An integrated genetic, genomic and systems approach defines gene networks regulated by the interaction of light and carbon signaling pathways in Arabidopsis

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dc.contributor.authorThum, Karen E.
dc.contributor.authorShin, Michael J.
dc.contributor.authorGutiƩrrez Ilabaca, Rodrigo Antonio
dc.contributor.authorMukherjee, Indrani
dc.contributor.authorKatari, Manpreet S.
dc.contributor.authorNero, Damion
dc.contributor.authorShasha, Dennis
dc.contributor.authorCoruzzi, Gloria M.
dc.date.accessioned2019-10-17T14:31:24Z
dc.date.available2019-10-17T14:31:24Z
dc.date.issued2008
dc.date.updated2019-10-14T18:55:32Z
dc.description.abstractAbstract Background Light and carbon are two important interacting signals affecting plant growth and development. The mechanism(s) and/or genes involved in sensing and/or mediating the signaling pathways involving these interactions are unknown. This study integrates genetic, genomic and systems approaches to identify a genetically perturbed gene network that is regulated by the interaction of carbon and light signaling in Arabidopsis. Results C arbon and l ight i nsensitive (cli) mutants were isolated. Microarray data from cli186 is analyzed to identify the genes, biological processes and gene networks affected by the integration of light and carbon pathways. Analysis of this data reveals 966 genes regulated by light and/or carbon signaling in wild-type. In cli186, 216 of these light/carbon regulated genes are misregulated in response to light and/or carbon treatments where 78% are misregulated in response to light and carbon interactions. Analysis of the gene lists show that genes in the biological processes "energy" and "metabolism" are over-represented among the 966 genes regulated by carbon and/or light in wild-type, and the 216 misregulated genes in cli186. To understand connections among carbon and/or light regulated genes in wild-type and the misregulated genes in cli186, the microarray data is interpreted in the context of metabolic and regulatory networks. The network created from the 966 light/carbon regulated genes in wild-type, reveals that cli186 is affected in the light and/or carbon regulation of a network of 60 connected genes, including six transcription factors. One transcription factor, HAT22 appears to be a regulatory "hub" in the cli186 network as it shows regulatory connections linking a metabolic network of genes involved in "amino acid metabolism", "C-compound/carbohydrate metabolism" and "glycolysis/gluconeogenesis". Conclusion The global misregulation of gene networks controlled by light and carbon signaling in cli186 indicates that it represents one of the first Arabidopsis mutants isolated that is specifically disrupted in the integration of both carbon and light signals to control the regulation of metabolic, developmental and regulatory genes. The network analysis of misregulated genes suggests that CLI186 acts to integrate light and carbon signaling interactions and is a master regulator connecting the regulation of a host of downstream metabolic and regulatory processes.
dc.fuente.origenBiomed Central
dc.identifier.citationBMC Systems Biology. 2008 Apr 04;2(1):31
dc.identifier.doi10.1186/1752-0509-2-31
dc.identifier.urihttps://repositorio.uc.cl/handle/11534/26706
dc.identifier.urihttps://doi.org/10.1186/1752-0509-2-31
dc.issue.numeroNo. 31
dc.language.isoen
dc.nota.accesoContenido completo
dc.pagina.final19
dc.pagina.inicio1
dc.revistaBMC Systems Biologyes_ES
dc.rightsacceso abierto
dc.rights.holderThum et al; licensee BioMed Central Ltd.
dc.subject.ddc610
dc.subject.deweyMedicina y saludes_ES
dc.subject.otherArabidopsis thaliana - GenƩticaes_ES
dc.subject.otherPlantas - Desarrolloes_ES
dc.titleAn integrated genetic, genomic and systems approach defines gene networks regulated by the interaction of light and carbon signaling pathways in Arabidopsises_ES
dc.typeartĆ­culo
dc.volumenVol. 2
sipa.codpersvinculados86782
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