Growth data of the E. coli strains carrying the reduced genomes

The dataset consists of three .xlsx files accessible via MS Excel and open office formats. Each file contains experimental growth curve data by time in a series of tabs, each representing one strain with the tab name bearing n. Individual columns in a tab represent individual wells per strain. Each separate file corresponds to one of the growth media above: LB, MAA, and M63, which represent the rich, supplementary, and poor growth conditions, respectively.

Measurement data are provided at 30 minute or one hour intervals for all growth media and groupings.

KHK growth curves_LB.xlsx - E. coli growth curve data by strain for LB (rich medium)

KHK growth curves_M63.xlsx - E. coli growth curve data by strain for M63 (minimal medium)

KHK growth curves_MAA.xlsx - E. coli growth curve data by strain for MAA (M63 supplied with 20 amino acids)

E. coli culture cell growth was detected at an absorbance of 600 nm, with readings obtained at 30-min or 1-h intervals for 24 to 48 h. The growth curves were obtained for each well. Repeated tests were performed, which resulted in 11 to 30 growth curves used for further calculations of growth rate and population density for each strain at each growth condition (medium). Growth curves were acquired in three different media: LB, M63 and MAA.

Genome reduction by removing dispensable genomic sequences in bacteria is commonly used in both fundamental and applied studies to determine the minimal genetic requirements for a living system or to develop highly efficient bioreactors. Nevertheless, whether and how the accumulative loss of dispensable genomic sequences disturbs bacterial growth remains unclear. To investigate the relationship between genome reduction and growth, a series of Escherichia coli strains carrying genomes reduced in a stepwise manner were used. Intensive growth analyses revealed that the accumulation of multiple genomic deletions caused decreases in the exponential growth rate and the saturated cell density in a deletion-length-dependent manner as well as gradual changes in the patterns of growth dynamics, regardless of the growth media. Accordingly, a perspective growth model linking genome evolution to genome engineering was proposed. This study provides the first demonstration of a quantitative connection between genomic sequence and bacterial growth, indicating that growth rate is potentially associated with dispensable genomic sequences.