Here, we give an in-depth description of a procedure used to culture pig intestinal 3D organoids from frozen epithelial crypts. The protocol describes how to cryopreserve epithelial crypts from the pig intestine and the subsequent procedures to culture 3D intestinal organoids. The main advantages of this method are (i) the temporal dissociation of the isolation of crypts from the culture of 3D organoids, (ii) the preparation of large stocks of cryopreserved crypts derived from multiple intestinal segments and from several animals at once, and thus (iii) the reduction in the need to sample fresh tissues from living animals. We also detail a protocol to establish cell monolayers derived from 3D organoids to allow access to the apical side of epithelial cells, which is the site of interactions with nutrients, microbes, or drugs. Overall, the protocols described here is a useful resource for studying the pig intestinal epithelium in veterinary and biomedical research.
MeSH term(s)	Humans ; Animals ; Swine ; Intestines ; Intestinal Mucosa/metabolism ; Animals, Domestic ; Epithelial Cells ; Organoids/metabolism
Language	English
Publishing date	2023-02-10
Publishing country	United States
Document type	Journal Article ; Video-Audio Media ; Research Support, Non-U.S. Gov't
ZDB-ID	2259946-0
ISSN	1940-087X ; 1940-087X
ISSN (online)	1940-087X
ISSN	1940-087X
DOI	10.3791/64917
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Article ; Online: Disruption of the primocolonizing microbiota alters epithelial homeostasis and imprints stem cells in the colon of neonatal piglets.

Beaumont, Martin / Lencina, Corinne / Fève, Katia / Barilly, Céline / Le-Normand, Laurence / Combes, Sylvie / Devailly, Guillaume / Boudry, Gaëlle

FASEB journal : official publication of the Federation of American Societies for Experimental Biology

2023 Volume 37, Issue 10, Page(s) e23149

Abstract: The gut microbiota plays a key role in the postnatal development of the intestinal epithelium. However, the bacterial members of the primocolonizing microbiota driving these effects are not fully identified and the mechanisms underlying their long-term ... ...

Abstract	The gut microbiota plays a key role in the postnatal development of the intestinal epithelium. However, the bacterial members of the primocolonizing microbiota driving these effects are not fully identified and the mechanisms underlying their long-term influence on epithelial homeostasis remain poorly described. Here, we used a model of newborn piglets treated during the first week of life with the antibiotic colistin in order to deplete specific gram-negative bacteria that are transiently dominant in the neonatal gut microbiota. Colistin depleted Proteobacteria and Fusobacteriota from the neonatal colon microbiota, reduced the bacterial predicted capacity to synthetize lipopolysaccharide (LPS), and increased the concentration of succinate in the colon. The colistin-induced disruption of the primocolonizing microbiota was associated with altered gene expression in the colon epithelium including a reduction of toll-like receptor 4 (TLR4) and lysozyme (LYZ). Our data obtained in porcine colonic organoid cell monolayers suggested that these effects were not driven by the variation of succinate or LPS levels nor by a direct effect of colistin on epithelial cells. The disruption of the primocolonizing microbiota imprinted colon epithelial stem cells since the expression of TLR4 and LYZ remained lower in organoids derived from colistin-treated piglet colonic crypts after several passages when compared to control piglets. Finally, the stable imprinting of LYZ in colon organoids was independent of the H3K4me3 level in its transcription start site. Altogether, our results show that disruption of the primocolonizing gut microbiota alters epithelial innate immunity in the colon and imprints stem cells, which could have long-term consequences for gut health.
MeSH term(s)	Animals ; Swine ; Toll-Like Receptor 4 ; Colistin ; Lipopolysaccharides ; Microbiota ; Stem Cells ; Succinates ; Succinic Acid ; Colon ; Homeostasis
Chemical Substances	Toll-Like Receptor 4 ; Colistin (Z67X93HJG1) ; Lipopolysaccharides ; Succinates ; Succinic Acid (AB6MNQ6J6L)
Language	English
Publishing date	2023-09-06
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	639186-2
ISSN	1530-6860 ; 0892-6638
ISSN (online)	1530-6860
ISSN	0892-6638
DOI	10.1096/fj.202301182R
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Article: Ethanolamine Produced from Oleoylethanolamide Degradation Contributes to Acetylcholine/Dopamine Balance Modulating Eating Behavior

Mennella, Ilario / Boudry, Gaëlle / Val-Laillet, David

Journal of nutrition. 2019 Mar. 01, v. 149, no. 3

2019

Abstract: Oleoylethanolamide is a well-recognized anorectic compound which also has noteworthy effects on food-reward, influencing the acetylcholine (ACh)/dopamine (DA) balance in the cholinergic system. After its administration, oleoylethanolamide is quickly ... ...

