PXD013509

PXD013509 is an original dataset announced via ProteomeXchange.

Title	System OMICs analysis of Mycobacterium tuberculosis Beijing B0/W148 cluster
Description	Mycobacterium tuberculosis Beijing B0/W148 is one of the most widely distributed clusters in the Russian Federation and in some countries of the former Soviet Union. Recent studies have improved our understanding of the reasons for the “success” of the cluster but this area remains incompletely studied. Here, we focused on the system omics analysis of the RUS_B0 strain belonging to the Beijing B0/W148 cluster. Completed genome sequence of RUS_B0 (CP020093.1) and a collection of WGS for 200 cluster strains from the NCBI were used to describe the main genetic features of the population, as well as the level of resistance. In turn, proteome and transcriptome studies allowed to confirm the genomic data and to identify a number of finds that have not previously been described. Our results demonstrate that expression of the whiB6 which contains cluster-specific polymorphism (T4338371G) increased by more than 50 times in RUS_B0. Additionally, the level of ethA transcripts in RUS_B0 is increased almost 30 times compared to the H37Rv. Start sites for 10 genes were corrected based on the combination of proteomic and transcriptomic data. Additionally, based on the omics approach, we identified 5 new genes.
HostingRepository	PRIDE
AnnounceDate	2020-05-26
AnnouncementXML	Submission_2020-05-26_14:15:37.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Alexander Smolyakov
SpeciesList	scientific name: Mycobacterium tuberculosis; NCBI TaxID: 1773;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2019-04-15 08:22:00	ID requested
⏵ 1	2020-05-26 14:15:38	announced

Bespyatykh J, Shitikov E, Guliaev A, Smolyakov A, Klimina K, Veselovsky V, Malakhova M, Arapidi G, Dogonadze M, Manicheva O, Bespiatykh D, Mokrousov I, Zhuravlev V, Ilina E, Govorun V, System OMICs analysis of Mycobacterium tuberculosis Beijing B0/W148 cluster. Sci Rep, 9(1):19255(2019) [pubmed]

submitter keyword: Mycobacterium tuberculosis, Beijing B0/W148, proteomics, proteogenomics, Label-free proteomic analysis

Shitikov E.A.
contact affiliation	Laboratory of molecular genetics of microorganisms, Federal research and clinical center of physical-chemical medicine of Federal Medical Biological Agency, Moscow, Russia
contact email	egorshtkv@gmail.com
lab head
Alexander Smolyakov
contact affiliation	Moscow Institute of Physics and Technology
contact email	sashasmolykov@gmail.com
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/2020/05/PXD013509

PRIDE project URI

• PRIDE
  1. PXD013509
     1. Label: PRIDE project
     2. Name: System OMICs analysis of Mycobacterium tuberculosis Beijing B0/W148 cluster