GEO DataSets

(Submitter supplied) Expression profiling analyses for 5 maize inbreds and 4 hybrids, chosen to represent diversity in genotypes and heterosis responses, revealed a correlation between genetic diversity and transcriptional variation. The majority of differentially expressed genes in each of the different hybrids exhibited additive expression patterns, and ~25% exhibited statistically significant non-additive expression profiles. more...

Organism:

Zea mays

Type:

Expression profiling by array

Platform:

GPL4032

27 Samples

Download data: CEL, CHP

(Submitter supplied) Expression profiling analyses for eight maize inbreds reveals extensive transcriptional variation. This is a companion dataset to an Affymetrix profiling experiment (GEO Series GSE10237). Keywords: Genotype comparison series

Organism:

Zea mays

Type:

Expression profiling by array

Platform:

GPL6438

24 Samples

Download data: GPR

(Submitter supplied) Expression profiling analyses for 5 maize inbreds and 4 hybrids, chosen to represent diversity in genotypes and heterosis responses, revealed a correlation between genetic diversity and transcriptional variation. This is a companion dataset to an Affymetrix profiling experiment (GEO Series GSE10236). Keywords: Genotype comparison series

Organism:

Zea mays

Type:

Expression profiling by array

Platform:

GPL6438

27 Samples

Download data: GPR

(Submitter supplied) Expression profiling analyses for eight maize inbreds reveals extensive transcriptional variation. Many genes exhibit presence-absence variation among the inbred lines. Keywords: Genotype comparison series

Organism:

Zea mays

Type:

Expression profiling by array

Platform:

GPL4032

24 Samples

Download data: CEL, CHP

(Submitter supplied) In this study expression levels of 732 genes were analyzed for European maize (Zea mays L.) inbred lines (4 Flint and 5 Dent) and nine corresponding hybrids by microarray analysis. The selection of the 732 genes was based on a previous study (Thiemann et al., Theor Appl Genet 2010, 120:401-413), which sequences were derived from the 46k microarray (platform GPL6438) (University of Arizona, USA). 558 of the 732 genes represented on the microarray were differentially expressed between the original 21 parental inbred lines and were correlated with at least one of the three characteristics MPH (mid-parent heterosis) and/or HP (hybrid performance) of the trait GY (grain yield) and/or HP of the trait grain dry matter content. more...

Organism:

Zea mays

Type:

Expression profiling by array

Platform:

GPL17936

105 Samples

Download data: GPR, TXT

(Submitter supplied) The phenomenon of heterosis describes the increased agronomic performance of heterozygous F1-plants compared to their homozygous parental inbred plants. Heterosis is already manifested during the early stages of root development in maize. The goal of this study was to identify non-additive gene expression in primary roots of maize hybrids compared to the average expression levels of their parental inbred lines. more...

Organism:

Zea mays

Type:

Expression profiling by array

Platform:

GPL1996

168 Samples

Download data: TXT

(Submitter supplied) Heterosis (hybrid vigor) refers to the superior performance of hybrid progeny relative to their parents. Although widely exploited in agriculture, the mechanisms responsible for heterosis are not well understood. As a monoecious organism, a given maize plant can be used as both male and female parents of crosses. Regardless of the cross direction, the maize inbred lines B73 and Mo17 produce hybrids that substantially out-perform their parents. more...

Organism:

Zea mays

Type:

Expression profiling by array; Expression profiling by high throughput sequencing

4 related Platforms

533 Samples

Download data: TXT

(Submitter supplied) Heterosis, also known as hybrid vigor, has been extensively utilized to increase productivity in crop, yet the underlying molecular mechanisms remain largely elusive. Recent studies have reported that in addition to mRNA transcription, epigenetic variations in DNA methylation, small RNAs and histone modifications also contribute to heterosis. However, the operative mode of post-transcriptional regulation on gene expression such as RNA m6A methylation and translational efficiency in heterosis has never been explored. more...

Organism:

Zea mays

Type:

Expression profiling by high throughput sequencing; Other

Platform:

GPL25842

6 Samples

Download data: TXT

(Submitter supplied) N6-methyladenosine (m6A) is the most abundant modification of eukaryotic messenger RNA. Although m6A has been demonstrated to affect almost all aspects of RNA metabolism, its global contribution to the post-transcriptional balancing of translational efficiency remains elusive in plants. In this study, we performed a parallel analysis of the transcriptome-wide mRNA m6A distribution and polysome profiling in two maize (Zea mays) inbred lines to assess the global correlation of m6A modification with translational status. more...

Organism:

Zea mays

Type:

Expression profiling by high throughput sequencing; Methylation profiling by high throughput sequencing

Platform:

GPL25842

12 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Zea mays

Type:

Expression profiling by array

Platform:

GPL4032

36 Samples

Download data: CEL, CHP

(Submitter supplied) Microarray analysis of gene expression patterns in immature ear, seedling, and embryo tissues from the maize inbred lines B73 and Mo17 identified numerous genes with variable expression. Some genes had detectable expression in only one of the two inbreds; most of these genes were detected in the genomic DNA of both inbreds, indicating that the expression differences are likely caused by differential regulation rather than by differences in gene content. more...

