Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

40 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptome analysis of male sterile maize mutants defective in somatic cell layer identities (tcl1, mtm00-06 and ms*6015) compared with fertile siblings

ABSTRACT: In order to better understand defects at the molecular level in male sterile maize mutants, we characterized 3 different mutants by microarray hybridization. Anthers were dissected and staged to be 1000 Î¼m in length (+/- 100 Î¼m), allowing us to analyze changes in transcriptome between siblings relatively close to the initial observation of morphological defects. All three of the mutants had morphological defects in the somatic layers of the anther, but only tcl1 and mtm00-06 male steriles show serial extra periclinal divisions compared to relatively minor defects in ms*6015 male steriles. For each mutant four biological replicates were used for both male sterile samples and fertile siblings with direct comparisons made between fertile and sterile siblings of the same mutant background.

ORGANISM(S): Zea mays

SUBMITTER: John Fernandes

PROVIDER: E-GEOD-78259 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Transcriptome analysis of male sterile maize mutants defective in somatic cell layer identities (tcl1, mtm00-06 and ms*6015) compared with fertile siblings

Project description:In order to better understand defects at the molecular level in male sterile maize mutants, we characterized 3 different mutants by microarray hybridization. Anthers were dissected and staged to be 1000 μm in length (+/- 100 μm), allowing us to analyze changes in transcriptome between siblings relatively close to the initial observation of morphological defects. All three of the mutants had morphological defects in the somatic layers of the anther, but only tcl1 and mtm00-06 male steriles show serial extra periclinal divisions compared to relatively minor defects in ms*6015 male steriles.

2016-07-01 | GSE78259 | GEO

Transcriptome profiling of maize anthers using genetic ablation to analyze pre-meiotic and tapetal cell types

Project description:Agilent oligonucleotide arrays were used to profile gene expression in dissected maize anthers of 3 types of male-sterile plants and their fertile siblings at four stages of development: after anther initiation, at the rapid mitotic proliferation stage, pre-meiosis, and meiotic prophase I. The male-sterile mutants (ms23, msca, and mac1) lack a range of normal cell types resulting from a temporal progression of anther failure. By combining the data sets from the comparisons between individual sterile and fertile anthers, candidate genes predicted to play important roles during maize anther development were assigned to stages and to likely cell types. Keywords: anther development, maize, male sterility 3 biological replicates of 3 different male-sterile mutants and their fertile siblings at 4 stages of anther development (36 arrays). Comparisons were done between male-sterile and fertile sibs at the same development stage.

2008-09-16 | E-GEOD-12756 | biostudies-arrayexpress

Transcriptome profiling of maize anthers using genetic ablation to analyze pre-meiotic and tapetal cell types

2008-09-16 | GSE12756 | GEO

The male sterility 8 mutation of maize disrupts the temporal progression of the transcriptome and results in the mis-regulation of metabolic functions

Project description:Phenotypes of maize male sterile 8 plants are small anthers, meiotic failure, shorter epidermal cells, and non-secreting tapetal cells. Excess callose accumulates around meiotic cells, which later abort. Thousands of transcriptome changes occur including ectopic activation of genes not expressed in fertile siblings, failure to express genes, and differential expression of genes shared with fertile siblings. Sixty-three differentially expressed proteins were identified after 2-D DIGE followed by LC/MS/MS, including those involved in metabolism and cell division. The majority were not identified by differential RNA expression. Keywords: anther development, maize, male-sterile, ms8

2010-08-20 | GSE23615 | GEO

The male sterility 8 mutation of maize disrupts the temporal progression of the transcriptome and results in the mis-regulation of metabolic functions

2010-08-20 | E-GEOD-23615 | biostudies-arrayexpress

Global transcriptome analysis of two ameiotic1 alleles in maize anthers: defining steps in meiotic entry and progression through prophase

Project description:This study compared the transcriptomes of maize anthers at both 1mm and 1.5mm lengths from male sterile mutants with either the am1-489 or am1-pra alleles as well as from fertile siblings of the mutant plants. Comparisons were done varying just the stage (1mm vs 1.5 mm), just the allele (am1-pra vs am1-489 at the same stage), and wild-type vs mutant (same stage and allele). Genes were categorized as On (expressed) or Off (not detected) and if both channels produced an intensity, the differential expression was determined. AM1 seems to be involved in establishing or stabilizing meiotic chromosomes and it had a profound impact on gene expression in the pollen mother cells during the maturation phase from 1.0 to 1.5 mm anther length. The two alleles shared some transcript changes but am1-489 showed a more dramatic loss (>3400) at 1.5mm than am1-pra. Most differentially expressed transcripts were allele-specific. KEYWORDS: male sterility, maize, microarray, meiosis Compared wild-type and male-sterile anthers from 2 ameiotic1 alleles at 2 stages of anther growth (1mm and 1.5mm)

2011-07-14 | E-GEOD-30149 | biostudies-arrayexpress

bHLH cascade regulate 24-nt phasiRNA biogenesis in maize anther

Project description:Anthers are the male reproductive floral organs, but loss of the 24-nt class of phased small-interfering RNAs (phasiRNAs) may confer temperature-sensitive male sterility in maize. 24-nt phasiRNAs from 176 loci are abundant coordinately in fertile maize anthers after the last periclinal divisions are complete, all four wall layers are formed, and meiosis has initiated in the pollen mother cells. In this study, we found male sterile maize ms23, ms32, and bhlh122 mutants with various degrees of tapetal defects lack 24-PHAS mRNA precursors and 24-nt phasiRNAs, which were not affected in another male sterile mutant, bhlh51. Transcription from most of 24-PHAS loci depends on bHLH122 while bHLH122 and Dcl5 transcription depends on both Ms23 and Ms32. Multiple lines of evidence suggest that 24-nt phasiRNAs biogenesis is primarily controlled at multiple layers by MS23 and MS32, with distinctive action on 24-PHAS transcription by bHLH122, creating a transcription factor cascade in maize tapetal cells.

2022-01-10 | GSE175915 | GEO

Comparative transcriptome of the fertile and sterile buds of genic multiple-allele inherited male sterile AB line in Chinese cabbage

Project description:we performed transcript profiling of male sterile and fertile buds from a multiple-allele inherited male sterile AB line using the Illumina high-throughput sequencing platform and analyzed differential gene expression at the transcriptional level.

2016-02-10 | GSE77427 | GEO

Global transcriptome analysis of two ameiotic1 alleles in maize anthers: defining steps in meiotic entry and progression through prophase

2011-07-15 | GSE30149 | GEO

Microarray analysis of male strobili in fertile and sterile male strobili of Cryptomeria japonica

Project description:Investigation of comprehensive gene expression level changes in male strobili of sterile mutant, compared to the fertile plant. We designed a new custum array derived from ESTs of Cryptomeria japonica for this study. Male strobili of C. japonica were collected from Toyama 1 half-sib F2 pedigree. Toyama 1 male-sterile mutant was first reported in Saito, M. , H. Taira, and Y. Furuta (Journal of Forest Research 3(3):167-173). Microarray studies using both individual samples and pooled samples were performed. Total RNA was extracted from male strobili at four developmental stages derived from each seven fertile and male-sterile trees as individual samples. Pooled RNA samples were prepared from four to eight different fertile and sterile plants at three developmental stages.

2013-07-30 | E-GEOD-33499 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

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