PXD035873-1

PXD035873 is an original dataset announced via ProteomeXchange.

Title	Integrated omics reveal time-resolved insights into T4 phage infection of E. coli on proteome and transcriptome level
Description	Bacteriophages are highly abundant viruses of bacteria. The major role of phages in microbial ecology to shape bacterial communities and their emerging medical potential as antibacterial agents have triggered a rebirth of phage research. It is of particular interest to understand the molecular mechanisms by which phages gain control over their host. Omics technologies such as next-generation sequencing and protein-profiling technologies can provide novel insights into transcriptional and translational events occurring during the infection process. Thereby, the temporal organization of the transcriptome and proteome of the phage and their bacterial hosts can be monitored. In this study, we performed next-generation sequencing and proteomics to study the transcriptome and proteome of the T4 phage and its host during the infection in a time-resolved manner. Our data shows the temporally resolved appearance of bacteriophage T4 transcripts and proteins, confirming previously described subgrouping of T4 gene products into early, middle and late infection phases. We observe specific early transcripts giving rise to middle or late proteins indicating the existence of previously not reported post-transcriptional regulatory mechanisms controlling the translation of T4 mRNAs. Moreover, we investigated the stability of E. coli-originated transcripts and proteins in the course of infection, identifying degradation of E. coli transcripts and preservation of the host proteome. This study provides the first comprehensive insights into the transcriptomic and proteomic takeover by the bacteriophage T4, exemplifying the power and value of high-throughput technologies to simultaneously characterize multiple gene expression events. Moreover, we created a user-friendly application available to the entire scientific community to access gene expression patterns for their host and phage genes of interest.
HostingRepository	PRIDE
AnnounceDate	2022-09-19
AnnouncementXML	Submission_2022-09-19_06:46:45.708.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Timo Glatter
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Exploris 480

Revision	Datetime	Status	ChangeLog Entry
0	2022-08-08 01:54:35	ID requested
⏵ 1	2022-09-19 06:46:46	announced
2	2023-11-14 08:57:36	announced	2023-11-14: Updated project metadata.

10.1128/MSYSTEMS.00046-21;

submitter keyword: Bateriophage T4, E.coli

Timo Glatter
contact affiliation	Max Planck Institute for Terrestrial Microbiology Marburg Germany
contact email	glatter@mpi-marburg.mpg.de
lab head
Timo Glatter
contact affiliation	MPI Marburg
contact email	glatter@mpi-marburg.mpg.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/2022/09/PXD035873

PRIDE project URI

• PRIDE
  1. PXD035873
     1. Label: PRIDE project
     2. Name: Integrated omics reveal time-resolved insights into T4 phage infection of E. coli on proteome and transcriptome level