Zea mays
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA224580 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR1016510.fastq.gz | Fastqsanger.gz | |||
| SRR1016520.fastq.gz | Fastqsanger.gz | |||
| SRR1016511.fastq.gz | Fastqsanger.gz | |||
| SRR1016521.fastq.gz | Fastqsanger.gz | |||
| SRR1016512.fastq.gz | Fastqsanger.gz |
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Project description:RNA-directed DNA methylation (RdDM) in plants is a well-characterized example of RNA interference-related transcriptional gene silencing. To determine the relationships between RdDM and heterochromatin in the repeat-rich maize (Zea mays) genome, we performed whole-genome analyses of several heterochromatic features: dimethylation of lysine 9 and lysine 27 (H3K9me2 and H3K27me2), chromatin accessibility, DNA methylation, and small RNAs; we also analyzed two mutants that affect these processes, mediator of paramutation1 and zea methyltransferase2.
2014-12-05 | E-MTAB-4191 | biostudies-arrayexpress
Project description: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. The identification of heterosis-correlated genes is an approach for the characterization and also for the prediction of this phenomenon. For the analyses total RNA of seven days old seedlings was extracted and aminoallyl-labeled RNA probes were synthesized. RNA labeling (Cy3, Cy5) and hybridizations were performed according to the protocol of the maize oligonucleotide array project (http://www.maizearray.org). The microarrays were scanned (AppliedPrecision ArrayWorx Scanner, Applied Precision Inc., USA) and data were evaluated using the Software GenePix Pro 4.0 (Molecular Devices, Sunnyvale, USA). An experimental interwoven loop design was developed aiming to yield in a preferably low average variance among the hybridizations, especially between intergroup (dent lines vs. flint lines) hybridizations. As a result 12288 (28.3%) of the genes showed differential expression between any combination of inbred lines. These differentially expressed genes were used for subsequent field data correlation analyses.
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Project description:Plant trait heterosis is quantitatively associated with expression heterosis of the plastid ribosomal proteins
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Project description:The aim of the present study was to globally survey the transcriptome of the two inbred lines B73 and Mo17 in comparison to their reciprocal F1-progeny in an unbiased approach via RNA-seq using four biological replicates to increase the power for detecting differential expression while maintaining a low false discovery rate (FDR). For this purpose, primary roots of 3.5-d-old seedlings were surveyed, as young primary roots display a very simple structure. This stage was previously demonstrated to precede the first detectable developmental changes between inbred lines and hybrids during heterosis manifestation for numerous root-related traits (Hoecker et al. 2006). By choosing this particular stage, we intended to identify transcriptional patterns and regulators possibly determining the processes leading to heterosis for these early root system traits.
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2009-12-31 | GSE17339 | GEO
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