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MYB36 regulates the transition from proliferation to differentiation in the Arabidopsis root

ABSTRACT: Stem cells are defined by their ability to self-renew and produce daughter cells that proliferate and mature. These maturing cells transition from a proliferative state to a terminal state through the process of differentiation. In the Arabidopsis thaliana root the transcription factors SCARECROW and SHORTROOT regulate specification of the bi-potent stem cell that gives rise to the cortical and endodermal progenitors. Subsequent progenitor proliferation and differentiation generates mature endodermis, marked by the Casparian Strip: a cell wall modification that prevents ion diffusion into and out of the vasculature. We identified a transcription factor, MYB36 that regulates the transition from proliferation to differentiation in the endodermis. We show that SCARECROW directly activates MYB36 expression, which in turn directly regulates essential Casparian Strip formation genes. In addition, MYB36 represses extra divisions within the endodermis. Our results demonstrate that MYB36 is a critical positive regulator of differentiation and negative regulator of cell proliferation.

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE70584 | GEO | 2015/07/20

SECONDARY ACCESSION(S): PRJNA289110

REPOSITORIES: GEO

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MYB36 regulates the transition from proliferation to differentiation in the Arabidopsis root

Project description:Stem cells are defined by their ability to self-renew and produce daughter cells that proliferate and mature. These maturing cells transition from a proliferative state to a terminal state through the process of differentiation. In the Arabidopsis thaliana root the transcription factors SCARECROW and SHORTROOT regulate specification of the bi-potent stem cell that gives rise to the cortical and endodermal progenitors. Subsequent progenitor proliferation and differentiation generates mature endodermis, marked by the Casparian Strip: a cell wall modification that prevents ion diffusion into and out of the vasculature. We identified a transcription factor, MYB36 that regulates the transition from proliferation to differentiation in the endodermis. We show that SCARECROW directly activates MYB36 expression, which in turn directly regulates essential Casparian Strip formation genes. In addition, MYB36 represses extra divisions within the endodermis. Our results demonstrate that MYB36 is a critical positive regulator of differentiation and negative regulator of cell proliferation. 12 samples analyzed: 3 biological replicates each from 1) wild type (Col-0) whole root, 2) mutant (myb36-1) whole root, 3) wild type (Col-0) sorted endodermis, 4) mutant (myb36-1) sorted endodermis

2015-07-20 | E-GEOD-70584 | biostudies-arrayexpress

Endodermis-specific Receptor-like Kinase (ERK1) is required for the deposition of lignin in the Casparian strip in the root

Project description:The Casparian strip constitutes a physical diffusion barrier formed by the polar deposition of lignin in the root endodermis. The polar deposition of lignin is thought to be mediated by the scaffolding activity of membrane bound Casparian Strip domain proteins (CASPs) and the dirigent domain-containing protein Enhanced Suberin1 (ESB1). Here, we show that the endodermis-specific receptor-like kinase (ERK1), is part of this machinery, playing an essential role in the localization of CASP proteins and in the deposition of lignin, which ultimately are required for the formation of afunctional Casparian strip. ERK1 is localized to the cytoplasm and nucleus of the endodermis, and is part of a signalling pathway that implicates the circadian clock regulator Time for Coffee (TIC). In addition, we found that loss of ERK1 and TIC disrupts the Casparian strip organisation and alters composition of the root microbiome.

2021-09-08 | PXD013861 | Pride

Cell signalling by microRNA165/6 directs gene dose dependent root cell fate

Project description:A key question in developmental biology is how cells exchange positional information for proper patterning during organ development. In plant roots the radial tissue organization is highly conserved with a central vascular cylinder in which two water conducting cell types, protoxylem and metaxylem, are patterned centripetally. We show that this patterning occurs through crosstalk between the vascular cylinder and the surrounding endodermis mediated by cell-to-cell movement of a transcription factor in one direction and microRNAs in the other. SHORT ROOT, produced in the vascular cylinder, moves into the endodermis to activate SCARECROW. Together these transcription factors activate MIR165a and 166b. Endodermally produced miR165/6 then acts to degrade its target mRNAs encoding class III homeodomain-leucine zipper transcription factors in the endodermis and stele periphery. The resulting differential distribution of target mRNA in the vascular cylinder determines xylem cell types in a dosage dependent manner. To investigate the global regulation of SHR and SCR in the root, direct and indirect target genes of SHR and SCR were cross-compared with selected cell type specific expression profiles in the Arabidopsis root published in Birnbaum et al. (2003), Nawy et al. (2005), Lee et al. (2006), and Brady et al. (2007) [pubmed IDs: 14671301, 15937229, 16581911, 17975066]. Furthermore, the mature endodermis specific transcript profiles were generated using a GFP marker line, E30, and used together with published profiles in this comparison.

