"A pool of 3 E. coli clones forming small colonies when plated on TTagar and derived from E. coli B REL606 after 150 days of seasonal evolution experiment in 18mm test tubes in DMga medium."	"characteristics_ch1.1"
"Ancestral E. coli B REL606 strain"	"characteristics_ch2.1"
"Statistical preprocessing steps were conducted with ArrayPipe (version 1.7), a web-based software designed for processing of microarray data (www.pathogenomics.ca/arraypipe, Hokamp et al. 2004). The following pre-processing steps were applied: 1) flagging of markers and control spots, 2) subgrid-wise background correction, using the median of the lower 10% foreground intensity as an estimate for the background noise, 3) data-shifting, 4) limma’s LOESS normalization by print tip, 5) merging of duplicate spots."	"data_processing.1"
"VALUEs are calculated as log2-transformed (test/ref) ratios after background correction and limma's LOESS normalization"	"data_processing.2"
"Total RNA was extracted using Qiagen RNeasy Mini Kit. DNA was removed using Ambion DNA-free kit. RNA quality was assessed using 2% agarose gels and OD260/OD280 ratio. Amino-allyl dUTP was used to label 5µg of RNA during reverse transcription. The reverse transcription was performed at 42°C during 50 min using 600 units of superscript RT II (Invitrogen), 3 µg of random hexamers, 0.6mM dATP, dCTP and dGTP, 0.2mM dTTP, and 0.4mM amino-allyl dUTP (Ambion). RNA was then degraded by incubation at 65°C, for 15 min, after adding 10µL of 0.5M EDTA and 10µL of 1M NaOH."	"extract_protocol_ch1.1"
"Total RNA was extracted using Qiagen RNeasy Mini Kit. DNA was removed using Ambion DNA-free kit. RNA quality was assessed using 2% agarose gels and OD260/OD280 ratio. Amino-allyl dUTP was used to label 5µg of RNA during reverse transcription. The reverse transcription was performed at 42°C during 50 min using 600 units of superscript RT II (Invitrogen), 3 µg of random hexamers, 0.6mM dATP, dCTP and dGTP, 0.2mM dTTP, and 0.4mM amino-allyl dUTP (Ambion). RNA was then degraded by incubation at 65°C, for 15 min, after adding 10µL of 0.5M EDTA and 10µL of 1M NaOH."	"extract_protocol_ch2.1"
"Frozen bacteria were grown overnight in 18mm test tubes containing DMga medium, 500µL of culture was transferred to 50mL of fresh DMga in 500mL flasks and grown for 7hours 37°C, 250rpm. Extraction was performed just after."	"growth_protocol_ch1.1"
"Frozen bacteria were grown overnight in 18mm test tubes containing DMga medium, 500µL of culture was transferred to 50mL of fresh DMga in 500mL flasks and grown for 7hours 37°C, 250rpm. Extraction was performed just after."	"growth_protocol_ch2.1"
"Escherichia coli"	"organism_ch1.1"
"Escherichia coli"	"organism_ch2.1"
"S, TP2"	"source_name_ch1.1"
"A, TP2"	"source_name_ch2.1"
"SA_TP2_repl3"	"title.1"
"NA"	"treatment_protocol_ch1.1"
"NA"	"treatment_protocol_ch2.1"
"A pool of 3 E. coli clones forming small colonies when plated on TTagar and derived from E. coli B REL606 after 150 days of seasonal evolution experiment in 18mm test tubes in DMga medium."	"characteristics_ch1.1"
"Ancestral E. coli B REL606 strain"	"characteristics_ch2.1"
"Frozen bacteria were grown overnight in 18mm test tubes containing DMga medium, 500µL of culture was transferred to 50mL of fresh DMga in 500mL flasks and grown for 7hours 37°C, 250rpm. Extraction was performed just after."	"growth_protocol_ch1.1"
"Frozen bacteria were grown overnight in 18mm test tubes containing DMga medium, 500µL of culture was transferred to 50mL of fresh DMga in 500mL flasks and grown for 7hours 37°C, 250rpm. Extraction was performed just after."	"growth_protocol_ch2.1"
"Escherichia coli"	"organism_ch1.1"
"Escherichia coli"	"organism_ch2.1"
"S, TP2"	"source_name_ch1.1"
"A, TP2"	"source_name_ch2.1"
"NA"	"treatment_protocol_ch1.1"
"NA"	"treatment_protocol_ch2.1"