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Transient osmotic perturbation causes long-term alteration to the gut microbiota

ABSTRACT: Assessing recovery of the mouse gastrointestinal proteome after PEG-induced diarrhea.

INSTRUMENT(S): LTQ Orbitrap Elite

ORGANISM(S): Mus Musculus (mouse)

SUBMITTER: Ellen Casavant

LAB HEAD: Joshua E Elias

PROVIDER: PXD009364 | Pride | 2019-11-12

REPOSITORIES: pride

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			Action	DRS
	Metadata_humanized_CT_proteomics_all_detail.xlsx	Xlsx
	e011617.mzML	Mzml
	e011617.mzXML	Mzxml
	e011617.mzid.gz	Mzid
	e011617.pride.mgf.gz	Mgf

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Publications

Transient Osmotic Perturbation Causes Long-Term Alteration to the Gut Microbiota.

Tropini Carolina C Moss Eli Lin EL Merrill Bryan Douglas BD Ng Katharine Michelle KM Higginbottom Steven Kyle SK Casavant Ellen Pun EP Gonzalez Carlos Gutierrez CG Fremin Brayon B Bouley Donna Michelle DM Elias Joshua Eric JE Bhatt Ami Siddharth AS Huang Kerwyn Casey KC Sonnenburg Justin Laine JL

Cell 20180601 7

Osmotic diarrhea is a prevalent condition in humans caused by food intolerance, malabsorption, and widespread laxative use. Here, we assess the resilience of the gut ecosystem to osmotic perturbation at multiple length and timescales using mice as model hosts. Osmotic stress caused reproducible extinction of highly abundant taxa and expansion of less prevalent members in human and mouse microbiotas. Quantitative imaging revealed decimation of the mucus barrier during osmotic perturbation, follow ...[more]

PMID: 29906449

Similar Datasets

Transient Osmotic Perturbation Causes Long-Term Alteration to the Gut Microbiota.

Project description:Osmotic diarrhea is a prevalent condition in humans caused by food intolerance, malabsorption, and widespread laxative use. Here, we assess the resilience of the gut ecosystem to osmotic perturbation at multiple length and timescales using mice as model hosts. Osmotic stress caused reproducible extinction of highly abundant taxa and expansion of less prevalent members in human and mouse microbiotas. Quantitative imaging revealed decimation of the mucus barrier during osmotic perturbation, followed by recovery. The immune system exhibited temporary changes in cytokine levels and a lasting IgG response against commensal bacteria. Increased osmolality prevented growth of commensal strains in vitro, revealing one mechanism contributing to extinction. Environmental availability of microbiota members mitigated extinction events, demonstrating how species reintroduction can affect community resilience. Our findings (1) demonstrate that even mild osmotic diarrhea can cause lasting changes to the microbiota and host and (2) lay the foundation for interventions that increase system-wide resilience.

| S-EPMC6061967 | biostudies-literature

Capsulized fecal microbiota transportation ameliorates post-weaning diarrhea through modulating the gut microbiota in piglets

Project description:Early-weaning-induced stress causes diarrhea, thereby reduces growth performance of piglets. Gut bacterial dysbiosis emerges as a leading cause of post-weaning diarrhea. The present study was aimed to investigate the effect of capsulized fecal microbiota transportation (FMT) on gut bacterial community, immune response and gut barrier function of weaned piglets. Thirty-two were randomly divided into two groups fed with basal diet for 21 days. Recipient group was inoculated orally with capsulized fecal microbiota of health Tibetan pig daily morning during whole period of trial, while control group was given orally empty capsule. The results showed that the F/G ratio, diarrhea ratio, diarrhea index, and histological damage score of recipient piglets were significantly decreased. FMT treatment also significantly increased the colon length of piglets. Furthermore, the relative abundances of Firmicutes, Euryarchaeota, Tenericutes, Lactobacillus, Methanobrevibacter and Sarcina in colon of recipient piglets were increased, and the relative abundances of Campylobacter, Proteobacteria, and Melainabacteria were significantly decreased compared with control group.

2019-09-17 | GSE137470 | GEO

Routine habitat change: a source of unrecognized transient alteration of intestinal microbiota in laboratory mice.

Project description:The mammalian intestine harbors a vast, complex and dynamic microbial population, which has profound effects on host nutrition, intestinal function and immune response, as well as influence on physiology outside of the alimentary tract. Imbalance in the composition of the dense colonizing bacterial population can increase susceptibility to various acute and chronic diseases. Valuable insights on the association of the microbiota with disease critically depend on investigation of mouse models. Like in humans, the microbial community in the mouse intestine is relatively stable and resilient, yet can be influenced by environmental factors. An often-overlooked variable in research is basic animal husbandry, which can potentially alter mouse physiology and experimental outcomes. This study examined the effects of common husbandry practices, including food and bedding alterations, as well as facility and cage changes, on the gut microbiota over a short time course of five days using three culture-independent techniques, quantitative PCR, terminal restriction fragment length polymorphism (TRFLP) and next generation sequencing (NGS). This study detected a substantial transient alteration in microbiota after the common practice of a short cross-campus facility transfer, but found no comparable alterations in microbiota within 5 days of switches in common laboratory food or bedding, or following an isolated cage change in mice acclimated to their housing facility. Our results highlight the importance of an acclimation period following even simple transfer of mice between campus facilities, and highlights that occult changes in microbiota should be considered when imposing husbandry variables on laboratory animals.

