PXD048225

PXD048225 is an original dataset announced via ProteomeXchange.

Title	Adaptive Laboratory Evolution of E. coli towards usage of fluoroindole
Description	Although fluorine is abundant in the earth’s crust, it is scarcely found in biomolecules. Adaptive laboratory evolution (ALE) experiments were conducted to introduce organofluorine into living microorganisms. By cultivating Escherichia coli with fluorinated indole analogs, microbial cells evolved that relinquished their dependence on indole and are instead capable of utilizing either 6-fluoroindole (6Fi) or 7-fluoroindole (7Fi) for growth (TrpS-catalyzed in-situ conversion of fluoroindole into fluorotryptophan (FTrp) and TrpRS-catalyzed incorporation of FTrp in context of protein biosynthesis). Consistent and complete adaptation of microbial populations was achieved and the quantitative proteome-wide replacement of Trp by either 6FTrp or 7FTrp was confirmed by nano-LC-MSMS. The dataset comprises the ancestral strain TUB00, two positive controls W-TUB165 and Ind-TUB165 (adapted to grow on tryptophan and indole), three 6Fi adapted lineages 6TUB128-OC, 6TUB165-MB4, 6TUB165-MB3 and two 7Fi adapted lineages 7TUB165-OC and 7TUB165-MB.
HostingRepository	PRIDE
AnnounceDate	2024-01-08
AnnouncementXML	Submission_2024-01-08_09:58:07.944.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Lorenz Adrian
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562;
ModificationList	No PTMs are included in the dataset
Instrument	LTQ Orbitrap Velos

Revision	Datetime	Status	ChangeLog Entry
0	2024-01-03 08:19:38	ID requested
⏵ 1	2024-01-08 09:58:08	announced

10.3389/FSYBI.2023.1345634;

submitter keyword: 7-fluoroindole, E. coli, Adaptive Laboratory Evolution (ALE),6-fluoroindole, xenonutrient, nanoLC-MS/MS

Beate Koksch
contact affiliation	Freie Universität Berlin; Department of Biology, Chemistry, Pharmacy; Institute of Chemistry and Biochemistry; Berlin/Germany
contact email	beate.koksch@fu-berlin.de
lab head
Lorenz Adrian
contact affiliation	Helmholtz Centre for Environmental Research - UFZ
contact email	lorenz.adrian@ufz.de
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/2024/01/PXD048225

PRIDE project URI

• PRIDE
  1. PXD048225
     1. Label: PRIDE project
     2. Name: Adaptive Laboratory Evolution of E. coli towards usage of fluoroindole