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Responses of tobacco BY-2 cells to boron deprivation

ABSTRACT: Boron (B) is an essential micronutrient for vascular plants. Boron works to build the cell wall structure by forming borate ester cross-links with pectin, and the deficiency of this element brings about oxidative damage and cell death. However, the process via which B deficiency leads to such serious damage has not been well understood. We investigated the temporal changes in metabolism of B-deprived cultured tobacco (Nicotiana tabacum) BY-2 cells by analyzing their gene expression using cDNA microarray.

ORGANISM(S): synthetic construct Nicotiana tabacum

PROVIDER: GSE37649 | GEO | 2012/05/05

SECONDARY ACCESSION(S): PRJNA163317

REPOSITORIES: GEO

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Responses of tobacco BY-2 cells to boron deprivation

Project description:Boron (B) is an essential micronutrient for vascular plants. Boron works to build the cell wall structure by forming borate ester cross-links with pectin, and the deficiency of this element brings about oxidative damage and cell death. However, the process via which B deficiency leads to such serious damage has not been well understood. We investigated the temporal changes in metabolism of B-deprived cultured tobacco (Nicotiana tabacum) BY-2 cells by analyzing their gene expression using cDNA microarray. Three-day-old cells were deprived of B by washing with and transferred to B-free growth media ("-B" cells). Cells similarly treated with standard growth media were employed as a control for the effects of mechanical stress ("+B cells"). Cells were sampled at 1, 3, 6, 12 and 36 h after transfer to the B-free or standard media. Cells without washing treatment were also included in the analysis ("before-treatment cells"). Two independent sets of samples were analyzed (replicate 1 and 2).

2012-05-04 | E-GEOD-37649 | biostudies-arrayexpress

Boron homeostasis functions in meristem maintenance in maize by regulating knotted1, cell cycle, and hormone signaling pathways

Project description:Here we report, that levels of the micronutrient boron are instrumental for meristem maintenance by integration into specific meristem maintenance pathways. We used RNA-seq analysis of the boron deficient maize mutant tassel-less1 to identify early molecular defects induced by boron deficiency in maize reproductive (tassel) meristems. RNA-seq results were independently verified through downstream in silico, double mutant, microscopy, proteomic, and molecular analyses.

2022-08-31 | GSE169600 | GEO

Expression data from arabidopsis root in response to boron toxicity

2011-11-01 | GSE32659 | GEO

Expression data from arabidopsis root in response to boron toxicity

Project description:Boron is an essential micronutrient for plants and is taken up in the form of boric acid (BA). Despite this, a high BA concentration is toxic for the plants, inhibiting root growth and is thus a significant problem in semi-arid areas in the world. In this work, we report the molecular basis for the inhibition of root growth caused by boron. We used microarrays to detail the global gene expression underlying boron toxicity in roots. 5-day-old arabidopsis plants were transferred to medium with high boron concentration (½ MS medium supplemented with 5mM BA) and control conditions (½ MS medium). We determined that 5 mM BA is the minimum concentration that produces the maximum effect, stunting root growth by ~50% after 5 days as compared with control conditions. We analyzed the transcript profiles in roots by microarray analysis (Affymetrix ATH1 Genome Array). We compared the transcripts obtained at 12 hrs of BA treatment.

2011-11-01 | E-GEOD-32659 | biostudies-arrayexpress

Physiological and Molecular Characterization of an Boron-Resistant Saccharomyces cerevisiae Strain Obtained by Evolutionary Engineering

Project description:One of the essential or beneficial micronutrient for plants and animals is boron that is an ultra-trace element. Although boron can inhibit the growth of Saccharomyces cerevisiae around 80 mM, it is also a growth supplement. However, little information is currently available regarding the molecular mechanisms and essentiality of boron. In this paper, the approach was to generate S. cerevisiae mutants with high boron resistance by using evolutionary engineering strategy that was previously applied successfully. Boron-resistant S. cerevisiae mutants were obtained and their phenotypic and physiological characteristics were determined. In order to identify the molecular mechanisms implicated in boron resistance, the whole transcriptomes and genome sequence analysis of wild type and one of the most resistant mutants were compared.

