ath1 microarray gene chips  (Thermo Fisher)

Journal: Philosophical Transactions of the Royal Society B: Biological Sciences

Article Title: Joint inhibition of mitochondrial complex IV and alternative oxidase by genetic or chemical means represses chloroplast transcription in Arabidopsis

doi: 10.1098/rstb.2019.0409

Figure Lengend Snippet: Expression level of nuclear genes encoding components of the chloroplast transcription machinery in selected mitochondrial mutants and plants growing under hypoxic conditions. (a) Colour scale represents up (red) or down (blue) fold change values relative to the wild-type. Publicly available dataset GSE 14420 [45] representing three-week-old wild-type plant exposed to 4 h of hypoxia was analysed. (b) Common differentially expressed nuclear genes encoding chloroplast transcription machinery components (ppde. p > 0.95, FC (fold change) 1.5) in representative microarray datasets. (Online version in colour.)

Article Snippet: Analysis of the global changes in transcript abundance in rps10 mutant was performed using Affymetrix ATH1 microarray gene chips.

Techniques: Expressing, Microarray

Journal: Horticulture Research

Article Title: Diversity in global gene expression and morphology across a watercress ( Nasturtium officinale R. Br.) germplasm collection: first steps to breeding

doi: 10.1038/hortres.2015.29

Figure Lengend Snippet: (a) Transcriptomic differences between a novel dwarf watercress accession (dwarfAO) and the commercial (C) accession, where an up- or down- regulations, red and blue squares respectively is shown in dwarfAO compared to C. Mapman output illustrating down-regulation of genes in bins relating to plant growth in dwarfAO/C and an up-regulation of genes in the bins relating to plant defence in watercress accession dwarfAO/C. Superscript numbers denote Refs. , , , , , . (b) Overview of significantly different functional categories after microarray analysis. Colour scale represents fold changes, blue down-regulation and red up-regulation. Wilcoxon rank-sum test was applied to all three comparisons performed in PageMan. Clear visual representation of how the functional ontologies differ between the two watercress accessions.

Article Snippet: Variation in global gene expression was investigated using an Affymetrix Arabidopsis ATH1 microarray gene chip, using the commercial control (C), an accession selected for dwarf phenotype with a high AO potential (dwarfAO, called ‘Boldrewood’) and one with high AO potential alone.

Techniques: Functional Assay, Microarray

Journal: Nucleic Acids Research

Article Title: Arabidopsis thaliana LSM proteins function in mRNA splicing and degradation

doi: 10.1093/nar/gkt296

Figure Lengend Snippet: Arabidopsis LSM orthologs

Article Snippet: To examine genome-wide mRNAs affected in the absence of AtLSM proteins, we analysed the expression and mRNA stability profiles in lsm1a lsm1b , lsm8 and sad1/lsm5 mutants using Affymetrix Arabidopsis ATH1 Gene-Chip microarrays.

Techniques:

Journal: Nucleic Acids Research

Article Title: Arabidopsis thaliana LSM proteins function in mRNA splicing and degradation

doi: 10.1093/nar/gkt296

Figure Lengend Snippet: Expression of AtLSM genes in A. thaliana . Semi-quantitative RT-PCR analysis of AtLSM in leaves (Lv), stems (St), flowers (Fl), siliques (Sl) and roots (Rt). For AtLSM8 , both short and long mRNA versions are detected. M, DNA ladder. Elongation factor elF-4A was used as a control.

Article Snippet: To examine genome-wide mRNAs affected in the absence of AtLSM proteins, we analysed the expression and mRNA stability profiles in lsm1a lsm1b , lsm8 and sad1/lsm5 mutants using Affymetrix Arabidopsis ATH1 Gene-Chip microarrays.

Techniques: Expressing, Quantitative RT-PCR