Maize plants (Zea may) : WT (Alice) vs. Yellow stripe mutants (ys1 or ys3)
Ontology highlight
ABSTRACT:
ORGANISM(S): Zea mays
SUBMITTER: Tomoko Nozoye
PROVIDER: E-GEOD-41051 | biostudies-arrayexpress |
REPOSITORIES: biostudies-arrayexpress
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Project description:qPCR gene expression profiling of Yellow stripe 1 (ys1) and ys3 mutants. ys1 and ys3 are recessive mutants of maize (Zea mays L.) that result in symptoms typical of Fe deficiency, i.e., interveinal chlorosis of the leaves. The objective of the present work was to identify the genes involved in the ys1 and ys3 phenotypes, so as to extend our understanding of Fe homeostasis in maize. Root or shoot of WT vs. ys1 or ys3 mutants under Fe sufficient or Fe deficient conditions respectively.
2015-03-01 | E-GEOD-44557 | biostudies-arrayexpress
Project description:Transcriptional profiling of Yellow stripe 1 (ys1) and ys3 mutants. ys1 and ys3 are recessive mutants of maize (Zea mays L.) that result in symptoms typical of Fe deficiency, i.e., interveinal chlorosis of the leaves. The objective of the present work was to identify the genes involved in the ys1 and ys3 phenotypes, so as to extend our understanding of Fe homeostasis in maize.
2015-09-20 | GSE41051 | GEO
Project description:qPCR gene expression profiling of Yellow stripe 1 (ys1) and ys3 mutants. ys1 and ys3 are recessive mutants of maize (Zea mays L.) that result in symptoms typical of Fe deficiency, i.e., interveinal chlorosis of the leaves. The objective of the present work was to identify the genes involved in the ys1 and ys3 phenotypes, so as to extend our understanding of Fe homeostasis in maize.
2015-03-01 | GSE44557 | GEO
Project description:1 g samples of maize seedling leaf bases were collected from the wild-type (Zheng58) plants and the mutants (bzu3-2). we undertook glycoproteomics analyses of the N-glycans. Based on the libraries of maize protein group and plant N-glycosylation modification in the Uniprot database, we identified 2,194 intact N-glycopeptides, and quantified 181 differentially expressed intact N-glycopeptides (DEGPs)
2023-07-24 | PXD041642 | Pride
Project description:Low phosphate concentrations are frequently a constraint for maize growth and development, and therefore, enormous quantities of phosphate fertilizer are expended in maize cultivation, which increases the cost of planting. Low phosphate stress not only increases root biomass but can also cause significant changes in root morphology. Low phosphate availability has been found to favor lateral root growth over primary root growth by dramatically reducing primary root length and increasing lateral root elongation and lateral root density in Arabdopsis. While in our assay when inbred line Q319 subjected to phosphate starvation, The numbers of lateral roots and lateral root primordia were decreased after 6 days of culture in a low phosphate solution (LP) compared to plants grown under normal conditions (sufficient phosphate, SP), and these differences were increased associated with the stress caused by phosphate starvation. However, the growth of primary roots appeared not to be sensitive to low phosphate levels. This is very different to Arabidopsis. To elucidate how low phosphate levels regulate root modifications, especially lateral root development, a transcriptomic analysis of the 1.0-1.5 cm lateral root primordium zone (LRZ) of maize Q319 treated after 2 and 8 days by low phosphate was completed respectively. The present work utilized an Arizona Maize Oligonucleotide array 46K version slides, which contained 46,000 maize 70-mer oligonucleotides designated by TIGR ID, and the sequence information is available at the website of the Maize Oligonucleotide Array Project as the search item representing the >30,000 identifiable unique maize genes (details at http://www.maizearray.org). Keywords: low phosphate, Lateral Root Primordium Zone, maize Two-condition experiment, low phosphate treated lateral root primordium zone of maize root vs. normal cultrued lateral root primordium zone. Biological replicates: 9 control, 9 treated, independently grown and harvested. One replicate per array.
