PXD012047-1

PXD012047 is an original dataset announced via ProteomeXchange.

Title	Proteomic analysis of Aerococcus and Globicatella spp. colonizing polymicrobial urethral catheter biofilms
Description	Both Aerococcus urinae (Au) and Globicatella sanguinis (Gs) colonize the human urinary tract and are in the Aerococcaceae family. These rarely pathogenic Gram-positive bacteria were identified in polymicrobial urethral catheter biofilms (CBs) using 16S rDNA and proteomic analyses in this study. For confirming the identities, Au and Gs strains were isolated from small blood agar colonies derived from the CB extracts. Longitudinal surveys of clinical urine specimens revealed their persistence in the urinary tract and recolonization of newly replaced catheters. Dominant CB cohabitating organisms were Enterobacteriaceae, especially Proteus mirabilis and Escherichia coli. The proteomes of Gs and Au profiled from the in vivo milieu suggest that their energy metabolisms rely on glycolytic, heterolactic fermentation and peptide catabolic pathways. Several PTS sugar uptake and oligopeptide ABC transport systems were also highly abundant in the in vivo proteomes of Au and Gs, indicative to adaptations to nutrients available in urine and exfoliated urothelial cells (protein and proteoglycan breakdown products). Differences in Au and Gs metabolisms pertained to citrate lyase and glycogen (only in the Gs proteome), use of Xfp to degrade D-xylulose-5’-phosphate, and synthesis pathways for enzyme cofactors pyridoxal 6’-phosphate and 4’-phosphopantothenate (the latter only in the Au proteome). Interestingly, predicted metal ion (ZnuA-like) uptake systems were abundant in Gs but not in Au in vivo. Au expressed two LPXTG-anchored surface proteins, one predicted to have a pilin D adhesion motif. We describe how two microorganisms not previously characterized metabolically adapt to the milieu in the catheterized human urinary tract. Whether they are true pathogens or bystanders in CBs needs further investigation.
HostingRepository	PRIDE
AnnounceDate	2019-11-13
AnnouncementXML	Submission_2019-11-12_16:44:39.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Yanbao Yu
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562; scientific name: Globicatella sanguinis; NCBI TaxID: 13076; scientific name: Aerococcus urinae NBRC 15544 = CCUG 36881; NCBI TaxID: 1216979;
ModificationList	No PTMs are included in the dataset
Instrument	LTQ; Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2018-12-13 01:47:45	ID requested
⏵ 1	2019-11-12 16:44:41	announced
2	2024-10-22 03:58:41	announced	2024-10-22: Updated project metadata.

Yu Y, Tsitrin T, Bekele S, Thovarai V, Torralba MG, Singh H, Wolcott R, Doerfert SN, Sizova MV, Epstein SS, Pieper R, Persist in Polymicrobial Urethral Catheter Biofilms Examined in Longitudinal Profiles at the Proteomic Level. Biochem Insights, 12():1178626419875089(2019) [pubmed]

curator keyword: Metaproteomics, Biomedical

submitter keyword: Aerococcus, Globicatella, urinary tract infection, UTI, Urethral catheter biofilms, Proteomics

Yanbao Yu
contact affiliation	J. Craig Venter Institute, Rockville, MD 20850
contact email	yayu@jcvi.org
lab head
Yanbao Yu
contact affiliation	J. Craig Venter Institute
contact email	yayu@jcvi.org
dataset submitter

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/2019/11/PXD012047

PRIDE project URI

• PRIDE
  1. PXD012047
     1. Label: PRIDE project
     2. Name: Proteomic analysis of Aerococcus and Globicatella spp. colonizing polymicrobial urethral catheter biofilms