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Comparison between GT and ntcA-overexpressing strains of cyanobacteria [nitrogen-depleted conditions]

ABSTRACT: NtcA regulates primary in a unicelluar cyanobacterium Synechocystis sp. PCC6803. We constructed an ntcA-overexpressing strain, named NOX10, by introducing the ntcA genes fusing psbAII promoter by homologous recombination. The transcript profiles of parental wild-type strain GT and NOX10 were compared by microarray CyanoChip (Takrara bio.). Experiments were performed two times with biologically independent RNA.

ORGANISM(S): Synechocystis sp. PCC 6803

PROVIDER: GSE54487 | GEO | 2014/07/01

SECONDARY ACCESSION(S): PRJNA236620

REPOSITORIES: GEO

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Comparison between GT and ntcA-overexpressing strains of cyanobacteria [nitrogen-replete conditions]

Project description:NtcA regulates primary in a unicelluar cyanobacterium Synechocystis sp. PCC6803. We constructed an ntcA-overexpressing strain, named NOX10, by introducing the ntcA genes fusing psbAII promoter by homologous recombination. The transcript profiles of parental wild-type strain GT and NOX10 were compared by microarray CyanoChip (Takrara bio.). Experiments were performed three times with biologically independent RNA.

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Comparison between GT and ntcA-overexpressing strains of cyanobacteria [nitrogen-depleted conditions]

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Comparison between GT and rre37 overexpressed strains of cyanobacteria

Project description:Rre37 activates sugar catabolism in a unicelluar cyanobacterium Synechocystis sp. PCC6803. We constructed rre37-overexpressing strain, named ROX370, by introducing the rre37 genes fusing psbAII promoter by homologous recombination. The transcript profiles of parental wild-type strain GT and ROX370 were compared by microarray CyanoChip (Takrara bio.). Experiments were performed by three times with biologically independent RNA. The results showed that genes for the oxidaditive pentose phosphate pathway and glycogen catabolism were induced by rre37 overexpression. Total RNAs from three independent wild-type (GT) and three independent rre37-overexpression strains were differently labeled by Cy3 or Cy5, followed by hybridyzation on CyanoChip.

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Comparison between GT and SigE overexpressed strains of cyanobacteria

Project description:SigE is a global regulator for sugar catabolism in a unicelluar cyanobacterium Synechocystis sp. PCC6803. We constructed SigE-overexpressing strain, named GOX50, by introducing the sigE genes fusing psbAII promoter by homologous recombination. The transcript profiles of parental wild-type strain GT and GOX50 were compared by microarray CyanoChip (Takrara bio.). Experiments were performed by three times with biologically independent RNA. The results showed that genes for the oxidaditive pentose phosphate pathway and glycogen catabolism were induced by SigE overexpression. Total RNAs from three independent wild-type (GT) and three independent SigE-overexpression strains were differently labeled by Cy3 or Cy5, followed by hybridyzation on CyanoChip.

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Comparison between GT and hoxH mutant strains of cyanobacteria

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Comparison between GT and hoxH mutant strains of cyanobacteria

Project description:HoxH is a subunit of hydrogenase in a unicelluar cyanobacterium Synechocystis sp. PCC6803. We constructed hoxH mutant strain, which the mRNA levels of hoxH reduced to 50% of the wild-type. Total RNAs from three independent wilde-type (GT) and three independent hoxH mutant were labeled by Cy3 followed by hybridyzation on a microarry chip generated by Agilent Technologies (Design ID 036279). Microarray is designed by Prof. Tomohisa Hasunuma, Kobe University.

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Elucidating the direct target regulon of NtcA during the early acclimation to nitrogen starvation in the cyanobacterium Synechocystis sp. PCC 6803 [RNA-Seq]

Project description:Cyanobacteria are oxygenic photoautotrophs responsible for a substantial proportion of nitrogen fixation and primary production in the hydrosphere. Non-nitrogen fixing cyanobacteria, such as Synechocystis sp. PCC 6803, depend of the availability of nitrogenized species to survive. Therefore, an intricate regulatory network around the transcriptional factor NtcA maintains the homeostasis of nitrogen in these organisms. The mechanisms controlling NtcA activity are well understood but a comprehensive study of its regulon is missing in Synechocystis. To define NtcA regulon during the early stage of nitrogen starvation, we have performed chromatin immunoprecipitation followed by sequencing (ChiP-seq), in parallel with genome level transcriptome analysis (RNA-seq). By combining both methods we assigned 51 activated and 28 repressed genes directly by NtcA. Most of direct targets included genes involved in nitrogen and carbon metabolism and photosynthesis. NtcA regulon also included 8 ncRNAs, of which ncr0710, Syr6 and NsiR7 were experimentally validated. Intriguingly, we identified several NtcA intragenic binding sites suggesting that NtcA can modulate transcriptional expression by binding along the whole transcript and not only in the promoter region as previously though. Finally, the transcriptional implication of PipX was analyzed in some NtcA-targets genes, revealing that PipX assists NtcA in the global nitrogen regulation in Synechocystis.

2017-10-01 | GSE97289 | GEO

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