PXD054577

PXD054577 is an original dataset announced via ProteomeXchange.

Title	Intragenic DNA inversions expand bacterial coding capacity
Description	Bacteria can generate heterogeneity through phase variation, including enzyme-mediated inversion of specific intergenic regions of genomic DNA. We developed a computation tool that identifies invertible elements using long-read datasets, PhaVa. We identified over 300 ‘intragenic invertons,’ a new class of invertible elements entirely within genes, in both bacteria and archaea. In the gut commensal Bacteroides thetaiotaomicron, we experimentally characterized an intragenic inverton in the thiamine biosynthesis protein thiC. We used mass spectrometry in data-independent acquisition mode to identify and quantify B. theta proteins, including thiC inverton expression at the protein level.
HostingRepository	PRIDE
AnnounceDate	2024-08-06
AnnouncementXML	Submission_2024-08-06_01:12:36.281.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Krystal Lum
SpeciesList	scientific name: Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / NCTC 10582 / E50 / VPI-5482); NCBI TaxID: 226186;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	timsTOF Ultra

Revision	Datetime	Status	ChangeLog Entry
0	2024-08-05 01:10:25	ID requested
⏵ 1	2024-08-06 01:12:36	announced

Dataset with its publication pending

submitter keyword: inverton, DIA,Bacteroides thetaiotaomicron, thiC, thiH, intragenic DNA inversion

Ileana M. Cristea
contact affiliation	Princeton University
contact email	icristea@princeton.edu
lab head
Krystal Lum
contact affiliation	Princeton University
contact email	klum@princeton.edu
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/2024/08/PXD054577

PRIDE project URI

• PRIDE
  1. PXD054577
     1. Label: PRIDE project
     2. Name: Intragenic DNA inversions expand bacterial coding capacity