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ENF1 (enlarged fil expression domain1) vs wild-type Col.

ABSTRACT: ENF1 gene (AT1G79440) encodes succinic semialdehyde dehydrogenase. Loss-of-function mutant of ENF1 shows pleiotropic phenotypes, including abnormal gene expression along the adaxial-abaxial axis in leaf development. enf1-1 allele has a point mutation in the splicing accepter site of 11th intron of ENF1. enf1-6 allele has T-DNA insertion in 5th exon of ENF1.

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE24895 | GEO | 2013/10/21

SECONDARY ACCESSION(S): PRJNA132075

REPOSITORIES: GEO

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ENF1 (enlarged fil expression domain1) vs wild-type Col.

Project description:ENF1 gene (AT1G79440) encodes succinic semialdehyde dehydrogenase. Loss-of-function mutant of ENF1 shows pleiotropic phenotypes, including abnormal gene expression along the adaxial-abaxial axis in leaf development. enf1-1 allele has a point mutation in the splicing accepter site of 11th intron of ENF1. enf1-6 allele has T-DNA insertion in 5th exon of ENF1. Differential gene expression between in enf1 and in wild type was measured at shoot apex of six-day-after-sowing seedlings. Independent experiments for wild type, enf1-1, and enf1-6 were performed four, three, and three times, respectively.

2013-10-21 | E-GEOD-24895 | biostudies-arrayexpress

662107

Project description:Adaxial and Abaxial Leaf Metagenomes

| PRJNA591421 | ENA

CRABS CLAW positively regulates genes involved in the establishment of both abaxial and adaxial identity in Arabidopsis

Project description:CRABS CLAW (CRC) encodes a transcription factor of the plant-specific YABBY class in the model plant Arabidopsis thaliana. This gene is highly expressed in the abaxial (external) domain of the gynoecium wall and contributes to the establishment of abaxial-adaxial (external-internal) polarity in that tissue. Here we derive a list of putative target genes of CRC, which include AUXIN RESPONSE FACTOR4 (ARF4) and ASSYMETRIC LEAVES1 (AS1), both of which are known to be involved in the establishment of abaxial-adaxial polarity in lateral organs. ETTIN (ETT), which is partially redundant with ARF4, was not identified as a direct target of CRC, and this observation led us to predict that crc/ett double mutants might resemble ett/arf4 double mutants, which show a very strong breakdown of abaxial-adaxial polarity in the gynoecium wall. We have confirmed this prediction by constructing double mutants using several available mutant alleles of crc, ett and arf4. Interestingly, AS1 plays a role in the establishment of adaxial tissue identity in lateral organs, though its expression is not restricted to the adaxial domain. The observed positive regulation of AS1 by CRC may thus occur very early in gynoecium development, before CRC expression becomes polarised, or at later stages of development, specifically in the abaxial domain.

2021-03-05 | GSE14659 | GEO

Methylation Changes in Soybean Early Maturation Seed Compartments Using LCM

Project description:What methylation changes are occurring in different compartments of early maturation stage seed largely remains unknown. To uncover the possible role of DNA methylation in different compartments of early maturation stage seed, we characterized the methylome of two major compartments in embryonic cotyledon: cotyledon abaxial parenchyma (EM-COT-ABPY) and cotyledon adaxial parenchyma (EM-COT-ADPY) using Illumina sequencing. Illumina sequencing of bisulfite-converted genomic DNA from cotyledon abaxial parenchyma (EM-COT-ABPY) and cotyledon adaxial parenchyma (EM-COT-ADPY) compartments.

