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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Targets of ALTERED PHLOEM DEVELOPMENT (APL)

ABSTRACT: We profiled transcripts from sorted phloem cells of wild-type and apl mutants to identify the genes regulated by APL in phloem. We profiled transcripts from sorted phloem cells of wild-type and apl mutants to identify the genes regulated by APL in phloem. Three biological replicates for control WT and apl mutants were used in thes study. Root tissue was protoplasted and sorted using fluorescence-activated cell sorting (FACS). Total RNA was extracted from GFP+ protoplasts.

ORGANISM(S): Arabidopsis thaliana

SUBMITTER: Ykä Helariutta

PROVIDER: E-GEOD-55222 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Plant development. Arabidopsis NAC45/86 direct sieve element morphogenesis culminating in enucleation.

Furuta Kaori Miyashima KM Yadav Shri Ram SR Lehesranta Satu S Belevich Ilya I Miyashima Shunsuke S Heo Jung-ok JO Vatén Anne A Lindgren Ove O De Rybel Bert B Van Isterdael Gert G Somervuo Panu P Lichtenberger Raffael R Rocha Raquel R Thitamadee Siripong S Tähtiharju Sari S Auvinen Petri P Beeckman Tom T Jokitalo Eija E Helariutta Ykä Y

Science (New York, N.Y.) 20140731 6199

Photoassimilates such as sugars are transported through phloem sieve element cells in plants. Adapted for effective transport, sieve elements develop as enucleated living cells. We used electron microscope imaging and three-dimensional reconstruction to follow sieve element morphogenesis in Arabidopsis. We show that sieve element differentiation involves enucleation, in which the nuclear contents are released and degraded in the cytoplasm at the same time as other organelles are rearranged and t ...[more]

PMID: 25081480

Similar Datasets

Targets of ALTERED PHLOEM DEVELOPMENT (APL)

Project description:We profiled transcripts from sorted phloem cells of wild-type and apl mutants to identify the genes regulated by APL in phloem. We profiled transcripts from sorted phloem cells of wild-type and apl mutants to identify the genes regulated by APL in phloem.

2014-08-25 | GSE55222 | GEO

Transcription profiling of Arabidopsis uvr8-1 and hy5-1 mutants exposed to UV-B and white light

Project description:This experiment tests the effect of physiological dose of UV-B radiation on wild-type and uvr8-1 (UV Resistance Locus 8) and hy5-1 transcription factor mutants of Arabidopsis.

2007-06-27 | E-GEOD-3533 | biostudies-arrayexpress

Arabidopsis thaliana

Project description:Targets of ALTERED PHLOEM DEVELOPMENT (APL)

| PRJNA238903 | ENA

E-GEOD-55222

Project description:Transcription profiling by array of Arabidopsis phloem from Altered Phloem Development (APL) mutants and wild type controls

2014-09-02 | E-GEOD-55222 | ExpressionAtlas

Chromatin immunoprecipitation to identify binding sites for Gata4, Mef2a, Nkx2.5, Srf, p300, Pol_II, H3ac, H3K4me1 in mouse cardiomyocyte cell line, HL1

Project description:The aim of the experiment was to identify genome wide binding sites for Gata4, Mef2a, Nkx2.5, Srf, p300, Pol_II, H3ac, H3K4me1 by using Chromatin Immunoprecipitation followed by microarray analysis (ChIP-chip) in HL1 cells.

2011-01-05 | E-TABM-378 | biostudies-arrayexpress

Comparison between WT and apl in a novel in vitro tissue culture system, VISUAL

Project description:We established a novel in vitro tissue culture system (named VISUAL), in which xylem and phloem differentiation can be induced with Arabidopsis thaliana cotyledons To compare gene expression profiles between WT and apl during vascular development, we performed GeneChip analysis using VISUAL.

2016-05-25 | GSE80026 | GEO

Bird Factors integrate positional signals to coordinate asymmetric cell division and cell fate

Project description:We sorted for GFP+ cells using the enhancer trap J0571 with the UAS promoter driving the expression of different BIRD genes. Different genetic backgrounds are use and listed below. Seedlings were grown for 5 days. J0571 and J0571-UAS-BIRDS sorted fluorecent cells were harvested for RNA extraction.

2015-11-02 | E-GEOD-60157 | biostudies-arrayexpress

Transcriptome analysis of the Arabidopsis phloem

2008-09-01 | GSE10247 | GEO

Transcription profiling of Arabidopsis phloem

Project description:This sudy focuses on the identification of transcripts in the shoot phloem of the model plant Arabidopsis thaliana. Transcripts expressed in the phloem tissue (parenchyma cell, companion cell, sieve element) were excised by laser microdissection pressure catapulting (LMPC). These were compared with transcripts isolated from leaf phloem exudates by EDTA-chelation technique. Optimization of sample harvest resulted in RNA of high quality from both sources. Modifications of the RNA amplification procedure obtained RNA of sufficient yield and quality for microarray experiments. Microarrays (Affymetrix, ATH1) hybridized with RNA derived from phloem tissue by LMPC or phloem sap allowed us to differentiate between phloem located and mobile transcript species. The datasets provide a search criterion for phloem-based signals and will facilitate reverse genetic studies and forward genetic screens for phloem and long distance RNA signaling mutants. Experiment Overall Design: Arabidopsis plants were cultivated under short day conditions (8 h light) until flowering. Phloem tissue was isolated by Lasermicrodissection and Pressure Catapulting (LMPC) and phloem exudate by EDTA-chelation technique. In both experiments poly-A-RNA was extracted and amplified before hybridization of microarrays (Affymetrix, ATH1). For both experiments three LMPC-derived phloem tissue (LMPC-derived phloem_1-3) and three phloem exudate samples (Phloem exudate_1-3) were analysed. Precise protocols of plant growth, sample harvest, RNA extraction and amplification are provided in Deeken et al., 2008.

2008-10-25 | E-GEOD-10247 | biostudies-arrayexpress

Project description:As a prerequisite for constant growth, plants can produce vascular tissues at different sites in their postembryonic body. In particular, the formation of vascular tissues during longitudinal and radial expansion of growth axes differs fundamentally with respect to its anatomical configuration. This raises the question to which level regulatory mechanisms of vascular tissue formation are shared throughout plant development. Here, we show that, similar as primary phloem formation during longitudinal growth, the cambium-based formation of secondary phloem depends on the function of SMXL genes. Using promoter reporter lines, we observe that SMXL4 and SMXL5 activities are associated with different stages of secondary phloem formation in Arabidopsis stems and that specific loss of SMXL5 function results in the absence of secondary phloem. Interestingly, the additional disruption of SMXL4 activity increases cell proliferation rates in the cambium region without forming secondary phloem. Based on genome-wide transcriptional profiling and expression analyses of phloem-related markers we conclude that early steps of phloem formation are impaired in smxl4;smxl5 double mutants and that additional cambium-derived cells fail in establishing any phloem-related feature. Our results show that molecular mechanisms determining primary and secondary phloem share important features but differ slightly with SMXL5 playing a more dominant role in the formation of secondary phloem.

2019-04-04 | GSE129190 | GEO

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