"strain: ZD59"	"characteristics_ch1.1"
"genotype/variation: hfq mutant"	"characteristics_ch1.2"
"strain: AH28"	"characteristics_ch2.1"
"genotype/variation: wild type"	"characteristics_ch2.2"
"The ‘LogRatio’ value was used in subsequent analyses.  All values for the same ORF were averaged as were the values from the two biological replicates performed for each comparison."	"data_processing.1"
"When the cultures reached the desired density, 2 ml of culture was added to 4 ml of RNAprotect Bacteria Reagent (Qiagen).  The mixture was incubated at room temperature for 5 min and then centrifuged at 5000 g for 10 min.  The supernatant was removed and the pellets were stored at -80C.  RNA was isolated using the Norgen Total RNA Purification Kit (Product #17200) according to the manufacturer’s directions except in the last step the RNA was eluted in 35 uL."	"extract_protocol_ch1.1"
"When the cultures reached the desired density, 2 ml of culture was added to 4 ml of RNAprotect Bacteria Reagent (Qiagen).  The mixture was incubated at room temperature for 5 min and then centrifuged at 5000 g for 10 min.  The supernatant was removed and the pellets were stored at -80C.  RNA was isolated using the Norgen Total RNA Purification Kit (Product #17200) according to the manufacturer’s directions except in the last step the RNA was eluted in 35 uL."	"extract_protocol_ch2.1"
"LB-grown overnight cultures were pelleted by centrifugation, washed, and resuspended in M9-glutamine of M9-alanine media.  Cultures were shaken at 250 rpm at 37C.  Samples were taken in mid-exponential phase (OD600 =0.15 for glutamine and OD600=0.2 for alanine on an Ultraspec 3100 pro) after ~5 generations of growth in the media."	"growth_protocol_ch1.1"
"LB-grown overnight cultures were pelleted by centrifugation, washed, and resuspended in M9-glutamine of M9-alanine media.  Cultures were shaken at 250 rpm at 37C.  Samples were taken in mid-exponential phase (OD600 =0.15 for glutamine and OD600=0.2 for alanine on an Ultraspec 3100 pro) after ~5 generations of growth in the media."	"growth_protocol_ch2.1"
"Escherichia coli str. K-12 substr. MG1655"	"organism_ch1.1"
"Escherichia coli str. K-12 substr. MG1655"	"organism_ch2.1"
"hfq mutant in Ala media"	"source_name_ch1.1"
"wild-type in gln media_2"	"source_name_ch2.1"
"hfq-gln-2"	"title.1"
"strain: ZD59"	"characteristics_ch1.1"
"genotype/variation: hfq mutant"	"characteristics_ch1.2"
"strain: AH28"	"characteristics_ch2.1"
"genotype/variation: wild type"	"characteristics_ch2.2"
"LB-grown overnight cultures were pelleted by centrifugation, washed, and resuspended in M9-glutamine of M9-alanine media.  Cultures were shaken at 250 rpm at 37C.  Samples were taken in mid-exponential phase (OD600 =0.15 for glutamine and OD600=0.2 for alanine on an Ultraspec 3100 pro) after ~5 generations of growth in the media."	"growth_protocol_ch1.1"
"LB-grown overnight cultures were pelleted by centrifugation, washed, and resuspended in M9-glutamine of M9-alanine media.  Cultures were shaken at 250 rpm at 37C.  Samples were taken in mid-exponential phase (OD600 =0.15 for glutamine and OD600=0.2 for alanine on an Ultraspec 3100 pro) after ~5 generations of growth in the media."	"growth_protocol_ch2.1"
"Escherichia coli str. K-12 substr. MG1655"	"organism_ch1.1"
"Escherichia coli str. K-12 substr. MG1655"	"organism_ch2.1"
"hfq mutant in Ala media"	"source_name_ch1.1"
"wild-type in gln media_2"	"source_name_ch2.1"