Abstract	Oleoylethanolamide is a well-recognized anorectic compound which also has noteworthy effects on food-reward, influencing the acetylcholine (ACh)/dopamine (DA) balance in the cholinergic system. After its administration, oleoylethanolamide is quickly degraded into oleic acid and ethanolamine. The effect of oleic acid on the gut–brain axis has been extensively investigated, whereas ethanolamine has received scarce attention. However, there is scattered evidence from old and recent research that has underlined the influence of ethanolamine on the cholinergic system. In the present article, we propose a model by which the released ethanolamine contributes to the overall balance between DA and ACh after oleoylethanolamide administration.
Keywords	acetylcholine ; dopamine ; eating habits ; ethanolamine ; models ; oleic acid
Language	English
Dates of publication	2019-0301
Size	p. 362-365.
Publishing place	Oxford University Press
Document type	Article
ZDB-ID	218373-0
ISSN	1541-6100 ; 0022-3166
ISSN (online)	1541-6100
ISSN	0022-3166
DOI	10.1093/jn/nxy281
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Article ; Online: Ethanolamine Produced from Oleoylethanolamide Degradation Contributes to Acetylcholine/Dopamine Balance Modulating Eating Behavior.

Mennella, Ilario / Boudry, Gaëlle / Val-Laillet, David

The Journal of nutrition

2019 Volume 149, Issue 3, Page(s) 362–365

Abstract	Oleoylethanolamide is a well-recognized anorectic compound which also has noteworthy effects on food-reward, influencing the acetylcholine (ACh)/dopamine (DA) balance in the cholinergic system. After its administration, oleoylethanolamide is quickly degraded into oleic acid and ethanolamine. The effect of oleic acid on the gut-brain axis has been extensively investigated, whereas ethanolamine has received scarce attention. However, there is scattered evidence from old and recent research that has underlined the influence of ethanolamine on the cholinergic system. In the present article, we propose a model by which the released ethanolamine contributes to the overall balance between DA and ACh after oleoylethanolamide administration.
MeSH term(s)	Acetylcholine/metabolism ; Animals ; Appetite Depressants/metabolism ; Appetite Depressants/pharmacology ; Dopamine/metabolism ; Endocannabinoids/metabolism ; Endocannabinoids/pharmacology ; Ethanolamine/metabolism ; Feeding Behavior/drug effects ; Humans ; Mice ; Models, Biological ; Oleic Acids/metabolism ; Oleic Acids/pharmacology ; Rats
Chemical Substances	Appetite Depressants ; Endocannabinoids ; Oleic Acids ; oleoylethanolamide (1HI5J9N8E6) ; Ethanolamine (5KV86114PT) ; Acetylcholine (N9YNS0M02X) ; Dopamine (VTD58H1Z2X)
Language	English
Publishing date	2019-02-05
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	218373-0
ISSN	1541-6100 ; 0022-3166
ISSN (online)	1541-6100
ISSN	0022-3166
DOI	10.1093/jn/nxy281
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Article ; Online: Gastrointestinal and hepatic mechanisms limiting entry and dissemination of lipopolysaccharide into the systemic circulation.

Guerville, Mathilde / Boudry, Gaëlle

American journal of physiology. Gastrointestinal and liver physiology

2016 Volume 311, Issue 1, Page(s) G1–G15

Abstract: The human microbiota consists of 100 trillion microorganisms that provide important metabolic and biological functions benefiting the host. However, the presence in host plasma of a gut-derived bacteria component, the lipopolysaccharide (LPS), has been ... ...

Abstract	The human microbiota consists of 100 trillion microorganisms that provide important metabolic and biological functions benefiting the host. However, the presence in host plasma of a gut-derived bacteria component, the lipopolysaccharide (LPS), has been identified as a causal or complicating factor in multiple serious diseases such as sepsis and septic shock and, more recently, obesity-associated metabolic disorders. Understanding the precise mechanisms by which gut-derived LPS is transported from the gut lumen to the systemic circulation is crucial to advance our knowledge of LPS-associated diseases and elaborate targeted strategies for their prevention. The aim of this review is to synthetize current knowledge on the host mechanisms limiting the entry and dissemination of LPS into the systemic circulation. To prevent bacterial colonization and penetration, the intestinal epithelium harbors multiple defense mechanisms including the secretion of antimicrobial peptides and mucins as well as detoxification enzymes. Despite this first line of defense, LPS can reach the apical site of intestinal epithelial cells (IECs) and, because of its large size, likely crosses IECs via transcellular transport, either lipid raft- or clathrin-mediated endocytosis or goblet cell-associated passage. However, the precise pathway remains poorly described. Finally, if LPS crosses the gut mucosa, it is directed via the portal vein to the liver, where major detoxification processes occur by deacetylation and excretion through the bile. If this disposal process is not sufficient, LPS enters the systemic circulation, where it is handled by numerous transport proteins that clear it back to the liver for further excretion.
MeSH term(s)	Animals ; Bacteria/immunology ; Bacteria/metabolism ; Bacterial Translocation ; Gastrointestinal Microbiome ; Host-Pathogen Interactions ; Humans ; Intestines/immunology ; Intestines/metabolism ; Intestines/microbiology ; Lipopolysaccharides/blood ; Lipopolysaccharides/chemistry ; Liver/immunology ; Liver/metabolism ; Liver/microbiology ; Permeability ; Sepsis/blood ; Sepsis/immunology ; Sepsis/microbiology
Chemical Substances	Lipopolysaccharides
Language	English
Publishing date	2016-05-05
Publishing country	United States
Document type	Journal Article ; Review ; Research Support, Non-U.S. Gov't
ZDB-ID	603840-2
ISSN	1522-1547 ; 0193-1857
ISSN (online)	1522-1547
ISSN	0193-1857
DOI	10.1152/ajpgi.00098.2016
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Article: The ghrelin system follows a precise post-natal development in mini-pigs that is not impacted by dietary medium chain fatty-acids.

