PXD007140-2

PXD007140 is an original dataset announced via ProteomeXchange.

Title	Identification of new protein-coding genes with a potential role in the virulence of the plant pathogen Xanthomonas campestris pv. vesicatoria
Description	Bacteria of the genus Xanthomonas are economically important plant pathogens. Pathogenicity of Xanthomonas spp. depends on the type III-secretion system and additional virulence determinants. The number of sequenced Xanthomonas genomes increases rapidly, however, accurate annotation of these genomes is difficult, because it relies on gene prediction programs. In this study, we used a mass-spectrometry (MS)-based approach to identify the proteome of Xanthomonas campestris pv. vesicatoria (Xcv) also known as X. euvesicatoria, a well-studied member of plant-pathogenic Xanthomonadaceae. Results Using different culture conditions, MS-datasets were searched against a six-frame-translated genome database of Xcv. In total, we identified 2,593 proteins covering 55% of the Xcv genome, including 764 hitherto hypothetical proteins. Our proteogenomic approach identified 30 new protein-coding genes and allowed correction of the N-termini of 50 protein-coding genes. For five novel and two N-terminally corrected genes the corresponding proteins were confirmed by immunoblot. Furthermore, our data indicate that two putative type VI-secretion systems encoded in Xcv play no role in bacterial virulence which was experimentally confirmed.
HostingRepository	PRIDE
AnnounceDate	2017-08-17
AnnouncementXML	Submission_2017-08-22_03:24:57.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Andreas Otto
SpeciesList	scientific name: Xanthomonas campestris pv. vesicatoria str. 85-10; NCBI TaxID: 316273;
ModificationList	monohydroxylated residue
Instrument	LTQ Orbitrap; LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2017-07-26 08:46:46	ID requested
1	2017-08-17 06:54:45	announced
⏵ 2	2017-08-22 03:24:58	announced	Updated publication reference for PubMed record(s): 28814272.
3	2024-10-22 04:40:02	announced	2024-10-22: Updated project metadata.

curator keyword: Biological

submitter keyword: Xanthomonas, proteogenome, ortho proteogenimic, genome re-annotation, translational start sites, T3SS, T4SS, T6SS

Andreas Otto
contact affiliation	Dr. Andreas Otto Institute for Microbiology Department of Microbial Proteomics Ernst-Moritz-Arndt-University Greifswald F.-L.-Jahn-Str. 15 17489 Greifswald phone: +49 3834 4205920 fax: +49 3834 4205902
contact email	andreas.otto@uni-greifswald.de
lab head
Andreas Otto
contact affiliation	Institute for Microbiology
contact email	andreas.otto@uni-greifswald.de
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD007140
     1. Label: PRIDE project
     2. Name: Identification of new protein-coding genes with a potential role in the virulence of the plant pathogen Xanthomonas campestris pv. vesicatoria