Histone Deacetylase Inhibition by Gut Microbe-Generated Short-Chain Fatty Acids Entrains Intestinal Epithelial Circadian Rhythms

Fawad, Jibraan A.; Luzader, Deborah; Hanson, Gabriel F.; Moutinho, Thomas J.; McKinney, Craig A.; Mitchell, Paul G.; Brown-Steinke, Kathleen; Kumar, Ajay; Park, Miri; Lee, Suengwon; Bolick, David T.; Medlock, Greg L.; Zhao, Jing; Rosselot, Andrew E.; Chou, C. James; Eshleman, Emily M.; Alenghat, Theresa; Hong, Christian I.; Papin, Jason A.; Moore, Sean R.

doi:10.1053/j.gastro.2022.07.051

Cited by 47 publications

(20 citation statements)

References 71 publications

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“…Based on samples from a healthy human cecum, Liu et al further identified that gut microbial methionine impacts circadian clock gene expression and the reactive oxygen species level in the host gastrointestinal tract [18]. Moreover, Fawad et al reported that gut microbe-generated short-chain fatty acids entrained intestinal epithelial circadian rhythms by inhibiting histone deacetylase [67]. Collection of intestinal fluid with a sterile syringe is recommended.…”

Section: Discovery In Host-microbiota Interactionmentioning

confidence: 99%

Colonic Transendoscopic Enteral Tubing Is a New Pathway to Microbial Therapy, Colonic Drainage, and Host–Microbiota Interaction Research

Wang

et al. 2023

JCM

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The limitation of traditional delivery methods for fecal microbiota transplantation (FMT) gave birth to colonic transendoscopic enteral tubing (TET) to address the requirement of frequent FMTs. Colonic TET as a novel endoscopic intervention has received increasing attention in practice since 2015 in China. Emerging studies from multiple centers indicate that colonic TET is a promising, safe, and practical delivery method for microbial therapy and administering medication with high patient satisfaction. Intriguingly, colonic TET has been used to rescue endoscopy-related perforations by draining colonic air and fluid through the TET tube. Recent research based on collecting ileocecal samples through a TET tube has contributed to demonstrating community dynamics in the intestine, and it is expected to be a novel delivery of proof-of-concept in host–microbiota interactions and pharmacological research. The present article aims to review the concept and techniques of TET and to explore microbial therapy, colonic drainage, and microbial research based on colonic TET.

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Section: Discovery In Host-microbiota Interactionmentioning

confidence: 99%

Colonic Transendoscopic Enteral Tubing Is a New Pathway to Microbial Therapy, Colonic Drainage, and Host–Microbiota Interaction Research

Wang

et al. 2023

JCM

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“…7 To date, various methods have been used for constructing classification models in multiclass metabolomics, such as random forests. 8,9 Due to the differences in the principles of these classification methods, conflicting outcomes are observed when different classification methods are applied, even for the same data set. 10,11 Therefore, it is highly necessary to apply an appropriate classification method with superior performance for a specific data set.…”

Section: ■ Introductionmentioning

confidence: 99%

“…To date, various methods have been used for constructing classification models in multiclass metabolomics, such as random forests. , Due to the differences in the principles of these classification methods, conflicting outcomes are observed when different classification methods are applied, even for the same data set. , Therefore, it is highly necessary to apply an appropriate classification method with superior performance for a specific data set. To select the most suitable method, the performance of all classification methods must be assessed using well-established criteria. , Apart from classification methods, methods of identifying metabolic markers are also of importance for the performance of the classification model in multiclass metabolomics. , …”

Section: Introductionmentioning

confidence: 99%

MultiClassMetabo: A Superior Classification Model Constructed Using Metabolic Markers in Multiclass Metabolomics

Yang,

Chen,

Jiang

et al. 2024

Anal. Chem.

