DOI: 10.5068/d14t2b
title: Data from: Antibiotics shift the temperature response curve of Escherichia coli growth

description: This publication consists of measurements of the temperature response of
 Escherichia coli growth in the presence of various antibiotic backgrounds.
 Growth is measured as the optical density of the corresponding bacterial
 culture 24 hours after inoculation. Two datasets are included in this
 submission. The first dataset consists of growth measurements of E. coli
 cultures at varying temperatures in the presence of a fixed concentration
 of twelve antibiotics (see table below for full list), and all possible
 pairs of these antibiotics present simultaneously. The second dataset
 consists of growth measurements at varying temperatures for two
 antibiotics (erythromycin and trimethoprim) at ten different
 concentrations.
description: Organism: <em>Escherichia coli</em>
 Strain: BW25113 Dataset 1
 The data consist of optical density measurements of <em>E.
 coli</em> cultures exposed to various antibiotic
 backgrounds. Bacterial cultures were grown in
 LB broth (10 g/L tryptone, 5 g/L yeast extract, and 10 g/L NaCl) and
 maintained in 25% glycerol at -80°C. Fresh cultures were started by adding
 20μL of thawed bacterial glycerol stock into 2 mL of LB followed by
 incubation at 37°C. Cultures were grown to exponential growth phase and
 diluted to maintain 10<sup>4</sup> cells per experimental
 condition (antibiotic background and temperature). Antibiotics used in all
 experiments inhibited bacterial growth at sub-lethal concentrations (50%
 to 90% growth). The desired concentrations were first determined by a
 twelve-step concentration series of 2-fold at each step in 96-well plates
 (Costar). Antibiotic stock solutions were prepared in a total volume of 5
 mL at 10-fold of their respective concentrations. Experiments of pairwise
 drug combinations were prepared by adding 10μL of each component drug
 followed by the addition of 80μL cell inoculum. 10μL of LB medium was
 added in replacement of a second drug for single drug experiments. Each
 experimental condition was conducted in 4 replicates from the same
 antibiotic stock solution. The 96-well plates were incubated at various
 temperatures (22°C, 25°C, 30°C, 37°C, 41°C, 44°C, 46°C) with aeration at
 300 rpm. The antibiotics and doses used are in the
 table below: 
 <i>Antibiotic </i> <i>Abbreviation</i> <i>Mechanism of Action</i> <i>Dose (</i><i>mg/mL)</i> <i>Ampicillin</i> AMP cell wall synthesis inhibitor 1.2 <i>Cefoxitin</i> FOX cell wall synthesis inhibitor 1.2 <i>Levofloxacin</i> LVX fluoroquinolone, DNA gyrase inhibitor 0.01 <i>Ciprofloxacin</i> CPR fluoroquinolone, DNA gyrase inhibitor 0.005 <i>Nitrofurantoin</i> NTR DNA damaging, multiple mechanisms 2 <i>Trimethoprim</i> TMP folic acid synthesis inhibitor 0.1 <i>Tobramycin</i> TOB aminoglycoside 1.5 <i>Gentamycin</i> GEN aminoglycoside 1 <i>Streptomycin</i> STR aminoglycoside 2 <i>Clindamycin</i> CLI protein synthesis inhibitor, 50S 40 <i>Erythromycin</i> ERY protein synthesis inhibitor, 50S 50 <i>Tetracycline</i> TET protein synthesis inhibitor, 30S 0.25 Dataset 2 The second dataset was collected in order to explore the effects of varying the concentration of two antibiotics (ERY and TMP) in the temperature response of <em>E. coli </em>growth. Ten antibiotic concentrations were chosen as a linear gradient ranging from the absence of drug to a near-inhibitory drug concentration (ERY:1000 µg/µl, TMP: 0.14 µg/µl) in order to clearly see changes in the shape of the temperature response. Four replicates of each antibiotic concentration were incubated at each of fourteen temperatures, ranging from 18ºC to 50ºC.
description: This submission contains the following files:
 <em>data.csv</em>    First
 dataset (temperature response of growth under fixed concentration of
 twelve antibiotics and all pairwise combinations). 
 <em>conc_data_ERY_TMP.csv    </em>Second dataset
 (temperature response of growth varying concentration of two
 antibiotics). <em>get_fr_advi_params.py   
 </em>Python code to fit the modified Briere model to the first
 dataset. <em>README.txt</em>   
 Description of data columns in datasets and requirements for running the
 code.