Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Investigation of barley brittle stem mutants

ABSTRACT: The barley brittle stem mutants, fs2, designated X054 and M245, have reduced levels of cellulose compared with their isogenic parents Ohichi and Shiroseto. A custom-designed microarray, based on Agilent technology and including genes involved in cell wall metabolism, was used to compare transcript levels in the mutant and parental lines. For both mutants, the microarray revealed a marked decrease in mRNA for the HvCesA4 cellulose synthase gene in specific zones of stem internodes, and this was confirmed by quantitative PCR.

ORGANISM(S): Hordeum vulgare

PROVIDER: GSE17873 | GEO | 2010/07/23

SECONDARY ACCESSION(S): PRJNA119987

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Investigation of barley brittle stem mutants

Project description:The barley brittle stem mutants, fs2, designated X054 and M245, have reduced levels of cellulose compared with their isogenic parents Ohichi and Shiroseto. A custom-designed microarray, based on Agilent technology and including genes involved in cell wall metabolism, was used to compare transcript levels in the mutant and parental lines. For both mutants, the microarray revealed a marked decrease in mRNA for the HvCesA4 cellulose synthase gene in specific zones of stem internodes, and this was confirmed by quantitative PCR. Genes expression was measured for the upper and lower zones from the 4th internodes of stems. Plant were at Zadocks developmental stage 49. Gene expression was compared between mutants and their wildtype parents.

2010-07-23 | E-GEOD-17873 | biostudies-arrayexpress

Hordeum vulgare

Project description:Investigation of barley brittle stem mutants

| PRJNA119987 | ENA

RNA-Seq of developing shoot apical meristems of barley cultivar Bonus and two allelic praematurum-c/mat-c mutants mat.c.907 (NGB 116862) and mat.c.943 (NGB 117474) grown under long- and short-day photoperiods

Project description:Natural variation in the barley homolog of CENTRORADIALIS (HvCEN), was found to contribute to the expansion of barley cultivation into diverse habitats. It has been shown that induced hvcen mutants, originally designated as praematurum-c/maturity-c (mat-c) mutants, flowered a few days earlier under natural long-day conditions. All hvcen mutants flowered early and showed a reduction in spikelet number per spike, tiller number and yield in the outdoor experiments. Further evaluating development of main shoot apex of hvcen mutants and wild type under controlled long day and short day conditions showed that mutations in hvcen accelerated spikelet initiation and reduced axillary bud number in a photoperiod independent manner, but promoted floret development only under long days. In this project we investigate the pleiotropic effects of HvCEN on developmental timing and shoot and spike morphologies of barley and dependence on these effects on photoperiod. This RNAseq dataset was generated to identify the putative transcriptional targets of HvCEN. To this end, we used global transcriptome profiling in developing shoot apices and inflorescences of two allelic hvcen mutants (mat-c.907 and mat-c.943) and wild-type (Bonus) plants grown under long- and short-day photoperiods.

2019-04-23 | E-MTAB-7807 | biostudies-arrayexpress

Transcriptome Analysis of Cold Acclimation in Barley Albina and Xantha Mutants1

Project description:we investigated the transcriptome of barley albina and xantha mutants and the corresponding wild type to assess the effect of the chloroplast on expression of cold-regulated genes Keywords: stress response

2009-04-29 | GSE10332 | GEO

Microarray of barley genes in wheat-barley chromosome addition lines

Project description:Transcript levels of barley genes were examined in the wheat-barley chromosome addition lines having one of six barley chromomes, 2H, 3H, 4H, 5H, 6H and 7H. ****[PLEXdb(http://www.plexdb.org) has submitted this series at GEO on behalf of the original contributor, Seungho Cho. The equivalent experiment is BB8 at PLEXdb.]

2011-11-22 | GSE33415 | GEO

DNA damage repair in barley following double-strand breaks and its dependence on ATR

Project description:Maintaining genome integrity presents a particular challenge for plants due to their sedentary lifestyle, which disables direct avoidance of unfavorable external conditions. Additionally, plants’ metabolic processes generate reactive molecules as by-products of e.g. photosynthesis, creating internal DNA-damaging conditions. Due to this, plants have developed a unique and strictly regulated web of DNA damage responses (DDR). We initiated analysis of the DDR system in cultivated barley (Hordeum vulgare), a temperate cereal model with a large and repeat rich genome. A series of DNA damaging assays was established to describe barley plants’ phenotypic response to chemically induced DNA double-strand breaks. The efficacy of assays as a tool to be used for assessing potential new DDR barley mutants was demonstrated. DNA damage response network activation in barley was assessed by transcriptome analysis using RNA sequencing for wild type and mutant in the DDR signaling kinase ATAXIA TELANGIECTASIA MUTATED AND RAD3-RELATED (ATR). Considering the barley genome had only recently been sequenced, and it lacks the in-depth gene analysis, a list of potential DNA damage response genes in barley was compiled based on their homology with Arabidopsis genes. The comparison of transcripts in wild-type plants and atr mutants following genotoxic stress

2023-10-19 | GSE235051 | GEO

VRS2 regulates hormone-mediated inflorescence patterning in barley

Project description:In the present study, we elucidate the molecular and hormonal role of the Six-rowed spike 2 (Vrs2) — a SHORT INTERNODES (SHI) transcriptional regulator during barley inflorescence and shoot development. Here we show that Vrs2 is specifically involved in floral organ patterning and phase duration by maintaining hormonal homeostasis and gradients during normal spike development; but similarly influenced plant stature traits. Furthermore, we establish a first link between the SHI-protein family and sucrose metabolism during organ growth and development, which may have implications for deeper molecular insights into crops' inflorescence and plant architecture. Differential gene expression study between BW-NIL(vrs2.e) vs. Bowman was done on the extracted RNA from immature shoot apices to infer the differences at level of expression at early spike developmental stages (triple mound (TM), glume primordia (GP), stamen primordia (SP), awn primordia (AP)).

2016-10-07 | GSE87731 | GEO

Transcription profiling of barley albina and xantha mutants1

2009-05-11 | E-GEOD-10332 | biostudies-arrayexpress

Transcriptome analysis of the barley fast neutron mutants nec3

Project description:Affymetrix Barley1 GeneChip microarray was used to study the transcriptome of two fast neutron barley mutants FN362 and FN363 allelic to characterized necrotic leaf spot 3 (nec3) mutants. PCR screening of the 21 genes at least two-fold down-regulated in mutants did not show any deletions in the genome of mutants and, thus, failed to identify a gene responsible for the nec3 mutant phenotype suggesting that either probe set for the NEC3 gene is not on the Barley1 GeneChip, or that the expression of wt NEC3 is confined to specific developmental stage or tissue type.

2010-08-25 | GSE23775 | GEO

Transcriptome analysis of the barley fast neutron mutants nec3

2010-08-25 | E-GEOD-23775 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data