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Multiclass metabolomics has become a popular technique for revealing the mechanisms underlying certain physiological processes, different tumor types, or different therapeutic responses. In multiclass metabolomics, it is highly important to uncover the underlying biological information on biosamples by identifying the metabolic markers with the most associations and classifying the different sample classes. The classification problem of multiclass metabolomics is more difficult than that of the binary problem. To date, various methods exist for constructing classification models and identifying metabolic markers consisting of well-established techniques and newly emerging machine learning algorithms. However, how to construct a superior classification model using these methods remains unclear for a given multiclass metabolomic data set. Herein, MultiClassMetabo has been developed for constructing a superior classification model using metabolic markers identified in multiclass metabolomics. MultiClassMetabo can enable online services, including (a) identifying metabolic markers by marker identification methods, (b) constructing classification models by classification methods, and (c) performing a comprehensive assessment from multiple perspectives to construct a superior classification model for multiclass metabolomics. In summary, MultiClassMetabo is distinguished for its capability to construct a superior classification model using the most appropriate method through a comprehensive assessment, which makes it an important complement to other available tools in multiclass metabolomics. MultiClassMetabo can be accessed at http://idrblab.cn/ multiclassmetabo/.

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“…Unlike most HDACi, NaBu can be well-tolerated (7) and can be generated in the gut by microbes (8), maintaining gut health and protecting the host from disease (9)(10)(11). Similar to other HDACi, NaBu inhibits the proliferation of transformed cells by reducing the expression of cyclins, key regulators of the cell cycle (12), and arresting cells in the G0/G1 phase (13).…”

Section: Introductionmentioning

confidence: 99%

Sodium butyrate supresses malignant human mast cell proliferation, downregulates expression of KIT and promotes differentiation

MacDonald

Qian²,

Pundir³

et al. 2023

Front. Allergy

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Sodium butyrate (NaBu) is a class I histone deacetylase inhibitor (HDACi) that can impede the proliferation of transformed cells. Although some HDACi downregulate the expression of the stem cell factor receptor (KIT/CD117), the effect of NaBu on KIT expression and human mast cell proliferation requires further elucidation. In this study, we examined the effects of NaBu on three transformed human mast cell lines, HMC-1.1, HMC-1.2 and LAD2. NaBu (100 µM) inhibited the proliferation and metabolic activity of all three cell lines without significantly affecting their viability, suggesting that although the cells had ceased to divide, they were not yet undergoing apoptosis. Cell cycle analysis using the cell-permeant dye, propidium iodide, indicated that NaBu significantly blocked the cell cycle progression of HMC-1.1 and HMC-1.2 from G1 to G2/M phases. Furthermore, NaBu downregulated the expression of C-KIT mRNA and KIT protein expression in all three cell lines, but this effect was most significant in the HMC-1.1 and HMC-1.2, both of which harbour activating mutations in KIT, which proliferate more rapidly than LAD2. These data support earlier observations showing that human mast cell lines are sensitive to histone deacetylase inhibition. However, our data presents the novel observation that inhibition of cell proliferation by NaBu was not associated with a loss in cell viability but rather an arrest of the cell cycle. Higher concentrations of NaBu led to modest increases in histamine content, tryptase expression, and granularity. In conclusion, NaBu treatment of human mast cell lines led to a modest enhancement of the hallmarks of mature mast cells.

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Histone Deacetylase Inhibition by Gut Microbe-Generated Short-Chain Fatty Acids Entrains Intestinal Epithelial Circadian Rhythms

Cited by 47 publications

References 71 publications

Colonic Transendoscopic Enteral Tubing Is a New Pathway to Microbial Therapy, Colonic Drainage, and Host–Microbiota Interaction Research

Colonic Transendoscopic Enteral Tubing Is a New Pathway to Microbial Therapy, Colonic Drainage, and Host–Microbiota Interaction Research

MultiClassMetabo: A Superior Classification Model Constructed Using Metabolic Markers in Multiclass Metabolomics

Sodium butyrate supresses malignant human mast cell proliferation, downregulates expression of KIT and promotes differentiation

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