Homoserine levels were comparable between all three mutant alleles, but were higher on average in dmr1- 2 and dmr1- 3 siliques, which are resistant to F. culmorum, compared to dmr1- 1 siliques, which have wild type resistance levels.
More than half of genes changing expression were found to be coregulated between the DnaJ mutants, and all three mutants shared 556 and 687 coregulated genes under GL and HL, respectively, indicating their very similar response between the DnaJ mutants.
Comparative analysis showed that although there is no visible difference in terms of growth patterns between the wild type and all three mutants in the regular BG11 medium, gene disruption of sll0690, slr0947 and slr1295 led to increased butanol sensitivity, suggesting they were involved in butanol resistance.
Given the strong overlap in gene expression changes between and consistent phenotypic alterations of all three mutants we assumed that plasmid loss has no great impact on the experimental results regarding the ∆ctrA mutant.
We reasoned that functions of the IDH mutants that are important in cancer will be shared between all eight mutants, and that functions that are not required for cancer pathogenesis may not be shared.
The genes that were not shared between all three independent mutants were excluded.
Furthermore bristle phenotypes due to loss or gain of function differ in detail between the three mutants.
Here, we found no differences between the three mutants and the WT strain in exopolysaccharide (EPS) and lipopolysaccharide (LPS) profiles, swimming and swarming motilities, biofilm formation, or IAA synthesis (data not shown).
This is expected to give rise to a mixed population of channels composed of homomeric wild-type channels, homomeric mutant channels and heteromeric channels containing between one and three mutant subunits [ 21].
Common nucleotide variants that were shared between at least two of the three mutants were subsequently subtracted.
