Standard deviations of the mean value from three biological replicates were calculated as described previously.
The average surviving fraction from at least three biological replicates were calculated ±SEM.
Mean expression and standard error of three biological replicates were calculated for each treatment.
The average FPKM and average microarray intensity values of the biological replicates were calculated for all conditions.
To assess the reproducibility of microarray data, the correlation coefficients of biological replicates were calculated using GeneSpring GX 11 software.
Significance levels between the triplicate qPCR measurements of all biological replicates were calculated with Student's t-tests.
Subsequently, the mean and the standard error of the delta-CT of the three biological replicates were calculated.
Secondly, the ratios between the mentioned specific growth rates with chemostat point (μ = 0.10 ± 0.01 h-1) for two biological replicates were calculated to yield protein expression levels for respective specific growth rates.
Single-end RNA-seq reads were mapped to the wheat transcriptome reference described above (see Methods), and average RPKM (reads per kilobase per million mapped reads) values for each gene from three biological replicates were calculated.
Background normalization, log2 ratios for each experiment and scale normalizations across each set of biological replicates were calculated using the sma package (Yang et al., 2001) in R, a computer language and environment for statistical computing (v2.1.0, http://www.r-project.org).org
