Transcriptome analysis of Rhodobacter capsulatus grown on different nitrogen sources

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dc.authorid0000-0001-5548-1161
dc.authorid0000-0002-2469-0267
dc.authorid0000-0002-6635-3947
dc.authorscopusid56708644400
dc.authorscopusid35363944400
dc.authorscopusid56271137800
dc.authorscopusid26643388500
dc.authorscopusid7004598043
dc.authorscopusid7006258822
dc.authorwosidYücel, Meral/AAQ-3548-2021
dc.contributor.authorErkal, Nilufer Afsar
dc.contributor.authorEser, Muazzez Gürgan
dc.contributor.authorÖzgür, Ebru
dc.contributor.authorGündüz, Ufuk
dc.contributor.authorEroğlu, İnci
dc.contributor.authorYücel, Meral
dc.date.accessioned2022-05-11T14:28:41Z
dc.date.available2022-05-11T14:28:41Z
dc.date.issued2019
dc.departmentFakülteler, Fen Edebiyat Fakültesi, Biyoloji Bölümü
dc.description.abstractThis study investigated the effect of different nitrogen sources, namely, ammonium chloride and glutamate, on photoheterotrophic metabolism of Rhodobacter capsulatus grown on acetate as the carbon source. Genes that were significantly differentially expressed according to Affymetrix microarray data were categorized into Clusters of Orthologous Groups functional categories and those in acetate assimilation, hydrogen production, and photosynthetic electron transport pathways were analyzed in detail. Genes related to hydrogen production metabolism were significantly downregulated in cultures grown on ammonium chloride when compared to those grown on glutamate. In contrast, photosynthetic electron transport and acetate assimilation pathway genes were upregulated. In detail, aceA encoding isocitrate lyase, a unique enzyme of the glyoxylate cycle and ccrA encoding the rate limiting crotonyl-CoA carboxylase/reductase enzyme of ethylmalonyl-coA pathway were significantly upregulated. Our findings indicate for the first time that R. capsulatus can operate both glyoxylate and ethylmalonyl-coA cycles for acetate assimilation.
dc.description.sponsorshipTUBITAK 1001 ProjectTurkiye Bilimsel ve Teknolojik Arastirma Kurumu (TUBITAK) [108T455]; EU 6th Framework Integrated Project [019825]
dc.description.sponsorshipThe raw microarray data used in this article were obtained using custom-designed Affymetrix GeneChip<SUP>(R)</SUP> (TR_RCH2a520699F) and derived from the PhD work of Nilufer Afsar Erkal A global approach to the hydrogen production, carbon assimilation and nitrogen metabolism of Rhodobacter capsulatus by physiological and microarray analysis' (Dissertation, Middle East Technical University). This research was supported by TUBITAK 1001 Project 108T455 and the EU 6th Framework Integrated Project 019825 (HYVOLUTION). Microarray experiments were carried out at METU Central Laboratory, Molecular Biology and Biotechnology R&D Center (Ankara, Turkey).
dc.identifier.doi10.1007/s00203-019-01635-x
dc.identifier.endpage671
dc.identifier.issn0302-8933
dc.identifier.issn1432-072X
dc.identifier.issue5en_US
dc.identifier.pmid30796473
dc.identifier.scopus2-s2.0-85061964182
dc.identifier.scopusqualityQ2
dc.identifier.startpage661
dc.identifier.urihttps://doi.org/10.1007/s00203-019-01635-x
dc.identifier.urihttps://hdl.handle.net/20.500.11776/6908
dc.identifier.volume201
dc.identifier.wosWOS:000471852800010
dc.identifier.wosqualityQ4
dc.indekslendigikaynakWeb of Science
dc.indekslendigikaynakScopus
dc.indekslendigikaynakPubMed
dc.institutionauthorEser, Muazzez Gürgan
dc.language.isoen
dc.publisherSpringer
dc.relation.ispartofArchives of Microbiology
dc.relation.publicationcategoryMakale - Uluslararası Hakemli Dergi - Kurum Öğretim Elemanıen_US
dc.rightsinfo:eu-repo/semantics/closedAccess
dc.subjectPhotoheterotrophic growth
dc.subjectRhodobacter capsulatus
dc.subjectPurple non-sulfur bacteria
dc.subjectMicroarray
dc.subjectHydrogen metabolism
dc.subjectAcetate metabolism
dc.subjectHydrogen-Production
dc.subjectPhotoheterotrophic Growth
dc.subjectRhodospirillum-Rubrum
dc.subjectAcetate Assimilation
dc.subjectComplex I
dc.subjectMetabolism
dc.subjectLyase
dc.subjectPathways
dc.subjectFixation
dc.subjectBacteria
dc.titleTranscriptome analysis of Rhodobacter capsulatus grown on different nitrogen sources
dc.typeArticle

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