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Data from: Lacticaseibacillus rhamnosus Strain GG (LGG) Regulate Gut Microbial Metabolites, an In Vitro Study Using Three Mature Human Gut Microbial Cultures in a Simulator of Human Intestinal Microbial Ecosystem (SHIME)

dataset
posted on 2024-02-16, 17:03 authored by Karley K. Mahalak, Jenni Firrman, Jamshed T. Bobokalonov, LinShu Liu

Using the SHIME (an in vitro simulator of the human gut microbiome) we studied changes in the gut metabolome that occurred in response to the administration of the Laticaseibacillus rhamnosus strain GG (LGG). Using fecal inoculum from three healthy human donors, reactors were established representing three colonic regions and both the luminal and mucosal microbiome in those regions. Samples were collected before, during, and after inoculation of the reactors with LGG.

This dataset includes untargeted metabolomics data. Shallow shotgun metagenomic sequencing data can be found in the NCBI Sequence Read Archive associated with BioProject PRJNA893635 : https://www.ncbi.nlm.nih.gov/bioproject/PRJNA893635.

Resources in this dataset:

  • Resource Title: Batch normalized metabolite peak area data File Name: metabolites_individual_samples_batch_norm_non_imputed.csv

  • Resource Title: Sample metadata File Name: LGG2_metadata.csv

Funding

USDA-ARS: 8072-41000-108-000D

History

Data contact name

Narrowe, Adrienne

Data contact email

adrienne.narrowe@usda.gov

Publisher

Ag Data Commons

Temporal Extent Start Date

2018-10-16

Temporal Extent End Date

2019-04-07

Theme

  • Not specified

Geographic Coverage

{"type":"FeatureCollection","features":[{"geometry":{"type":"Point","coordinates":[-75.187092456102,40.078126249741]},"type":"Feature","properties":{}}]}

Geographic location - description

Eastern Regional Research Center, Wyndmoor, PA, USA

ISO Topic Category

  • health

National Agricultural Library Thesaurus terms

intestinal microorganisms; metabolites; in vitro studies; humans; digestive system; metabolome; inoculum; microbiome; metagenomics; metabolomics; probiotics

OMB Bureau Code

  • 005:18 - Agricultural Research Service

OMB Program Code

  • 005:040 - National Research

ARS National Program Number

  • 306

Pending citation

  • No

Public Access Level

  • Public

Preferred dataset citation

Mahalak, Karley K.; Firrman, Jenni; Bobokalonov, Jamshed T.; Liu, LinShu (2023). Data from: Lacticaseibacillus rhamnosus Strain GG (LGG) Regulate Gut Microbial Metabolites, an In Vitro Study Using Three Mature Human Gut Microbial Cultures in a Simulator of Human Intestinal Microbial Ecosystem (SHIME). Ag Data Commons. https://doi.org/10.15482/USDA.ADC/1529131

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