2010-04-27 | E-GEOD-16469 | biostudies-arrayexpress

Project description:Two endodermis-specific Receptor-like Kinases are required for the deposition of cell wall components in the Casparian strip

| PRJNA543397 | ENA

CASPARIAN STRIP INTEGRITY FACTOR 2 (CIF2) peptide induces SCHENGEN3 (SGN3) receptor-kinase dependent transcriptional changes

Project description:Here we show that the CASPARIAN STRIP INTEGRITY FACTOR 2 peptide induces SCHENGEN3 (SGN3) receptor-kinase dependent transcriptional changes both in short-term (30 min) and long-term (480 min) transcriptional changes in roots of Arabidopsis thaliana. We deposit RNA-seq data of wildtype, sgn3, and cif1,2 with or without the CIF2 peptide treatment. Wildtype and cif1,2 presented large transcriptional changes, while the sgn3 receptor mutant showed almost no difference after the treatment.

2020-04-22 | GSE144182 | GEO

Cell signalling by microRNA165/6 directs gene dose dependent root cell fate

2010-04-15 | GSE16469 | GEO

Arabidopsis thaliana

Project description:MYB36 regulates the transition from proliferation to differentiation in the Arabidopsis root

| PRJNA289110 | ENA

Glucocorticoid Regulates Mesenchymal Cell Differentiation Required for Perinatal Lung Morphogenesis and Function

Project description:We integrated genome-wide gene expression profiling, ATAC-seq, and single cell RNA-seq data in mice in which GR was deleted or activated to identify the cellular and molecular mechanisms by which glucocorticoids control prenatal lung maturation. GR activated differentiation of a newly defined proliferative mesenchymal progenitor cell (PMP) into matrix fibroblasts (MFB), in part by directly activating extracellular matrix-associated target genes, including Fn1, Col16a4, and Eln and modulating FGF, VEGF, JAK-STAT and WNT signaling. Loss of mesenchymal GR signaling blocked PMP differentiation into mature MFB, which in turn caused proliferation of SOX9+ alveolar epithelial progenitor cells and inhibited differentiation of more mature AT2 and AT1 cells. GR signaling controls genes required for differentiation of a subset of proliferative mesenchymal progenitors into matrix fibroblasts in turn, regulating signals controlling AT2/AT1 progenitor cell proliferation and differentiation, identifying cells and processes by which glucocorticoid signaling regulates fetal lung function.

2020-06-04 | GSE136954 | GEO

SHORT-ROOT and SCARECROW regulate leaf growth in Arabidopsis by stimulating S-phase progression of the cell cycle

Project description:SHORT-ROOT (SHR) and SCARECROW (SCR) are required for stem cell maintenance in the Arabidopsis thaliana root meristem, ensuring its indeterminate growth. Mutation of SHR and SCR genes results in disorganization of the quiescent center and loss of stem cell activity, resulting in the cessation of root growth. This manuscript reports on the role of SHR and SCR in the development of leaves, which, in contrast to the root, have a determinate growth pattern and lack a persistent stem-cell niche. Our results demonstrate that inhibition of leaf growth in shr and scr mutants is not a secondary effect of the compromised root development, but is caused by a direct effect on cell division in the leaves: a reduced cell division rate and early exit of proliferation phase. Consistent with the observed cell division phenotype, the expression of SHR and SCR genes in leaves is closely associated with cell division activity in most cell types. The increased cell cycle duration is due to a prolonged S-phase duration, which is mediated by up-regulation of cell cycle inhibitors known to restrain the activity of the transcription factor, E2Fa. Therefore, we conclude that, in contrast to their specific role in cortex/endodermis differentiation and stem cell maintenance in the root, SHR and SCR primarily function as general regulators of cell proliferation in leaves. Total RNAs were extracted using RNeasy plant mini kit (Qiagen) from vegetative part of seedlings at stage 1.04 grown in vitro. RNAs from three biological repeats of wild type (wt, control) and scr and shr mutants were submitted to ATH1 array hybridization.

2010-08-26 | E-GEOD-21629 | biostudies-arrayexpress

Redundancies in low K signaling of neo-tetraploids leads in increased shoot K [RNA-seq_1]

Project description:Whole Genome Duplication (WGD) events occurred frequently during land plant evolution and their long term benefits to neo-functionalization of genes and speciation is well known (Baduel et al., 2018). However short term benefits, important for the establishment of a new population, are more difficult to observe until Chao et al., 2013 described a fitness advantage under high salinity. Additionally shoot K levels were higher in neo-tetraploids, an important feature since K uptake becomes increasingly more difficult on highly saline soil. The molecular basis for these phenotypes was not known. Here we analyze neo-tetraploid Arabidopsis thaliana plants using RNAseq and ICP-MS to evaluate the effect of mutations and ploidy on the gene expression and shoot ionome. We are able to show that neo-tetraploid plants induce low-potassium (K) signaling to increase their shoot K content. However, we also show that this low-K signaling is distinct form previously studied, externally applied low-K signaling. In this way, we are able to identify new components of the K homeostasis network, which are required to regulate K demand. Additionally we are able to show that while individual components of the K uptake system are not sufficient to increase shoot K, a loss of root hairs abolished the ploidy K phenotype (PPP) as does a defective Casparian strip. Root hairs are the site of entry of K into the root and neo-tetraploids increase their root hair length and density (RHI) to facilitate their higher K demand. The Casparian strip on the other hand enables higher K concentration in the stele of the root, which is required for the increased K content in neo-tetraploids.

2022-07-31 | GSE180004 | GEO

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