Comparative Genome Analysis of the Closely Related Synechocystis Strains PCC 6714 and PCC 6803

Kopf, Matthias; Klähn, Stephan; Pade, Nadin; Weingärtner, Christian; Hagemann, Martin; Voß, Björn; Hess, Wolfgang R.

doi:10.1093/dnares/dst055

Cited by 51 publications

(73 citation statements)

References 51 publications

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“…Using BlastN, putative nsiR4 homologs were identified in at least 38 additional genomes, including the closely related Synechocystis sp. PCC 6714 (hereafter referred to as Synechocystis 6714) (32,33), more distantly related strains, such as Synechococcus sp. PCC 7002, or several Anabaena and Nostoc species (Fig.…”

Section: Resultsmentioning

confidence: 99%

The sRNA NsiR4 is involved in nitrogen assimilation control in cyanobacteria by targeting glutamine synthetase inactivating factor IF7

Klähn

Schaal

Georg

et al. 2015

Proc. Natl. Acad. Sci. U.S.A.

105

116

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Glutamine synthetase (GS), a key enzyme in biological nitrogen assimilation, is regulated in multiple ways in response to varying nitrogen sources and levels. Here we show a small regulatory RNA, NsiR4 (nitrogen stress-induced RNA 4), which plays an important role in the regulation of GS in cyanobacteria. NsiR4 expression in the unicellular Synechocystis sp. PCC 6803 and in the filamentous, nitrogen-fixing Anabaena sp. PCC 7120 is stimulated through nitrogen limitation via NtcA, the global transcriptional regulator of genes involved in nitrogen metabolism. NsiR4 is widely conserved throughout the cyanobacterial phylum, suggesting a conserved function. In silico target prediction, transcriptome profiling on pulse overexpression, and site-directed mutagenesis experiments using a heterologous reporter system showed that NsiR4 interacts with the 5′UTR of gifA mRNA, which encodes glutamine synthetase inactivating factor (IF)7. In Synechocystis, we observed an inverse relationship between the levels of NsiR4 and the accumulation of IF7 in vivo. This NsiR4-dependent modulation of gifA (IF7) mRNA accumulation influenced the glutamine pool and thus NH + 4 assimilation via GS. As a second target, we identified ssr1528, a hitherto uncharacterized nitrogen-regulated gene. Competition experiments between WT and an ΔnsiR4 KO mutant showed that the lack of NsiR4 led to decreased acclimation capabilities of Synechocystis toward oscillating nitrogen levels. These results suggest a role for NsiR4 in the regulation of nitrogen metabolism in cyanobacteria, especially for the adaptation to rapid changes in available nitrogen sources and concentrations. NsiR4 is, to our knowledge, the first identified bacterial sRNA regulating the primary assimilation of a macronutrient.regulatory RNA | Synechocystis | nitrogen assimilation | glutamine synthetase inactivating factors | NtcA

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Section: Resultsmentioning

confidence: 99%

The sRNA NsiR4 is involved in nitrogen assimilation control in cyanobacteria by targeting glutamine synthetase inactivating factor IF7

Klähn

Schaal

Georg

et al. 2015

Proc. Natl. Acad. Sci. U.S.A.

105

116

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“…PCC6803 was sequenced in 1996 [37][38][39][40], allowing identification of genes responsible for the natural production of PHA in cyanobacteria. In contrast, genomic data of Synechocystis cf.…”

Section: Isolation Of Phaa-b Syn6909 and Phae-c Syn6909 Gene Clustersmentioning

confidence: 99%

Identification of Four Polyhydroxyalkanoate Structural Genes in Synechocystis cf. salina PCC6909: In silico Evidences

Silvestrini

Drosg²,

Fritz³

2016

J Proteomics Bioinform

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“…PCC 6714 that is closely related to PCC 6803. 48 They showed that the 16S rRNA-coding segment is 99.4% identical to that of PCC 6803, but that almost a quarter of protein-coding genes is unique to each strain.…”

Section: 10 Synechocystis Sp Pcc 6803mentioning

confidence: 99%

Discrimination Between Synechocystis Members (Cyanobacteria) Based on Heterogeneity of Their 16S rRNA and ITS Regions

Juteršek¹,

Klemenčič²,

Dolinar³

2017

ACSi

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Cyanobacteria are an important group of microorganisms displaying a range of morphologies that enable phenotypic differentiation between the major lineages of cyanobacteria, often to the genus level, but rarely to species or strain level. We focused on the unicellular genus Synechocystis that includes the model cyanobacterial strain PCC 6803. For 11 Synechocystis members obtained from cell culture collections, we sequenced the variable part of the 16S rRNA-encoding region and the 16S -23S internally transcribed spacer (ITS), both standardly used in taxonomy. In combination with microscopic examination we observed that 2 out of 11 strains from cell culture collections were clearly different from typical Synechocystis members. For the rest of the samples, we demonstrated that both sequenced genomic regions are useful for discrimination between investigated species and that the ITS region alone allows for a reliable differentiation between Synechocystis strains.

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Comparative Genome Analysis of the Closely Related Synechocystis Strains PCC 6714 and PCC 6803

Cited by 51 publications

References 51 publications

The sRNA NsiR4 is involved in nitrogen assimilation control in cyanobacteria by targeting glutamine synthetase inactivating factor IF7

The sRNA NsiR4 is involved in nitrogen assimilation control in cyanobacteria by targeting glutamine synthetase inactivating factor IF7

Identification of Four Polyhydroxyalkanoate Structural Genes in Synechocystis cf. salina PCC6909: In silico Evidences

Discrimination Between Synechocystis Members (Cyanobacteria) Based on Heterogeneity of Their 16S rRNA and ITS Regions

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