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Thus, the Atss2, Atss3 double mutant profile was quantitatively distinct from the sum of the patterns of the Atss2 and Atss3 single mutants.
The results showed a significantly reduced capacity for cell adhesion and invasion, corroborating the genetic fimbrial mutant profile previously observed by Dorella et al. [ 7].
The 1 1 to 1 8 mixtures allowed us to clearly distinguish between the mutant profile and the wild-type profile based on the difference plot generated by the software; therefore, the most suitable pooling condition to identify heterozygous mutants was determined to be four samples (eight copies in haploids).
The complete list of metabolites that contributed to the separation of the mutant profile groups from WT (discriminative metabolites) is shown in Additional file 2. In the PCA score plots of the 59 metabolites, the first principal component (PC1) clearly discriminated between mto1- and the control samples.
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Combining wild type and mutant profiles of these transcripts demonstrates the activation of a complex genetic program that delineates symbiotic nitrogen fixation.
Within complexes, mutant profiles were discriminated from recombinant profiles (and associated alleles) by assessing whether SHVs diverged by mutation or recombination.
Subsequently, we searched the metabolites that contributed to this separation of the mutant profiles group from those of WT (discriminative metabolites, hereafter) (Additional File 1).
In the past, Hoose et al. (2012) used deviations from wild-type mean to identify mutant DNA content outliers, whereas Jorgensen et al. (2002) used 5% cutoffs relative to all mutant profiles to identify small and large mutants.
GI profiles have been used to predict gene function with high confidence, while the degree of similarity to other mutant profiles can reveal how groups of gene products cooperate in higher-level biological processes [ 34, 42, 60, 61].
For cultures performed in the current study, time-warp results suggested an approximate linear shift of adding 5 h for afsS mutant profiles with respect to the wild-type.
The hotspot intensities, notably at the tRNA gene cluster and in the intergenic region between VAR1 and the 21S rRNA, were slightly enriched in the mutant profiles compared to the wild type.
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