| S-EPMC3474821 | biostudies-other

Transcriptional network analysis of osmotic and ionic responses in Arabidopsis

Project description:Salt and PEG tolerances of 70 Arabidopsis accessions were screened. Five commonly used Arabidopsis accessions （C24, Col, Ler, SHA, Ws） were selected for further analysis. The results showed that SHA and C24 were relatively tolerant, while Ler and Ws were relatively susceptible to both salt and PEG stress. Transcriptomic analysis revealed that 4105 to 8782 genes exhibited significant expression level changes among five accessions in the presence and absence of stress treatments. The function of these genes were involved in stress response, ROS and metabolic pathways. The detailed networks affected by salt and osmotic stresses were dissected.

2021-04-27 | GSE113950 | GEO

Identifying fecal host biomarkers for the presence and severity of Clostridioides difficile infection using top-down proteomics

Project description:Clostridioides difficile is a major cause of healthcare-associated diarrhea in adult patients. Laboratory diagnosis of C. difficile infection (CDI) is challenging as there is no single test combining high sensitivity and specificity, rapid turnaround time and cost efficiency. They also offer no or little correlation with the clinical outcome. Recently, host-based methods have shown satisfactory performance for the diagnosis of infectious diseases. The aim of this study was to discover CDI-specific host biomarkers that correlate with disease stage and severity.

2021-09-09 | PXD020117 | Pride

Mitochondrial perturbation in the intestine causes microbiota-dependent injury and gene signatures discriminative of inflammatory disease

Project description:Single-cell RNA-sequencing (scRNA-seq) data was generated from colonic tissue from Hsp60Δ/ΔIEC and Hsp60fl/fl mice at day 8 enriched in intestinal epithelial cells (IECs).

2024-07-10 | E-MTAB-14206 | biostudies-arrayexpress

15N labeling of mouse microbiota

Project description:This study investigated the in vivo dynamics of the microbiome using metaproteomics coupled with protein-SIP in mice.

2021-08-26 | PXD017451 | Pride

Transcriptome analysis of Arabidopsis thaliana shoots and roots, exposed to PEG-induced osmotic shock, PEG+Histidine, PEG+SHAM [20190613_174740_sham_cont]

Project description:In order to better understand the context of root water stress and its relationship to other stresses, I undertook an evaluation of osmotic water stress by transcriptome analyses. Whole transcriptome MARSeq (Diego Adhemar Jaitin, 2017) analysis can enable us to study the changes in gene expression (changes in transcript prevalence) in depth under different treatments. It is a cost effective method to develop transcriptional activity. It uses relatively small amounts of RNA and reads sequences from the 3’-polyA containing end. This method can reveal underlying trends that can help us understand the less obvious processes happening in our system. To carry this out I processed whole transcriptome data separately from WT seedling roots exposure to PEG, and from roots under 30% PEG + 5mM HIS, 30% PEG + 1mM SHAM for 0, 1, 2, 3 h.

2021-05-26 | GSE152457 | GEO

Transcriptome analysis of Arabidopsis thaliana shoots and roots, exposed to PEG-induced osmotic shock, PEG+Histidine, PEG+SHAM [20190311_172119_Peg_SHAMf1_res]

2021-05-26 | GSE152456 | GEO

Sequence database choice significantly affects taxonomic and functional metaproteomic results in gut microbiota studies

Project description:Elucidating the role of gut microbiota in physiological and pathological processes has recently emerged as a key research aim in life sciences. In this respect, metaproteomics (the study of the whole protein complement of a microbial community) can provide a unique contribution by revealing which functions are actually being expressed by specific microbial taxa. However, its wide application to gut microbiota research has been hindered by challenges in data analysis, especially related to the choice of the proper sequence databases for protein identification. Here we present a systematic investigation of variables concerning database construction and annotation, and evaluate their impact on human and mouse gut metaproteomic results. We found that both publicly available and experimental metagenomic databases lead to the identification of unique peptide assortments, suggesting parallel database searches as a mean to gain more complete information. Taxonomic and functional results were revealed to be strongly database-dependent, especially when dealing with mouse samples. As a striking example, in mouse the Firmicutes/Bacteroidetes ratio varied up to 10-fold depending on the database used. Finally, we provide recommendations regarding metagenomic sequence processing aimed at maximizing gut metaproteome characterization, and contribute to identify an optimized pipeline for metaproteomic data analysis.

2016-10-10 | PXD004039 | Pride