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dc.contributor.authorSteglich, Cen
dc.contributor.authorFutschik, MEen
dc.contributor.authorLindell, Den
dc.contributor.authorVoss, Ben
dc.contributor.authorChisholm, SWen
dc.contributor.authorHess, WRen
dc.date.accessioned2017-02-07T19:49:18Z
dc.date.available2017-02-07T19:49:18Z
dc.date.issued2008-08-29en
dc.identifier.urihttp://hdl.handle.net/10026.1/8406
dc.description.abstract

Prochlorococcus, an extremely small cyanobacterium that is very abundant in the world's oceans, has a very streamlined genome. On average, these cells have about 2,000 genes and very few regulatory proteins. The limited capability of regulation is thought to be a result of selection imposed by a relatively stable environment in combination with a very small genome. Furthermore, only ten non-coding RNAs (ncRNAs), which play crucial regulatory roles in all forms of life, have been described in Prochlorococcus. Most strains also lack the RNA chaperone Hfq, raising the question of how important this mode of regulation is for these cells. To explore this question, we examined the transcription of intergenic regions of Prochlorococcus MED4 cells subjected to a number of different stress conditions: changes in light qualities and quantities, phage infection, or phosphorus starvation. Analysis of Affymetrix microarray expression data from intergenic regions revealed 276 novel transcriptional units. Among these were 12 new ncRNAs, 24 antisense RNAs (asRNAs), as well as 113 short mRNAs. Two additional ncRNAs were identified by homology, and all 14 new ncRNAs were independently verified by Northern hybridization and 5'RACE. Unlike its reduced suite of regulatory proteins, the number of ncRNAs relative to genome size in Prochlorococcus is comparable to that found in other bacteria, suggesting that RNA regulators likely play a major role in regulation in this group. Moreover, the ncRNAs are concentrated in previously identified genomic islands, which carry genes of significance to the ecology of this organism, many of which are not of cyanobacterial origin. Expression profiles of some of these ncRNAs suggest involvement in light stress adaptation and/or the response to phage infection consistent with their location in the hypervariable genomic islands.

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dc.format.extente1000173 - ?en
dc.languageengen
dc.language.isoengen
dc.subjectDNA, Intergenicen
dc.subjectGene Expression Regulation, Bacterialen
dc.subjectGenome, Bacterialen
dc.subjectNucleic Acid Conformationen
dc.subjectOpen Reading Framesen
dc.subjectPhototrophic Processesen
dc.subjectProchlorococcusen
dc.subjectRNA, Bacterialen
dc.subjectRNA, Untranslateden
dc.subjectTranscription, Geneticen
dc.titleThe challenge of regulation in a minimal photoautotroph: non-coding RNAs in Prochlorococcus.en
dc.typeJournal Article
plymouth.author-urlhttps://www.ncbi.nlm.nih.gov/pubmed/18769676en
plymouth.issue8en
plymouth.volume4en
plymouth.publication-statusPublished onlineen
plymouth.journalPLoS Geneten
dc.identifier.doi10.1371/journal.pgen.1000173en
plymouth.organisational-group/Plymouth
plymouth.organisational-group/Plymouth/00 Groups by role
plymouth.organisational-group/Plymouth/00 Groups by role/Academics
plymouth.organisational-group/Plymouth/Faculty of Medicine and Dentistry
plymouth.organisational-group/Plymouth/Faculty of Medicine and Dentistry/School of Biomedical Sciences
plymouth.organisational-group/Plymouth/REF 2021 Researchers by UoA
plymouth.organisational-group/Plymouth/REF 2021 Researchers by UoA/UoA01 Clinical Medicine
dc.publisher.placeUnited Statesen
dcterms.dateAccepted2008-07-17en
dc.identifier.eissn1553-7404en
dc.rights.embargoperiodNot knownen
rioxxterms.versionofrecord10.1371/journal.pgen.1000173en
rioxxterms.licenseref.urihttp://www.rioxx.net/licenses/all-rights-reserveden
rioxxterms.licenseref.startdate2008-08-29en
rioxxterms.typeJournal Article/Reviewen


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