Boudry, Gaëlle / Cahu, Armelle / Romé, Véronique / Janvier, Régis / Louvois, Margaux / Catheline, Daniel / Rioux, Vincent / Le Huërou-Luron, Isabelle / Blat, Sophie

Frontiers in physiology

2022 Volume 13, Page(s) 1010586

Abstract: The ghrelin-ghrelin receptor (GHSR1) system is one of the most important mechanisms regulating food intake and energy balance. To be fully active, ghrelin is acylated with medium-chain fatty acids (MCFA) through the ghrelin-O-acetyl transferase (GOAT). ... ...

Abstract	The ghrelin-ghrelin receptor (GHSR1) system is one of the most important mechanisms regulating food intake and energy balance. To be fully active, ghrelin is acylated with medium-chain fatty acids (MCFA) through the ghrelin-O-acetyl transferase (GOAT). Several studies reported an impact of dietary MCFA on ghrelin acylation in adults. Our study aimed at describing early post-natal development of the ghrelin system in mini-pigs as a model of human neonates and evaluating the impact of dietary MCFA. Suckled mini-pigs were sacrificed at post-natal day (PND) 0, 2, 5, and 10 or at adult stage. In parallel, other mini-pigs were fed from birth to PND10 a standard or a dairy lipid-enriched formula with increased MCFA concentration (DL-IF). Plasma ghrelin transiently peaked at PND2, with no variation of the acylated fraction except in adults where it was greater than during the neonatal period. Levels of mRNA coding pre-proghrelin (GHRL) and GOAT in the antrum did not vary during the post-natal period but dropped in adults. Levels of antral
Language	English
Publishing date	2022-09-26
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2564217-0
ISSN	1664-042X
ISSN	1664-042X
DOI	10.3389/fphys.2022.1010586
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Article ; Online: Casein structures differently affect postprandial amino acid delivery through their intra-gastric clotting properties

Boulier, Audrey / Denis, Sylvain / Henry, Gwénaële / Guérin, Sylvie / Alric, Monique / Meunier, Nathalie / Blot, Adeline / Pereira, Bruno / Malpuech-Brugere, Corinne / Remond, Didier / Boirie, Yves / Baniel, Alain / Richard, Ruddy / Dupont, D. / Boudry, Gaëlle

Food Chemistry. 2023 July, v. 415 p.135779-

2023

Abstract: We aimed to assess if casein structure affects its digestion and its subsequent amino acid delivery kinetic. Higher nitrogen levels were recovered in dialysates after in vitro digestions of sodium caseinate (SC, formed of small aggregates) compared to ... ...

Abstract	We aimed to assess if casein structure affects its digestion and its subsequent amino acid delivery kinetic. Higher nitrogen levels were recovered in dialysates after in vitro digestions of sodium caseinate (SC, formed of small aggregates) compared to micellar casein (MC, native form of casein) and calcium caseinate (CC, intermediate structure). Likewise, plasma indispensable amino-acid concentration peak was higher after SC compared to MC or CC ingestion in healthy volunteers in a randomized, double blind, cross-over study. In pigs, gamma-scintigraphy using labelled meals revealed that SC was mainly localized in the proximal part of the stomach whereas MC was distributed in the whole gastric cavity. Caseins were found in both solid and liquid phases and partly hydrolyzed casein in the solid phase shortly after SC drink ingestion. These data support the concept of slow (MC) and rapid (SC) casein depending of casein structure, likely due to their intra-gastric clotting properties.
Keywords	amino acids ; calcium caseinate ; casein ; cross-over studies ; digestion ; food chemistry ; hydrolysis ; ingestion ; liquids ; nitrogen ; sodium caseinate ; stomach ; Milk ; Micellar casein ; Caseinate ; Aminoacidemia ; Coagulation ; AA ; CC ; HGS ; IAA ; iAUC ; MC ; SC ; SEM ; TEM ; TIM-1
Language	English
Dates of publication	2023-07
Publishing place	Elsevier Ltd
Document type	Article ; Online
ZDB-ID	243123-3
ISSN	1873-7072 ; 0308-8146
ISSN (online)	1873-7072
ISSN	0308-8146
DOI	10.1016/j.foodchem.2023.135779
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