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The effects of soil phosphorous content on microbiota are driven by the plant phosphate starvation response

ABSTRACT: The effects of soil phosphorous content on microbiota are driven by the plant phosphate starvation response

PROVIDER: PRJNA531167 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR8859550.fastq.gz	Fastqsanger.gz
	SRR8859560.fastq.gz	Fastqsanger.gz
	SRR8859570.fastq.gz	Fastqsanger.gz
	SRR8859580.fastq.gz	Fastqsanger.gz
	SRR8859590.fastq.gz	Fastqsanger.gz

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Plant metagenome

Project description:The effects of soil phosphorous content on microbiota are driven by the plant phosphate starvation response

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Functions of four members of PHR1 family in plant responses to phosphate starvation

Project description:We analyzed the RNA expression profiles of the mutants of four memebrs of Arabidopsis PHR1 family to understand their roles in regulating plant responses to phosphate starvation

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Expression data from Arabidopsis thaliana under phosphate starvation stress

Project description:We performed a transcriptomic analysis of Pi starvation responses in Arabidopsis thaliana (Columbia-0) wild type plants under phosphate starvation stress and in plants with altered PHR1(-like) activity, comparing mutants of phr1 and phr1-phl1 grown in phosphate-lacking medium. Results show the central role of PHR1 and functionally redundant members of its family in the control of transcriptional responses to Pi starvation.

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Factors governing the transcriptome changes and chronological lifespan of fission yeast during phosphate starvation

Project description:This RNA-Seq analysis compares gene expression of the pho7∆ fission yeast (Schizosaccharomyces pombe) strain prior to phosphate starvation (0 HR), i.e. in phosphate replete conditions, and at various times after phosphate starvation (4, 8, 12, 24, 36, and 48 HR) contrasting to the WT fission yeast S. pombe cells grown in phosphate replete conditions (WT 0HR)

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Factors governing the transcriptome changes and chronological lifespan of fission yeast during phosphate starvation I

Project description:RNA-seq analysis compares gene expression of the fission yeast (Schizossacharomyces pombe) ecl123∆ mutant at various times after phosphate starvation (4, 8, 12, 24, 36 and 48h) to the ecl123∆ mutant fission yeast strain grown in phosphate replete conditions (0h, prior to phosphate starvation).

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The effects of soil phosphorus content on plant microbiota are driven by the plant phosphate starvation response.

Project description:Phosphate starvation response (PSR) in nonmycorrhizal plants comprises transcriptional reprogramming resulting in severe physiological changes to the roots and shoots and repression of plant immunity. Thus, plant-colonizing microorganisms-the plant microbiota-are exposed to direct influence by the soil's phosphorus (P) content itself as well as to the indirect effects of soil P on the microbial niches shaped by the plant. The individual contribution of these factors to plant microbiota assembly remains unknown. To disentangle these direct and indirect effects, we planted PSR-deficient Arabidopsis mutants in a long-term managed soil P gradient and compared the composition of their shoot and root microbiota to wild-type plants across different P concentrations. PSR-deficiency had a larger effect on the composition of both bacterial and fungal plant-associated microbiota than soil P concentrations in both roots and shoots. To dissect plant-microbe interactions under variable P conditions, we conducted a microbiota reconstitution experiment. Using a 185-member bacterial synthetic community (SynCom) across a wide P concentration gradient in an agar matrix, we demonstrated a shift in the effect of bacteria on the plant from a neutral or positive interaction to a negative one, as measured by rosette size. This phenotypic shift was accompanied by changes in microbiota composition: the genus Burkholderia was specifically enriched in plant tissue under P starvation. Through a community drop-out experiment, we demonstrated that in the absence of Burkholderia from the SynCom, plant shoots accumulated higher ortophosphate (Pi) levels than shoots colonized with the full SynCom but only under Pi starvation conditions. Therefore, Pi-stressed plants are susceptible to colonization by latent opportunistic competitors found within their microbiome, thus exacerbating the plant's Pi starvation.

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The response and recovery of Arabidopsis thaliana transcriptome to phosphate starvation [At35b_MR]

Project description:Background: Over application of phosphate fertilizers in modern agriculture contaminates waterways and disrupts natural ecosystems. Nevertheless, this is a common practice among farmers, especially in developing countries as abundant fertilizers are believed to boost crop yields. The study of plant phosphate metabolism and its underlying genetic pathways is key to discovering methods of efficient fertilizer usage. The work presented here describes the first genome-wide resource on the molecular dynamics underpinning the response and recovery in roots and shoots of Arabidopsis thaliana to phosphate-starvation. Results: Genome-wide profiling revealed minimal overlap between root and shoot transcriptomes suggesting two independent phosphate-starvation regulons. Novel gene expression patterns were detected for over 1000 candidates and were classified as either initial, persistent, or latent responders. Comparative analysis to AtGenExpress identified novel cohorts of genes co-regulated across multiple stimuli. The hormone ABA displayed a dominant role in regulating many phosphate-responsive candidates. Analysis of co-regulation enabled the determination of primary versus redundant members of closely related gene families with respect to phosphate-starvation. Thus, among others, we show that PHO1 acts in shoot, whereas PHO1;H1 is likely the primary regulator in root. Conclusion: Our results uncover a much larger, staged responses to phosphate-starvation than previously described. To our knowledge, this work describes the highest resolution of genome-wide data on plant nutrient stress to date.

2012-06-18 | GSE33996 | GEO

The phosphate starvation response regulator PHR2 antagonizes arbuscule maintenance in Medicago

Project description:• Phosphate starvation response (PHR) transcription factors play essential roles in regulating phosphate uptake in plants through binding to the P1BS cis-element in the promoter of phosphate starvation response genes. Recently, PHRs were also shown to positively regulate arbuscular mycorrhizal colonization in rice and lotus by controlling the expression of a large set of symbiotic genes. However, their role in arbuscule development has remained unclear. In Medicago we previously showed that arbuscule degradation is controlled by two SPX proteins that are highly expressed in arbuscule-containing cells. Since SPX proteins bind to PHRs and repress their activity in a phosphate-dependent manner, we investigated whether arbuscule maintenance is also regulated by PHR. • Here, we show that MtPHR2 is a major regulator of the phosphate starvation response in Medicago. Knock-out of mtphr2 showed reduced phosphate starvation response, symbiotic gene expression and AM colonization levels. However, the arbuscules that formed showed less degradation, suggesting a negative role for PHR2 in arbuscule maintenance. This was supported by the observation that overexpression of MtPHR2 led to enhanced degradation of arbuscules. Although many arbuscule-induced genes contain P1BS elements in their promoters, we found that the P1BS cis-elements in the promoter of the symbiotic phosphate transporter MtPT4 are not required for arbuscule-containing cell specific expression. • These results indicate that MtSPX1 and MtSPX3 control arbuscule maintenance independent from PHR2. While MtPHR2 potentiates symbiotic gene expression and colonization, its activity in arbuscule-containing cells needs to be tightly controlled to maintain a successful symbiosis in Medicago.

2024-01-19 | GSE252717 | GEO

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