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dc.contributor.authorGiner-Lamia, J
dc.contributor.authorRobles-Rengel, R
dc.contributor.authorHernandez-Prieto, MA
dc.contributor.authorMuro-Pastor, MI
dc.contributor.authorFlorencio, FJ
dc.contributor.authorFutschik, Matthias
dc.date.accessioned2017-10-30T19:21:06Z
dc.date.available2017-10-30T19:21:06Z
dc.date.issued2017-10-03
dc.identifier.issn0305-1048
dc.identifier.issn1362-4962
dc.identifier.urihttp://hdl.handle.net/10026.1/10118
dc.description.abstract

In cyanobacteria, nitrogen homeostasis is maintained by an intricate regulatory network around transcription factor NtcA. Although mechanisms controlling NtcA activity appear to be well understood, its regulon remains poorly defined. To determine the NtcA regulon during the early stages of nitrogen starvation for the model cyanobacterium Synechocystis sp. PCC 6803, we performed chromatin immunoprecipitation, followed by sequencing (ChIP-seq), in parallel with transcriptome analysis (RNA-seq). Through combining these methods, we determined 51 genes activated and 28 repressed directly by NtcA. In addition to genes associated with nitrogen and carbon metabolism, a considerable number of genes without current functional annotation were among direct targets providing a rich reservoir for further studies. The NtcA regulon also included eight non-coding RNAs, of which Ncr1071, Syr6 and NsiR7 were experimentally validated, and their putative targets were computationally predicted. Surprisingly, we found substantial NtcA binding associated with delayed expression changes indicating that NtcA can reside in a poised state controlled by other factors. Indeed, a role of PipX as modulating factor in nitrogen regulation was confirmed for selected NtcA-targets. We suggest that the indicated poised state of NtcA enables a more differentiated response to nitrogen limitation and can be advantageous in native habitats of Synechocystis.

dc.format.extent11800-11820
dc.format.mediumPrint
dc.languageen
dc.language.isoen
dc.publisherOxford University Press (OUP)
dc.subjectAcclimatization
dc.subjectBacterial Proteins
dc.subjectBase Sequence
dc.subjectBinding Sites
dc.subjectDNA-Binding Proteins
dc.subjectGene Expression Profiling
dc.subjectGene Expression Regulation, Bacterial
dc.subjectGene Ontology
dc.subjectGene Regulatory Networks
dc.subjectGenes, Bacterial
dc.subjectNitrogen
dc.subjectProtein Binding
dc.subjectRegulon
dc.subjectSequence Homology, Amino Acid
dc.subjectSynechocystis
dc.subjectTranscription Factors
dc.titleIdentification of the direct regulon of NtcA during early acclimation to nitrogen starvation in the cyanobacterium Synechocystis sp. PCC 6803
dc.typejournal-article
dc.typeJournal Article
plymouth.author-urlhttps://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000416164300031&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=11bb513d99f797142bcfeffcc58ea008
plymouth.issue20
plymouth.volume45
plymouth.publication-statusPublished online
plymouth.journalNucleic Acids Research
dc.identifier.doi10.1093/nar/gkx860
plymouth.organisational-group/Plymouth
plymouth.organisational-group/Plymouth/Faculty of Health
plymouth.organisational-group/Plymouth/Users by role
dc.publisher.placeEngland
dcterms.dateAccepted2017-09-15
dc.identifier.eissn1362-4962
dc.rights.embargoperiodNot known
rioxxterms.versionofrecord10.1093/nar/gkx860
rioxxterms.licenseref.urihttp://www.rioxx.net/licenses/all-rights-reserved
rioxxterms.licenseref.startdate2017-10-03
rioxxterms.typeJournal Article/Review


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