Organism:

Zea mays

Type:

Expression profiling by array

Platform:

GPL4032

12 Samples

Download data: CEL, CHP

(Submitter supplied) Microarray analysis of gene expression patterns in immature ear, seedling, and embryo tissues from the maize inbred lines B73 and Mo17 identified numerous genes with variable expression. Some genes had detectable expression in only one of the two inbreds; most of these genes were detected in the genomic DNA of both inbreds, indicating that the expression differences are likely caused by differential regulation rather than by differences in gene content. more...

Organism:

Zea mays

Type:

Expression profiling by array

Platform:

GPL4032

12 Samples

Download data: CEL, CHP

(Submitter supplied) Microarray analysis of gene expression patterns in immature ear, seedling, and embryo tissues from the maize inbred lines B73 and Mo17 identified numerous genes with variable expression. Some genes had detectable expression in only one of the two inbreds; most of these genes were detected in the genomic DNA of both inbreds, indicating that the expression differences are likely caused by differential regulation rather than by differences in gene content. more...

Organism:

Zea mays

Type:

Expression profiling by array

Platform:

GPL4032

12 Samples

Download data: CEL, CHP

(Submitter supplied) In the current study a microarray (46k, University of Arizona, USA) analysis of 21 European maize (Zea mays L.) parental inbred lines (14 dent and 7 flint) was applied. The aim was the identification of parental genes which expression levels are correlated to heterosis and/or hybrid performance for grain yield (GY) and grain dry matter content (GDMC) in the hybrid progeny (F1). Therefore gene expression profiles of differentially expressed genes of the parental inbred lines at the seedling stage were correlated with GY- and GDMC-field data of 98 flint x dent factorial crosses gained at six different locations in Germany. more...

Organism:

Zea mays

Type:

Expression profiling by array

Platform:

GPL6438

63 Samples

Download data: GPR

(Submitter supplied) we determine genome-wide binding profiles of a maize CCA1 homolog, ZmCCA1b, in maize inbreds and F1 hybrids at different times of the day. ZmCCA1b is characterized as a central clock regulator gene with evolutionarily conserved molecular and circadian functions and nonadditively expressed in F1 hybrid seedlings. ZmCCA1b binds to over 4,300 target genes in the maize genomes, of which annotation confirms energy metabolic pathways as the main output. more...

Organism:

Zea mays

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL17628

48 Samples

Download data: TXT

(Submitter supplied) Heterosis and polyploidy are two important aspects of plant evolution. To examine these issues, we conducted a global gene expression study of a maize ploidy series as well as a set of tetraploid inbred and hybrid lines. This gene expression analysis complements an earlier phenotypic study of these same materials. We find that ploidy change affects a large fraction of the genome, albeit at low levels; gene expression changes rarely exceed 2-fold and are typically not statistically significant. more...

Organism:

Zea mays

Type:

Expression profiling by array

Platform:

GPL11236

45 Samples

Download data: GPR, PDF

(Submitter supplied) Heterosis is the phenomenon whereby the progeny of particular inbred lines have enhanced agronomic performance relative to both parents. Although several hypotheses have been proposed to explain this fundamental biological phenomenon, the responsible molecular mechanisms have not been determined. The maize inbred lines B73 and Mo17 produce a heterotic F1 hybrid. Global patterns of gene expression were compared in seedlings of these three genotypes using a microarray that contains 13,999 cDNAs. more...

Organism:

Zea mays

Type:

Expression profiling by array

Platform:

GPL2613

27 Samples

Download data

(Submitter supplied) Through genome-wide comparative transcriptome analysis, we strongly predict that overdominance at gene expression level plays a pivotal role in early biomass vigor of hybrids. The combinational contribution of circadian rhythm and other metabolic processes may be controlled vigorous growth in hybrids. Our result provides an important foundation for dissecting molecular mechanisms of biomass vigor in hybrid cotton

Organism:

Gossypium hirsutum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23158

42 Samples

Download data: XLSX

(Submitter supplied) Eighteen samples (three replicates) of the maize hybrid An’nong 591 and its parental lines under control and heat treatment were used for RNA sequencing

Organism:

Zea mays

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25842

18 Samples

Download data: TXT

(Submitter supplied) Heterosis has long been exploited for crop breeding; however, the genetic mechanisms, particularly the initial establishment of heterosis during the early vegetative growth phase, remain elusive. The biggest challenge for that is to exclude noise genes from the identified heterosis-related candidates. Herein, we use nutrient-deficient hybrid with no measurable growth heterosis as control to filter potential background noise differentially expressed genes In this dataset, we compared the differentially expressed genes in both heterotic and non-heterotic hybrid. more...

Organism:

Oryza sativa

Type:

Expression profiling by array

Platform:

GPL2025

36 Samples

Download data: CEL