PXD001640

PXD001640 is an original dataset announced via ProteomeXchange.

Title	Pervasive cis-antisense transcription negatively regulates gene expression in E. coli K12 in response to environmental changes
Description	cis-antisense RNAs (cis-asRNAs) in prokaryotes are more pervasive than originally thought. However, little is known about their expression patterns and functions. Here we determined transcriptomes and proteomes of E. coli at multiple time points in five culture conditions using directional RNA-seq and tandem mass spectrometry. We found that a highly varying portion (27.2%~90.8%) of transcribed genes had cis-asRNAs dependent on growth phases and culture conditions, and that almost all transcribed genes changed their cis-asRNA levels relative to the mRNA level at different growth phases and culture conditions. Intriguingly, the correlation between the protein and mRNA levels of genes is abolished the increasing cis-asRNA levels relative to the mRNA levels, suggesting that cis-asRNAs might directly or indirectly inhibit translation by forming duplexes with mRNAs. All data sets are available for data mining from a unified resource to support further biological discoveries and insights into cis-asRNA-mediated gene expressional regulation.
HostingRepository	PRIDE
AnnounceDate	2022-02-28
AnnouncementXML	Submission_2022-02-28_04:21:45.907.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD001640
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Ehsan Tabari
SpeciesList	scientific name: Escherichia coli str. K-12 substr. MG1655; NCBI TaxID: 511145;
ModificationList	Oxidation
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2015-01-02 02:26:53	ID requested
⏵ 1	2022-02-28 04:21:46	announced

Dataset with its publication pending

curator keyword: Biological

submitter keyword: Escherichia Coli, Antisense, RNA, Proteomics,

Zhengchang Su
contact affiliation	Department of Bioinformatics and Genomics, College of Computing and Informatics, The University of North Carolina at Charlotte, 9201 University City Blvd., Charlotte, NC 28223, USA
contact email	zcsu@uncc.edu
lab head
Ehsan Tabari
contact affiliation	UNC Charlotte
contact email	sseyedit@uncc.edu
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD001640
     1. Label: PRIDE project
     2. Name: Pervasive cis-antisense transcription negatively regulates gene expression in E. coli K12 in response to environmental changes