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According to microarray analysis, all 15 selected genes are differentially expressed in USC vs. EAC-G3 with at least 1.5 fold changes.
As in the results of the microarray analysis, all these genes depicted an identical pattern of alteration as compared to the control.
However, only six of these 141 genes also displayed statistically significant differences in expression between Arabidopsis MMN and MLN via microarray analysis (all were higher in MMN than MLN; see second tab of Table S8).
For the microarray analysis, all strains were cultured in M9 medium without ethanol as a pre-culture.
For microarray analysis, all values were analysed by using the Mann–Whitney U-test or one-way analysis of variance (ANOVA) following Dunnett's t-test.
PD performed the microarray analysis, all experimental procedures associated with the transcriptomic study, and wrote the first draft of the manuscript.
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Our MLST and microarray analysis also demonstrated that all of the South African strains with HS∶41 serotype, a serotype considered to be clonal and highly stable [19], are clearly distinct from the other South African strains and that they are also distinct from other HS∶41 strains from other three strains from Canada and Mexico.
The Q-PCR results clearly reflect the changes observed in the microarray analysis for all of the genes we tested (Fig. 5).
qRT-PCR revealed the same gene expression pattern as the microarray analysis in all five genes examined in this work (Table 3).
To analyze the relation between the DNA methylation and the expression of genes, we plotted the methylation ratio calculated by MIAMI and the expression level calculated by expression microarray analysis for all genes examined (Fig. 7A).
We performed a microarray analysis, and all of the genes expressed in the synaptic and extrasynaptic regions in wild-type and meltrin β−/− muscles were analyzed by GeneChip Operating Software (GCOS; Affymetrix).
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