PXD005759

PXD005759 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Metaproteomics of an artificial microbiota reference with LTQ Orbitrap-XL
Description	This project provides tandem mass spectrometry datasets of an artificial microbiota composed of 24 microbial strains: Bacillus cereus ATCC 14579, Bacillus subtilis ATCC 6633, Bacillus thuringiensis DSM 5815, Bordetella parapertussis Bpp5, Cellulophaga lytica DSM 7489, Deinococcus deserti VCD115, Deinococcus geothermalis DSM 11300, Deinococcus proteolyticus DSM 20540, Kineococcus radiotolerans SRS30216, Marivirga tractuosa DSM 4126, Oceanibulbus indolifex HEL-45, Oceanicola granulosus HTCC2516, Phaeobacter inhibens DSM 17395, Pseudomonas putida mt-2 KT2440, Pseudopedobacter saltans DSM 12145, Roseobacter denitrificans OCh 114, Roseovarius nubinhibens ISM, Ruegeria pomeroyi DSS-3, Sagittula stellata E 37, Salmonella bongori NCTC 12419, Shigella flexneri 2a 2457T, Sphingomonas wittichii RW1, Staphylococcus carnosus TM300, Vibrio harveyi ATCC 14126
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:48:30.863.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD005759
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Jean ARMENGAUD
SpeciesList	scientific name: Roseovarius nubinhibens ISM; NCBI TaxID: 89187; scientific name: Phaeobacter gallaeciensis (strain ATCC 700781 / DSM 17395 / CIP 105210 / NBRC 16654 / BS107) (Roseobacter gallaeciensis); NCBI TaxID: 391619; scientific name: Salmonella bongori NCTC 12419; NCBI TaxID: 218493; scientific name: Sphingomonas wittichii RW1; NCBI TaxID: 392499; scientific name: Deinococcus proteolyticus MRP; NCBI TaxID: 693977; scientific name: Kineococcus radiotolerans SRS30216 = ATCC BAA-149; NCBI TaxID: 266940; scientific name: Ruegeria pomeroyi DSS-3; NCBI TaxID: 246200; scientific name: Pseudomonas putida KT2440; NCBI TaxID: 160488; scientific name: Deinococcus deserti (strain VCD115 / DSM 17065 / LMG 22923); NCBI TaxID: 546414; scientific name: Pseudopedobacter saltans DSM 12145; NCBI TaxID: 762903; scientific name: Oceanicola granulosus HTCC2516; NCBI TaxID: 314256; scientific name: Cellulophaga lytica DSM 7489; NCBI TaxID: 867900; scientific name: Bordetella parapertussis Bpp5; NCBI TaxID: 1208660; scientific name: Bacillus cereus (strain ATCC 14579 / DSM 31); NCBI TaxID: 226900; scientific name: Oceanibulbus indolifex HEL-45; NCBI TaxID: 391624; scientific name: Vibrio harveyi NBRC 15634 = ATCC 14126; NCBI TaxID: 1219071; scientific name: Bacillus thuringiensis serovar berliner ATCC 10792; NCBI TaxID: 527031; scientific name: Shigella flexneri 2a str. 2457T; NCBI TaxID: 198215; scientific name: Staphylococcus carnosus subsp. carnosus TM300; NCBI TaxID: 396513; scientific name: Marivirga tractuosa DSM 4126; NCBI TaxID: 643867; scientific name: Roseobacter denitrificans (strain ATCC 33942 / OCh 114) (Erythrobacter sp. (strain OCh 114)) (Roseobacter denitrificans); NCBI TaxID: 375451; scientific name: Deinococcus geothermalis DSM 11300; NCBI TaxID: 319795; scientific name: Bacillus subtilis subsp. spizizenii ATCC 6633; NCBI TaxID: 703612; scientific name: Sagittula stellata E-37; NCBI TaxID: 388399;
ModificationList	Oxidation; Carbamidomethyl
Instrument	LTQ Orbitrap XL

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2017-01-23 01:10:25	ID requested
1	2023-06-02 07:24:13	announced
⏵ 2	2023-11-14 08:48:39	announced	2023-11-14: Updated project metadata.

Publication List

10.6019/PXD005759;
Mappa C, Alpha-Bazin B, Pible O, Armengaud J, Mix24X, a Lab-Assembled Reference to Evaluate Interpretation Procedures for Tandem Mass Spectrometry Proteotyping of Complex Samples. Int J Mol Sci, 24(10):(2023) [pubmed]

10.6019/PXD005759;

Mappa C, Alpha-Bazin B, Pible O, Armengaud J, Mix24X, a Lab-Assembled Reference to Evaluate Interpretation Procedures for Tandem Mass Spectrometry Proteotyping of Complex Samples. Int J Mol Sci, 24(10):(2023) [pubmed]

Keyword List

curator keyword: Metaproteomics, Biological
submitter keyword: shotgun proteomics
whole proteome
metaproteomics

curator keyword: Metaproteomics, Biological

submitter keyword: shotgun proteomics

whole proteome

metaproteomics

Contact List

Jean ARMENGAUD
contact affiliation	CEA, DRF, IBiTec-S, SPI, Li2D, Laboratory "Innovative technologies for Detection and Diagnostics"
contact email	jean.armengaud@cea.fr
lab head
Jean ARMENGAUD
contact affiliation	Li2D
contact email	jean.armengaud@cea.fr
dataset submitter

Full Dataset Link List

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2023/06/PXD005759
PRIDE project URI

Dataset FTP location
NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2023/06/PXD005759

PRIDE project URI

Repository Record List

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