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A Phosphate starvation response gene (psr1-like) is present in Micromonas pusilla and other marine algae and coordinates the metabolic response to phosphate deficiency

ABSTRACT: Both marine phytoplankton and terrestrial plants have to deal with limited bioavailability of the key life nutrient, phosphate. In freshwater algae and plants, a phosphate starvation response gene (psr1) has been characterized, which encodes for a transcription factor that regulates the metabolic response to phosphate deficiency. This study describes a psr1-like gene present in Micromonas pusilla and other prasinophytes as well as the haptophyte, Emiliana huxleyi. The metabolic response of M. pusilla to P-deficiency, as described from targeted and untargeted metabolomics techniques, was characteristic of an algal response to nutrient limitation with an increase in polyunsaturated fatty acids. The levels of many central metabolites, such as amino acids, vitamins, nucleosides, decreased in response to P-deficiency, with a few notable exceptions including malate, aspartate, glutamate, guanine and xanthine. Additionally, genes involved in the metabolic pathways associated with the elevated metabolites share a significant motif in their intron regions, which may be the regulatory element where the psr1 gene product binds. Results form the present study taken together with data from the literature suggests that M. pusilla, other prasionophytes and E. huxleyi, may be physiologically well poised to take advantage of a future ocean with lower nutrient levels and increased levels of pCO2.

INSTRUMENT(S): TSQ Vantage (Thermo Scientific), 7T LTQ FT Ultra, Thermo Fisher Scientific

SUBMITTER: Cara Fiore

PROVIDER: MTBLS295 | MetaboLights | 2016-02-01

REPOSITORIES: MetaboLights

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MetaboLights MTBLS295 - GNPS A Phosphate starvation response gene (psr1-like) is present in Micromonas pusilla and other marine algae and coordinates the metabolic response to phosphate deficiency

Project description:This data set was downloaded from MetaboLights (http://www.ebi.ac.uk/metabolights/) accession number MTBLS295 Abstract:Both marine phytoplankton and terrestrial plants have to deal with limited bioavailability of the key life nutrient, phosphate. In freshwater algae and plants, a phosphate starvation response gene (psr1) has been characterized, which encodes for a transcription factor that regulates the metabolic response to phosphate deficiency. This study describes a psr1-like gene present in Micromonas pusilla and other prasinophytes as well as the haptophyte, Emiliana huxleyi. The metabolic response of M. pusilla to P-deficiency, as described from targeted and untargeted metabolomics techniques, was characteristic of an algal response to nutrient limitation with an increase in polyunsaturated fatty acids. The levels of many central metabolites, such as amino acids, vitamins, nucleosides, decreased in response to P-deficiency, with a few notable exceptions including malate, aspartate, glutamate, guanine and xanthine. Additionally, genes involved in the metabolic pathways associated with the elevated metabolites share a significant motif in their intron regions, which may be the regulatory element where the psr1 gene product binds. Results form the present study taken together with data from the literature suggests that M. pusilla, other prasionophytes and E. huxleyi, may be physiologically well poised to take advantage of a future ocean with lower nutrient levels and increased levels of pCO2.

2018-08-07 | MSV000082766 | GNPS

Sugarcane transcriptome - Phosphate starvation

Project description:Rooted sugarcane plantlets, originated from in vitro meristem culture (genotype SP80-3280, CTC, Brazil), were greenhouse acclimatized by initial cultivation on 1/20th strength Hoagland and Arnon (1950) nutrient solution. Nutrient solutions were aired from an oil-less compressor and replaced every 7 days, increasing nutrient concentration to ¼ strength in 3 weeks. Plants were then individually transferred to 2.8 L pots filled with fresh ¼ strength nutrient solution. After one week, half of the plants were transferred to fresh solution containing 250 µM Pi, while the other half was transferred to nutrient solution deprived of phosphate (Pi), with H2PO4 being replaced by H2SO4 (Muchhal et al., 1996). Roots from six plants from each treatment (0 and 250 µM Pi) were harvested 6, 12, 24 and 48 h after exposure to phosphate starvation and immediately frozen in liquid nitrogen. For each time point and each treatment, root samples were aggregated in three pools of two samples each. Extraction of total RNA was performed separately on each sample pool. Keywords: time course of stress response

2007-05-20 | GSE4966 | GEO

Expression data of young Arabidopsis root plants experiencing either phosphate deficiency, iron deficiency or both, for 3hours, 6 hours and 9 hours in comparison to plants fully supply with nutrients

Project description:Plants could sense and respond very rapidly to a change in nutrient availability. At a developmental level, phosphate deficiency leads to a rapid repression of the primary root growth. This response is alleviated when iron is also absent from the medium. We used microarrays to detail the global programme of gene expression during phosphate and/or iron deficiency and to identify gene regulatory network involved in the control of the primary root growth in response to phosphate deficiency.

2023-03-24 | GSE171449 | 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

Tomato phosphate starvation

Project description:Transcriptomic analysis of the phosphate-starvation response of tomato plants

| PRJEB36671 | ENA

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

Genome-Wide Characterization of the Phosphate Starvation Response in Schizosaccharomyces pombe [ChIP-Seq data]

Project description:Inorganic phosphate is an essential nutrient required by organisms for growth. During phosphate starvation, Saccharomyces cerevisiae activates the phosphate signal transduction (PHO) pathway leading to the expression of the secreted acid phosphatase, PHO5. The fission yeast, Schizosaccharomyces pombe, regulates expression of the ScPHO5 homolog (pho1+) via a non-orthologous PHO pathway. The genes induced by phosphate limitation and the molecular mechanism by which the genetically identified positive (pho7+) and negative (csk1+) regulators function are not known. Here we use a combination of molecular biology, expression microarrays, and chromatin immunoprecipitation coupled with high-throughput sequencing (ChIP-Seq) to characterize the role of pho7+ and csk1+ in the PHO response. We define the set of genes that comprise the initial response to phosphate starvation in S. pombe. We identify a conserved PHO response for the ScPHO5 (pho1+), ScPHO84 (spbc8e4.01c+), and ScGIT1 (spbc1271.09+) orthologs. We use ChIP-Seq to identify members of the Pho7 regulon and characterize Pho7 binding in response to phosphate-limitation and Csk1 activity. We demonstrate that activation of pho1+ requires Pho7 binding to a UAS in the pho1+ promoter and that Csk1 repression does not regulate Pho7 enrichment. Further, we find that Pho7-dependent activation is not limited to phosphate-starvation, as additional environmental stress response pathways require pho7+ for maximal induction. We provide a global analysis of the PHO pathway in S. pombe. Our results elucidate the conserved core regulon required for responding to phosphate starvation between distantly related ascomycetes and a better understanding of flexibility in environmental stress response networks.

2013-01-02 | GSE39498 | GEO

Genome-Wide Characterization of the Phosphate Starvation Response in Schizosaccharomyces pombe [gene expression data]

2013-01-02 | GSE39478 | GEO

The response and recovery of Arabidopsis thaliana transcriptome to phosphate starvation [ATH1-121501]

2012-06-18 | GSE33790 | GEO

Root transcriptional profile of wheat seedlings in response to Fe, S and dual (Fe and S) deficiencies.

Project description:The comparison of transcriptional profiles of roots grown under Fe, S and dual deficiency with those obtained for roots of control plants (grown in a complete nutrient solution) allowed identifying the transcripts differentially expressed in response to each deficiency.

2018-07-30 | GSE98634 | GEO

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