Cultivation driven transcriptomic changes in the wild-type and mutant strains of Rhodospirillum rubrum

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dc.contributor.authorŠabatová, Kateřinacs
dc.contributor.authorJakubíčková, Markétacs
dc.contributor.authorSlaninová, Evacs
dc.contributor.authorFleuriot-Blitman, Hugocs
dc.contributor.authorAmstutz, Véroniquecs
dc.contributor.authorHeřmánková, Kristýnacs
dc.contributor.authorBezdíček, Matějcs
dc.contributor.authorMrázová, Kateřinacs
dc.contributor.authorHrubanová, Kamilacs
dc.contributor.authorZinn, Manfredcs
dc.contributor.authorObruča, Stanislavcs
dc.contributor.authorSedlář, Karelcs
dc.coverage.issueDecember 2024cs
dc.coverage.volume23cs
dc.date.issued2024-06-26cs
dc.description.abstractPurple photosynthetic bacteria (PPB) are versatile microorganisms capable of producing various value-added chemicals, e.g., biopolymers and biofuels. They employ diverse metabolic pathways, allowing them to adapt to various growth conditions and even extreme environments. Thus, they are ideal organisms for the Next Generation Industrial Biotechnology concept of reducing the risk of contamination by using naturally robust extremophiles. Unfortunately, the potential of PPB for use in biotechnology is hampered by missing knowledge on regulations of their metabolism. Although Rhodospirillum rubrum represents a model purple bacterium studied for polyhydroxyalkanoate and hydrogen production, light/chemical energy conversion, and nitrogen fixation, little is known regarding the regulation of its metabolism at the transcriptomic level. Using RNA sequencing, we compared gene expression during the cultivation utilizing fructose and acetate as substrates in case of the wild-type strain R. rubrum DSM 467T and its knock-out mutant strain that is missing two polyhydroxyalkanoate synthases PhaC1 and PhaC2. During this first genome-wide expression study of R. rubrum, we were able to characterize cultivation-driven transcriptomic changes and to annotate non-coding elements as small RNAs.en
dc.formattextcs
dc.format.extent2681-2694cs
dc.format.mimetypeapplication/pdfcs
dc.identifier.citationComputational and Structural Biotechnology Journal. 2024, vol. 23, issue December 2024, p. 2681-2694.en
dc.identifier.doi10.1016/j.csbj.2024.06.023cs
dc.identifier.issn2001-0370cs
dc.identifier.orcid0000-0001-5143-9521cs
dc.identifier.orcid0000-0002-0205-6935cs
dc.identifier.orcid0000-0002-1808-8632cs
dc.identifier.orcid0009-0002-6720-0499cs
dc.identifier.orcid0000-0002-9270-195Xcs
dc.identifier.orcid0000-0002-8269-4020cs
dc.identifier.other188890cs
dc.identifier.researcheridAAC-2736-2019cs
dc.identifier.researcheridR-3181-2018cs
dc.identifier.researcheridK-1120-2014cs
dc.identifier.scopus57205673155cs
dc.identifier.scopus57202469794cs
dc.identifier.scopus25621797900cs
dc.identifier.scopus56309904900cs
dc.identifier.urihttp://hdl.handle.net/11012/249379
dc.language.isoencs
dc.publisherElseviercs
dc.relation.ispartofComputational and Structural Biotechnology Journalcs
dc.relation.urihttps://www.sciencedirect.com/science/article/pii/S2001037024002204cs
dc.rightsCreative Commons Attribution-NonCommercial-NoDerivatives 4.0 Internationalcs
dc.rights.accessopenAccesscs
dc.rights.sherpahttp://www.sherpa.ac.uk/romeo/issn/2001-0370/cs
dc.rights.urihttp://creativecommons.org/licenses/by-nc-nd/4.0/cs
dc.subjectRhodospirillum rubrumen
dc.subjectRNA-Seqen
dc.subjectTranscriptomeen
dc.subjectGenomeen
dc.subjectDepolymerase knock-outen
dc.subjectGene ontologyen
dc.subjectMetabolismen
dc.subjectFructoseen
dc.subjectAcetateen
dc.subjectPolyhydroxyalkanoatesen
dc.titleCultivation driven transcriptomic changes in the wild-type and mutant strains of Rhodospirillum rubrumen
dc.type.driverarticleen
dc.type.statusPeer-revieweden
dc.type.versionpublishedVersionen
sync.item.dbidVAV-188890en
sync.item.dbtypeVAVen
sync.item.insts2025.02.03 15:38:46en
sync.item.modts2025.01.17 16:54:59en
thesis.grantorVysoké učení technické v Brně. Fakulta chemická. Ústav chemie potravin a biotechnologiícs
thesis.grantorVysoké učení technické v Brně. Fakulta elektrotechniky a komunikačních technologií. Ústav biomedicínského inženýrstvícs
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