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PXD017035

PXD017035 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleSimplified Human Intestinal Microbiota (SIHUMIx) LC-MS/MS dataset
DescriptionMany functions in host���microbiota interactions are potentially influenced by intestinal transit times, but little is known about the effects of altered transition times on the composition and functionality of gut microbiota. To analyze these effects, we cultivated the model community SIHUMIx in bioreactors in order to determine the effects of varying transit times (TT) on the community structure and function. After five days of continuous cultivation, we investigated the influence of different medium TT of 12 h, 24 h, and 48 h. For profiling the microbial community, we applied flow cytometric fingerprinting and revealed changes in the community structure of SIHUMIx during the change of TT, which were not associated with changes in species abundances. For pinpointing metabolic alterations, we applied metaproteomics and metabolomics and found, along with shortening the TT, a slight decrease in glycan biosynthesis, carbohydrate, and amino acid metabolism and, furthermore, a reduction in butyrate, methyl butyrate, isobutyrate, valerate, and isovalerate concentrations. Specifically, B. thetaiotaomicron was identified to be affected in terms of butyrate metabolism. However, communities could recover to the original state afterward. This study shows that SIHUMIx showed high structural stability when TT changed���even four-fold. Resistance values remained high, which suggests that TTs did not interfere with the structure of the community to a certain degree.
HostingRepositoryPRIDE
AnnounceDate2024-10-22
AnnouncementXMLSubmission_2024-10-22_05:00:01.931.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterNico Jehmlich
SpeciesList scientific name: Erysipelatoclostridium ramosum DSM 1402; NCBI TaxID: 445974; scientific name: Anaerostipes caccae DSM 14662; NCBI TaxID: 411490; scientific name: Bifidobacterium longum NCC2705; NCBI TaxID: 206672; scientific name: Clostridium butyricum DSM 10702; NCBI TaxID: 1316931; scientific name: Escherichia coli str. K-12 substr. MG1655; NCBI TaxID: 511145; scientific name: Bacteroides thetaiotaomicron; NCBI TaxID: 818; scientific name: Blautia producta ATCC 27340 = DSM 2950; NCBI TaxID: 1121114; scientific name: Lactobacillus plantarum; NCBI TaxID: 1590;
ModificationListmonohydroxylated residue; iodoacetamide derivatized residue
InstrumentQ Exactive
Dataset History
RevisionDatetimeStatusChangeLog Entry
02020-01-09 05:30:03ID requested
12020-01-13 01:09:46announced
22024-10-22 05:00:04announced2024-10-22: Updated project metadata.
Publication List
10.3390/microorganisms7120641;
Keyword List
ProteomeXchange project tag: benchmarking, machine learning
curator keyword: Biological
submitter keyword: SIHUMIx, microbial community, bioreactor,In vitro model, intestinal microbiota, metaproteomics
Contact List
Nico Jehmlich
contact affiliationHelmholtz Centre for Environmental Research GmbH - UFZ Department of Molecular Systems Biology Permoserstra��e 15, 04318 Leipzig, Germany Phone +49 341 235 4767 nico.jehmlich@ufz.de, www.ufz.de
contact emailnico.jehmlich@ufz.de
lab head
Nico Jehmlich
contact affiliationHelmholtz-Centre for Environmental Research - UFZ
contact emailnico.jehmlich@ufz.de
dataset submitter
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Dataset FTP location
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PRIDE project URI
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