PXD006787

PXD006787 is an original dataset announced via ProteomeXchange.

Title	Proteogenomic study of Clavibacter michiganensis subsp. michiganensis strain NCPPB382
Description	Clavibacter michiganensis subsp. michiganensis is an important Gram-positive phytopathogenic bacteria that causes bacterial wilt and canker in tomato. The genome of the type strain, NCPPB382, has been sequenced and annotated, however comparative genomics suggests that certain regions are under- or misannotated. In order to improve the genome annotation, we have undertaken a proteogenomic study of this important pathogen. Samples were grown in culture and the proteome of the pellet and supernatant were analyzed separately using shotgun HPLC-MS/MS. These proteomics datasets were analyzed and a number of missing gene were found and a number of existing gene calls were modified.
HostingRepository	PRIDE
AnnounceDate	2019-01-31
AnnouncementXML	Submission_2019-01-31_04:21:31.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Paul Stodghill
SpeciesList	scientific name: Clavibacter michiganensis subsp. michiganensis NCPPB 382; NCBI TaxID: 443906;
ModificationList	methylthiolated residue; monohydroxylated residue
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2017-06-23 01:36:14	ID requested
⏵ 1	2019-01-31 04:21:32	announced

Peritore-Galve FC, Schneider DJ, Yang Y, Thannhauser TW, Smart CD, Stodghill P, Proteome Profile and Genome Refinement of the Tomato-Pathogenic Bacterium Clavibacter michiganensis subsp. michiganensis. Proteomics, 19(7):e1800224(2019) [pubmed]

submitter keyword: Proteogenomics, Clavibacter michiganensis subsp. michiganensis, HPLC-MSMS

Paul Stodghill
contact affiliation	Emerging Pests and Pathogens Researh Unit Robert W. Holley Center, USDA-ARS-NEA 538 Tower Road, Ithaca, NY 14853
contact email	paul.stodghill@ars.usda.gov
lab head
Paul Stodghill
contact affiliation	USDA-ARS
contact email	paul.stodghill@ars.usda.gov
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD006787
     1. Label: PRIDE project
     2. Name: Proteogenomic study of Clavibacter michiganensis subsp. michiganensis strain NCPPB382