Table 2.

Comparison of transcript abundance between wild-type and mutant strains using array and northern data

Gene	Mutant/wild type	Fold change from array	Fold change from northern analysis
cspE	ΔRNase E	4.0	3.4
	ΔRNase III	2.2	1.3
dnaK	ΔRNase E	2.0	2.3
	ΔRNase III	2.0	1.3
ompF	ΔRNase E	−1.6	−1.3
	ΔRNase III	2.0	2.7
ryhB	ΔRNase E	7.6	20.4
	ΔRNase III	5.4	3.7
ssrS	ΔRNase E	ND	−1.6
	ΔRNase III	ND	1.1

Positive values indicate higher abundance in the mutant, while negative values indicate higher abundance in wild type. Fold changes from the array data were calculated by averaging the ratios of every oligonucleotide probe across the genomic feature (see ‘Materials and Methods’ section). Fold change numbers from the northern analyses were calculated as described in the ‘Materials and Methods’ section. ND, not determined due to the nature of the abundance change of ssrS (see Supplementary Figure S6).