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2013-03-01 | E-GEOD-44743 | biostudies-arrayexpress
Project description:Many of the genes coding for secreted protein effectors are arranged in gene clusters in the genome of the biotrophic plant pathogen Ustilago maydis. The largest of these gene clusters, cluster 19A, encodes 24 secreted effectors. Deletion of the entire cluster results in severe attenuation of virulence. The generation and analysis strains carrying sub-deletions identified 9 genes significantly contributing to tumor formation after seedling infection. As the individual contributions of these genes to tumor formation were small, we studied the response of maize plants to the whole cluster mutant as well as to several individual mutants by array analysis. This revealed distinct plant responses, demonstrating that the respective effectors have discrete plant targets. Many of the genes coding for secreted protein effectors are arranged in gene clusters in the genome of the biotrophic plant pathogen Ustilago maydis. The largest of these gene clusters, cluster 19A, encodes 24 secreted effectors. Deletion of the entire cluster results in severe attenuation of virulence. The generation and analysis strains carrying sub-deletions identified 9 genes significantly contributing to tumor formation after seedling infection. As the individual contributions of these genes to tumor formation were small, we studied the response of maize plants to the whole cluster mutant as well as to several individual mutants by array analysis. This revealed distinct plant responses, demonstrating that the respective effectors have discrete plant targets. We used the Affymetrix maize genome array to analyze the transcriptional responses of maize to cluster 19A mutants and individual sub-deletions for the cluster 19A genes tin1, tin3, tin4 and tin5. We found plant responses to the mutants were significantly different although the macroscopic phenotypes of the individual mutants were very similar. U. maydis infected parts of maize seedling leaves were dissected 4 days after inoculation with strain SG200∆19A, SG200∆tin1, SG200∆tin3, SG200∆tin4 and SG200∆tin5, respectively. We previously submitted data of maize leaves that were treated with the progenitor wild type strain SG200 as well as mock-infections under identical experimetal conditions (GEO: GSE10023). These data served as controls for this experiment.
2014-09-01 | E-GEOD-48406 | biostudies-arrayexpress
Project description:Reduced prolamin (zein) accumulation and defective ER-body formation occurs in maize opaque endosperm mutants opaque2 (o2), floury2 (fl2), defective endosperm*B30 (DeB30), and mucronate (Mc) whereas other opaque mutants such as opaque1 (o1) and floury1 (fl1) are normal in these regards. This suggests that other factors contribute to kernel texture. We used a LC-MS/MS proteomics approach to compare non-zein proteins of nearly isogenic opaque mutants. In total, 2762 proteins were identified that were enriched for biological processes such as protein transport and folding, amino acid biosynthesis, and proteolysis. Amino acid analysis of top proteins revealed qualitative changes in lysine abundance contributing to the overall lysine increase. Principal component analysis and pathway enrichment suggested that the mutants partition into three groups: Mc, DeB30, fl2 and o2; o1; and fl1. Indicator species analysis revealed mutant-specific proteins, and highlighted ER secretory pathway components that are enriched in selected groups of mutants, albeit with no common proteins across all mutants. Most significantly changed proteins were related to stress or defense and zein partitioning into the soluble fraction for Mc, DeB30, o1 and fl1 specifically. We suggest that ER stress is a universal trigger of opacity regardless of qualitative or quantitative changes in zein accumulation.
2016-01-05 | PXD002379 | Pride
Project description:Ustilago maydis is a basidiomycete fungus that causes smut disease in maize. Most prominent symptoms of the disease are plant tumors, which can be induced by U. maydis on all aerial parts of the plant. We identified two linked genes, pit1 and pit2, which are specifically expressed during plant colonization. Deletion mutants for either pit1 or pit2 are unable to induce tumor development and elicit plant defense responses. We used the Affymetrix maize genome array to analyze the transcriptional responses of maize to deletion pit1 and pit2 mutants and found plant responses to both mutants being not significantly distinguishable. U. maydis infected parts of maize seedling leaves were dissected 4 days after inoculation with strain SG200Dpit1 and SG200Dpit2, respectively. We previously submitted data of maize leaves that were treated with the progenitor wild type strain SG200 as well as mock-infections under identical experimetal conditions (GEO: GSE10023, 4d mock and 4d SG200 Samples, equivalent record in Arrayexpress: E-GEOD-10023). These data served as controls for this experiment.
2011-07-01 | E-GEOD-28479 | biostudies-arrayexpress
Project description:Iron (Fe) is an essential plant micronutrient, and its deficiency limits plant growth and development on alkaline soils. Under Fe deficiency, plant responses include upregulation of genes involved in Fe uptake from the soil. However, little is known about shoot responses to Fe deficiency. Using microarrays to probe gene expression in Kas-1 and Tsu-1 ecotypes of Arabidopsis thaliana revealed conserved rosette gene expression responses to Fe deficiency. Fe regulated genes included known metal homeostasis-related genes, and a number of genes of unknown function. Kas and Tsu Arabidopsis seedlings were grown on complete media for 24 d, and then put on complete or -Fe media and collected after 24 and 48 h.
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