E-MTAB-3028
Ontology highlight
ABSTRACT:
PROVIDER: E-MTAB-3028 | ExpressionAtlas | 2019-05-15
REPOSITORIES: ExpressionAtlas
Similar Datasets
Project description:The extreme generalist two-spotted spider mite, Tetranychus urticae, which is documented to feed on more than 1100 plant hosts, is becoming an increasingly important agricultural pest. Historically, as studies of plant-herbivore interactions have focused largely on insects, considerably less research has investigated plant responses to spider mite herbivores, especially in grasses. To identify intraspecific differences in maize response to T. urticae, we collected RNA-seq data from three maize (Zea mays) inbred lines (B73, B75 and B49) as well as two F1 lines arising from crosses between B73 x B75 and B73 x B96. For each maize line, RNA-seq data was collected from uninfested leaves (control) and leaves infested with T. urticae for 24 hours.
2018-07-03 | GSE116496 | GEO
Project description:RNA-seq from whole V3 maize seedlings (roots and shoots) for the B73 inbred line and A188 x B73 hybrid.
2022-01-27 | GSE175914 | GEO
Project description:The contribution of epigenetic alterations to natural variation for gene transcription levels remains unclear. In this study, we investigated the functional targets of the maize chromomethylase ZMET2 in multiple inbred lines to determine whether epigenetic changes conditioned by this chromomethylase are conserved or variable within the species. Gene expression microarrays were hybridized with RNA samples from the inbred lines B73 and Mo17, and from near-isogenic derivatives containing the loss-of-function allele zmet2-m1. A set of 126 genes that displayed statistically significant differential expression in zmet2 mutants relative to wild-type plants in at least one of the two genetic backgrounds were identified. Analysis of the transcript levels in both wild-type and mutant individuals revealed that only 10% of these genes were affected in zmet2 mutants in both B73 and Mo17 genetic backgrounds. Over 80% of the genes with expression patterns affected by zmet2 mutations display variation for gene expression between wild-type B73 and Mo17 plants. Further analysis was performed for seven genes that were transcriptionally silent in wild-type B73, but expressed in B73 zmet2-m1, wild-type Mo17 and Mo17 zmet2-m1 lines. Mapping experiments confirmed that the expression differences in wild-type B73 relative to Mo17 inbreds for these genes were caused by cis-acting regulatory variation. Methylation-sensitive PCR and bisulphite sequencing demonstrated that for five of these genes the CpNpG methylation in the wild-type B73 genetic background was substantially decreased in the B73 zmet2-m1 mutant and in wild-type Mo17. A survey of eight maize inbreds reveals that each of these five genes exhibit transcriptionally silent and methylated states in some inbred lines and unmethylated, expressed states in other inbreds, providing evidence for natural variation in epigenetic states for some maize genes. Keywords: mutant versus wild-type comparison in two inbred genotypes
2007-12-01 | GSE8188 | GEO
Project description:This SuperSeries is composed of the following subset Series:; GSE8174: Cis-transcriptional variation in maize inbred lines B73 and Mo17 leads to additive expression - Seedling data; GSE8176: Cis-transcriptional variation in maize inbred lines B73 and Mo17 leads to additive expression - Immature ear data; GSE8179: Cis-transcriptional variation in maize inbred lines B73 and Mo17 leads to additive expression - Embryo data Experiment Overall Design: Refer to individual Series
2008-06-17 | E-GEOD-8194 | biostudies-arrayexpress
Project description:RNA-seq for two maize inbred lines
| PRJNA611589 | ENA
Project description:Genome-wide transcriptomics experiment (RNA-seq) on proliferative tissue of eight maize inbred lines (A632, B73, B96, F7, H99, HP301, Mo17, W153R). These inbreds are used as parents in a funnel breeding design to generate an advanced recombinant maize population.
2015-06-29 | E-MTAB-3173 | biostudies-arrayexpress
Project description:High temperature is increasingly becoming one of the prominent environmental factors affecting the growth and development of maize (Zea mays L.). Therefore, it is critical to identify key genes and pathways related to heat stress (HS) tolerance in maize. Here, we identified a heat-resistant (Z58D) and heat-sensitive (AF171) maize inbred lines at seedling stage. Transcriptomic analysis identified 3,006 differentially expressed genes (DEGs) in AF171 and 4,273 DEGs in Z58D under HS treatments, respectively. Subsequently, GO enrichment analysis showed that shared upregulated genes in AF171 and Z58D involved in response to HS, protein folding, abiotic and temperature stimulus pathway. Moreover, the comparison between the two inbred lines under HS showed that response to heat and response to temperature stimulus significantly overrepresented for the 1,234 upregulated genes. Furthermore, commonly upregulated genes in Z58D and AF171 had higher expression level in Z58D than AF171. In addition, maize inbred CIMBL55 had been verified to be more tolerant than B73 and commonly upregulated genes had higher expression level in CIMBL55 than B73 under HS. The consistent results indicated that heat-resistant inbred lines may coordinate the remarkable expression of genes in order to recover from HS. Additionally, 35 DEGs were conserved among 5 inbred lines by a comparative transcriptomic analysis. Most of them were more pronounced in Z58D than AF171 at expression level. Those candidate genes may confer thermotolerance in maize.
2024-03-01 | GSE254852 | GEO
Project description:Analysis of whole genome bisulfite data for 3 maize inbred lines (B73, PH207, and W22) with data aligned to the corresponding genome for determination of methylation level (CG, CHG, and CHH) across 100bp windows of the maize genome.
2020-03-01 | GSE128859 | GEO
Project description:These data include RNA-seq, circRNA-seq, and small RNA-seq of transcriptome, Ribo-seq of translatome and protein protein binary interactions by recombination-based library vs. library yeast-2-hybrid throughout the lifecycle of the maize inbred line B73.
2022-10-30 | GSE199932 | GEO
Project description:These data include RNA-seq, circRNA-seq, and small RNA-seq of transcriptome, Ribo-seq of translatome and protein protein binary interactions by recombination-based library vs. library yeast-2-hybrid throughout the lifecycle of the maize inbred line B73.
2022-12-25 | GSE160288 | GEO