2023-02-07 | GSE224764 | GEO

Altered branched-chain amino acid metabolism due to boron deficiency

Project description:The importance of boron (B) for living organisms is a puzzling matter. Despite the long established essential micronutrient role of B for vascular plants, only recent research gave insights on the mechanisms of its uptake, transport and direct participation in cell-wall formation. Despite that its precise role in plant metabolism remains elusive. In an attempt to clarify the role of B in plant metabolism the gene expression profile of a persistent response to B suppression was evaluated. For that purpose, the transcriptional profile of Arabidopsis thaliana subjected to 2 days of B deficiency was analyzed and the genes that kept responding 4 days after B deficiency were selected. The gene expression profile of Arabidopsis plants submitted to Ca deficiency was also evaluated and this data cross-compared with the 2 days transcriptional profile obtained under B deficiency.

2015-12-25 | GSE67768 | GEO

Expression data from Arabidopsis root in response to boron limitation

2013-11-13 | GSE52208 | GEO

Expression data from Arabidopsis root in response to boron limitation

Project description:Boron is essential for plants, and boron availability in soil is an important determinant of agricultural production. Boron availability in soil is limited at many regions in the world, including Japan. Under boron deficient conditions, leaf expansion and root elongation, apical dominance, flower development,and fruit and seed sets are inhibited. In this work, we analyzed the mRNA expression of genes containing AUGUAA motif in their 5M-bM-^@M-2-UTR, which is induced by boron. We used microarrays to detail the global gene expression underlying boron deficiency in roots. Plants were grown on solid medium containing 1% (w/v) sucrose, 1.5% (w/v) gellan gum and 100 M-BM-5M boron for 10 days and then transferred to 0.3 and 100 M-BM-5M boron for 2 days. Plates were placed vertically at 22M-BM-0C in a growth chamber under long-day conditions (16 h light/8 h dark cycle). We analyzed the transcript profiles in roots by microarray analysis (Affymetrix ATH1 Genome Array).

2013-11-13 | E-GEOD-52208 | biostudies-arrayexpress

Effects of short-term boron deficiency on gene expression in Pyrus betulaefolia Bunge roots

Project description:To investigate the possible molecular mechanisms of boron deficiency tolerance in roots, we explored the internal changes of the gene expession of Pyrus betulaefolia Bunge roots after 24 hours boron deficiency

2023-05-12 | GSE218373 | GEO

Transcriptome Profiling of Black Poplar under Boron Toxicity Revealed Genetic Regulation of Boron Uptake, Transport and Detoxification

Project description:Poplars are known to be highly tolerant species to boron toxicity and accumulation. However, genes and molecular networks responsible in boron toxicity tolerance have not been investigated yet. Therefore, we performed a pot experiment with 20 black poplar clones collected from the vicinity of boron mines and polluted areas to investigate its potential role in phytoremediation and to select the most boron toxicity tolerant genotype. Trees were treated with irrigation water containing seven elevated boron concentrations from 0 to 160 ppm. Then a microarray based comparative transcriptome profiling was conducted to identify boron toxicity regulated genes responsible in defence responses of black poplar. The results of the study indicated that black poplar is quite suitable for phytoremediation of boron pollution. It could resist 15 ppm soil B content and < 1600 mg/kg boron accumulation in leaves which are highly toxic concentrations for almost all agricultural plants. Transcriptomics results of study revealed totally 1625 and 1419 altered probe sets under boron toxicity in leaf and root tissues, respectively. The highest induction were recorded for the probes sets annotated to tyrosine aminotransferase, ATP binding cassette transporters, glutathione S transferases and metallochaperone proteins. Strong up regulation of these genes attributed to internal excretion of boron into the cell vacuole and existence of detoxification processes in black poplar. Many candidate genes functional in signalling, gene regulation, antioxidation, boron uptake, transport and detoxification processes were also identified in the current study. This is the first transcriptomic study identifying boron toxicity regulated poplar genes and their potential role in boron toxicity tolerance.

2016-06-28 | GSE83745 | GEO

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