Dataset from: Changes in cell size and shape during 50,000 generations of experimental evolution with Escherichia coli
Cite this dataset
Grant, Nkrumah et al. (2022). Dataset from: Changes in cell size and shape during 50,000 generations of experimental evolution with Escherichia coli [Dataset]. Dryad. https://doi.org/10.5061/dryad.7m0cfxpt2
Bacteria adopt a wide variety of sizes and shapes, with many species exhibiting stereotypical morphologies. How morphology changes, and over what timescales, is less clear. Previous work examining cell morphology in an experiment with Escherichia coli showed that populations evolved larger cells and, in some cases, cells that were less rod-like. That experiment has now run for over two more decades. Meanwhile, genome sequence data are available for these populations, and new computational methods enable high-throughput microscopic analyses. In this study, we measured stationary-phase cell volumes for the ancestor and 12 populations at 2,000, 10,000, and 50,000 generations, including measurements during exponential growth at the last time point. We measured the distribution of cell volumes for each sample using a Coulter counter and microscopy, the latter of which also provided data on cell shape. Our data confirm the trend toward larger cells while also revealing substantial variation in size and shape across replicate populations. Most populations first evolved wider cells but later reverted to the ancestral length-to-width ratio. All but one population evolved mutations in rod shape maintenance genes. We also observed many ghost-like cells in the only population that evolved the novel ability to grow on citrate, supporting the hypothesis that this lineage struggles with maintaining balanced growth. Lastly, we show that cell size and fitness remain correlated across 50,000 generations. Our results suggest that larger cells are beneficial in the experimental environment, while the reversion toward ancestral length-to-width ratios suggests partial compensation for the less favorable surface area-to-volume ratios of the evolved cells.
Data was collected using a variety of methods. Cell size data were collected using a coulter counter and microscopy. Cell death data were collected using micrscopy and two-color live dead stain. Fitness and mutation data for the the LTEE lines were downloaded from publicly available datasets. Micrographs, including those collected cell size and cell death, were first processed using SuperSegger. Numerical output from SuperSegger analyses were imported into R, as were all other data collected for this work, and analyzed therein. More detail will be provided in the future.
BEACON Center for the Study of Evolution in Action, Award: DBI-0939454
National Science Foundation, Award: DEB-1951307