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Nodularia spumigena UHCC 0039

ABSTRACT: Genomic and transcritomic study of Nodularia spumigena

PROVIDER: PRJNA352241 | ENA |

REPOSITORIES: ENA

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			Action	DRS
		Other
	SRR5053812_1.fastq.gz	Fastqsanger.gz
	SRR5053812_2.fastq.gz	Fastqsanger.gz
	SRR5053813_1.fastq.gz	Fastqsanger.gz
	SRR5053813_2.fastq.gz	Fastqsanger.gz

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Nodularia spumigena UHCC 0039

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Project description:Nodularia spumigena is a toxic, filamentous cyanobacterium capable to fix atmospheric N2, which is often dominating cyanobacterial bloom events in the Baltic Sea and other brackish water systems worldwide. Phosphate (P) limitation has been considered as one environmental parameter that is somehow promoting the establishment of cyanobacterial mass developments. In the present study, we analyzed the response of the N. spumigena strain CCY9914 towards strong P limitation in an experimental approach. Filaments of N. spumigena were incubated under P-replete and P-deplete conditions for 21 days. Samples for RNA-seq were collected after 7 and 14 days. Growth of the strain was diminished under P-deplete conditions, however, filaments contained more polyphosphate under P-deplete compared to P-replete conditions. High polyphosphate contents were also detected within heterocysts. After 7 days, approximately 100 genes were upregulated in P-deplete filaments, among them was a high proportion of genes encoding proteins related to P-homeostasis such as transport systems for different P species. Many of these genes became also up-regulated after 14 days compared to 7 days in filaments grown under P-replete conditions, which was consistent with the almost complete consumption of dissolved P in these cultures after 14 days. In addition to genes directly related to P starvation, for example genes encoding proteins for bioactive compound synthesis, gas vesicle formation, or sugar catabolism were stimulated under the P-deplete conditions. Collectively, our data permitted to describe an experimentally validated P-stimulon in N. spumigena CCY9914 and provide evidence that severe P limitation could indeed support bloom formation by this filamentous strain.

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Comparative Genomics of the Baltic Sea Toxic Cyanobacteria <i>Nodularia spumigena</i> UHCC 0039 and Its Response to Varying Salinity.

Project description:Salinity is an important abiotic factor controlling the distribution and abundance of Nodularia spumigena, the dominating diazotrophic and toxic phototroph, in the brackish water cyanobacterial blooms of the Baltic Sea. To expand the available genomic information for brackish water cyanobacteria, we sequenced the isolate Nodularia spumigena UHCC 0039 using an Illumina-SMRT hybrid sequencing approach, revealing a chromosome of 5,294,286 base pairs (bp) and a single plasmid of 92,326 bp. Comparative genomics in Nostocales showed pronounced genetic similarity among Nodularia spumigena strains evidencing their short evolutionary history. The studied Baltic Sea strains share similar sets of CRISPR-Cas cassettes and a higher number of insertion sequence (IS) elements compared to Nodularia spumigena CENA596 isolated from a shrimp production pond in Brazil. Nodularia spumigena UHCC 0039 proliferated similarly at three tested salinities, whereas the lack of salt inhibited its growth and triggered transcriptome remodeling, including the up-regulation of five sigma factors and the down-regulation of two other sigma factors, one of which is specific for strain UHCC 0039. Down-regulated genes additionally included a large genetic region for the synthesis of two yet unidentified natural products. Our results indicate a remarkable plasticity of the Nodularia salinity acclimation, and thus salinity strongly impacts the intensity and distribution of cyanobacterial blooms in the Baltic Sea.

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