PXD016271

PXD016271 is an original dataset announced via ProteomeXchange.

Title	Proteomics Study of Filamentous Persisters from Evo3A Evolved Populations during Ampicillin Treatment and Resuscitation
Description	Proteomics is the most suitable tool to study persisters with their complex underlying molecular mechanisms from a system-level perspective, but the number of persisters that present naturally is too few for proteomics analysis. Here, we utilized Evo3A, an evolved population with enriched persisters fraction from a recent adaptive laboratory evolution experiment, to study the mechanisms of persistence during ampicillin treatment and resuscitation. Interestingly, the enriched persisters on Evo3A exhibit filamentous morphology upon treatment with ampicillin, and the filaments are getting longer over time. Time-course proteomics study revealed that proteins involved in major carbohydrate metabolism are up-regulated, in particular those involved in the oxidative stress response and act as cellular response to DNA damage. As opposed to the proteome profile during antibiotic treatment, proteins involved in major metabolic processes and ATP generation are down-regulated, while translational proteins and porins are up-regulated in the filaments during resuscitation.
HostingRepository	PRIDE
AnnounceDate	2020-07-30
AnnouncementXML	Submission_2020-07-30_06:02:36.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Jordy Evan Sulaiman
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562;
ModificationList	No PTMs are included in the dataset
Instrument	LTQ

Revision	Datetime	Status	ChangeLog Entry
0	2019-11-14 01:56:31	ID requested
1	2020-07-12 23:03:50	announced
2	2020-07-29 22:27:13	announced	2020-07-30: Updated publication reference for PubMed record(s): 32723793.
3	2020-07-30 05:35:27	announced	2020-07-30: Updated publication reference for PubMed record(s): 32723793. 2020-07-30: Updated publication reference for PubMed record(s): 32719661, 32723793.
⏵ 4	2020-07-30 06:02:37	announced	2020-07-30: Updated project metadata.

Sulaiman JE, Lam H, Proteomic Study of the Survival and Resuscitation Mechanisms of Filamentous Persisters in an Evolved Escherichia coli Population from Cyclic Ampicillin Treatment. mSystems, 5(4):(2020) [pubmed]

submitter keyword: antibiotic, ampicillin, β-lactam, persisters, resuscitation, filaments, proteomics

Henry Lam
contact affiliation	Chemical and Biological Engineering, The Hong Kong University of Science and Technology (HKUST), Hong Kong
contact email	kehlam@ust.hk
lab head
Jordy Evan Sulaiman
contact affiliation	The Hong Kong University of Science and Technology (HKUST)
contact email	jesulaiman@connect.ust.hk
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/2020/07/PXD016271

PRIDE project URI

• PRIDE
  1. PXD016271
     1. Label: PRIDE project
     2. Name: Proteomics Study of Filamentous Persisters from Evo3A Evolved Populations during Ampicillin Treatment and Resuscitation