2012-05-11 | E-GEOD-37893 | biostudies-arrayexpress

Single cell sequencing reveals phloem loading occurs via the abaxial bundle sheath cells in maize leaves [scRNA-seq]

Project description:Leaves are asymmetric, with differential functionalization of abaxial and adaxial tissues. The bundle sheath (BS) surrounding the vasculature of the C3 crop barley is dorsoventrally differentiated into three domains: adaxial structural, lateral S-type, and abaxial L-type. S-type cells seem to transfer assimilates towards the phloem. Here we used single-cell RNA sequencing to investigate BS differentiation in C4 maize. Abaxial BS (abBS) cells of rank-2 intermediate veins specifically expressed three SWEET sucrose uniporters (SWEET13a, b, and c) and UmamiT amino acid efflux transporters. SWEET13a, b, c were also identified in the phloem parenchyma (PP). Thus maize acquired a unique mechanism for phloem loading in which abBS cells provide the main pathway for apoplasmic sucrose transfer towards the phloem. This pathway predominates in veins responsible for phloem loading (rank-2 intermediate), while rank-1 intermediate and major veins export sucrose from the phloem parenchyma (PP) adjacent to the sieve element companion cell (SE/CC) complex, as in Arabidopsis. We surmise that abBS identity is subject to dorsoventral patterning and has components of PP identity. The observations provide first insights into the unique properties of abBS cells, cells previously considered to fulfill the same functions as other bundle sheath cells (BSCs), and a basis for understanding the C4 syndrome.

2021-03-02 | GSE157757 | GEO

Single cell sequencing reveals phloem loading occurs via the abaxial bundle sheath cells in maize leaves [bulk RNA-seq]

2021-03-02 | GSE157758 | GEO

Analysis of differentially expressed proteins （DEPs） in tomato leaves under the abaxial leafy supplemental lightning (AB) and the adaxial leafy supplemental lightning (AD)

Project description:Analysis of differentially expressed proteins （DEPs） in tomato leaves under the abaxial leafy supplemental lightning (AB) and the adaxial leafy supplemental lightning (AD)

2022-11-18 | PXD038211 | iProX

Expression profiling of shoot apices of 35S::WOX1:GR seedlings transiently treated with DEX

Project description:The WOX1 transcription factor is a multifunctional regulator of lateral-organ development that acts as a transcriptional repressor. WOX1 promotes lamina growth, controls marginal tissue differentiation and is involved in establishment and maintenance of the adaxial-abaxial pattern from the middle domain of leaf primordia. To identify the WOX1 downstream genes, we performed a microarray analysis of shoot apices of transgenic Arabidopsis thaliana lines harboring 35S::WOX1:glucocorticoid receptor (GR) in which the WOX1 function was temporarily enhanced by dexamethasone (DEX).

2018-05-11 | GSE79647 | GEO

Methylation Changes in Soybean Early Maturation Seed Compartments Using Laser Capture Microdissection (LCM)

Project description:What methylation changes are occurring in different compartments of early maturation stage seed largely remains unknown. To uncover the possible role of DNA methylation in different compartments of early maturation stage seed, we characterized the methylome of two major compartments (abaxial parenchyma and adaxial parenchyma) in embryonic cotyledon, four major compartments (parenchyma, plumule, root tip, and vascular) in embryonic axis, and seed coat layers (parenchyma and palisade) using Illumina sequencing. The whole seed coat and embryonic cotyledons were captured using LCM to serve as controls.

2012-05-11 | GSE37893 | GEO

Transcriptome analyses of ragged seedling2 shoot apical meristem (SAM) vs non-mutant SAM

Project description:The recessive mutation ragged seedling2-R (rgd2-R) conditions defective lateral development of maize leaves. Although dorsiventral patterning is established in rgd2-R mutant leaves, some swapping of adaxial/abaxial epidermal identity may occur. Molecular analyses indicate that RGD2 is required for the coordination of dorsiventral and lateral patterning during maize leaf development, yet the RGD2 gene product and the mechanisms of RGD2 function are unknown. In order to investigate the genetic mechanisms downstream of RGD2 gene function, SAM-specific transcriptional profiling of rgd2-R is compared to that of nonmutant using laser microdissection microarray. Whole SAMs were laser-microdissected from rgd2-R mutant and non-mutant seedlings grown under the same controlled conditions. Microarray profiles were generated for 28,671 maize cDNAs contained on gene chips SAM 1.1and SAM 3.0 (http://www.plantgenomics.iastate.edu/maizechip/). Two-condition experiment, rgd2 SAM vs non-mutant SAM cells. 6 Biological replicates with dye swap. One replicate per array.

2008-05-02 | E-GEOD-11325 | biostudies-arrayexpress

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