DOI: 10.5061/dryad.gj040
title: Data from: Demographic variability and heterogeneity among individuals within and among clonal bacteria strains

description: Identifying what drives individual heterogeneity has been of long interest
 to ecologists, evolutionary biologists and biodemographers, because only
 such identification provides deeper understanding of ecological and
 evolutionary population dynamics. In natural populations one is challenged
 to accurately decompose the drivers of heterogeneity among individuals as
 genetically fixed or selectively neutral. Rather than working on wild
 populations we present here data from a simple bacterial system in the
 lab, Escherichia coli. Our system, based on cutting-edge microfluidic
 techniques, provides high control over the genotype and the environment.
 It therefore allows to unambiguously decompose and quantify fixed genetic
 variability and dynamic stochastic variability among individuals. We show
 that within clonal individual variability (dynamic heterogeneity) in
 lifespan and lifetime reproduction is dominating at about 82–88%, over the
 12–18% genetically (adaptive fixed) driven differences. The genetic
 differences among the clonal strains still lead to substantial variability
 in population growth rates (fitness), but, as well understood based on
 foundational work in population genetics, the within strain neutral
 variability slows adaptive change, by enhancing genetic drift, and
 lowering overall population growth. We also revealed a surprising
 diversity in senescence patterns among the clonal strains, which indicates
 diverse underlying cell-intrinsic processes that shape these demographic
 patterns. Such diversity is surprising since all cells belong to the same
 bacteria species, E. coli, and still exhibit patterns such as classical
 senescence, non-senescence, or negative senescence. We end by discussing
 whether similar levels of non-genetic variability might be detected in
 other systems and close by stating the open questions how such
 heterogeneity is maintained, how it has evolved, and whether it is
 adaptive.
description: Leslie matrix strain
 AB1157This csv file contains
 data of a age structured, Leslie matrix population projection model for E.
 coli strain AB1157. The data has been collected using a microfluidic
 device, called the mother machine. The discrete time steps in the Leslie
 matrix is one hour (note the initial data has been collected at 4 min time
 intervals). Age goes from birth (second column) to the last column of the
 matrix. Fertility rates (number of division per hour) are in the top row
 (first row after the header row). Survival rates are in the sub-diagonal.
 Final age with open age class.lesAB1157.csvLeslie matrix strain BW25113This csv file contains data of a age structured, Leslie matrix population projection model for E. coli strain BW25113. The data has been collected using a microfluidic device, called the mother machine. The discrete time steps in the Leslie matrix is one hour (note the initial data has been collected at 4 min time intervals). Age goes from birth (second column) to the last column of the matrix. Fertility rates (number of division per hour) are in the top row (first row after the header row). Survival rates are in the sub-diagonal. Final age with open age class.lesBW25113.csvLeslie matrix strain IAI1This csv file contains data of a age structured, Leslie matrix population projection model for E. coli strain IAI1. The data has been collected using a microfluidic device, called the mother machine. The discrete time steps in the Leslie matrix is one hour (note the initial data has been collected at 4 min time intervals). Age goes from birth (second column) to the last column of the matrix. Fertility rates (number of division per hour) are in the top row (first row after the header row). Survival rates are in the sub-diagonal. Final age with open age class.lesIAI1.csvLeslie matrix strain MG1655This csv file contains data of a age structured, Leslie matrix population projection model for E. coli strain MG1655. The data has been collected using a microfluidic device, called the mother machine. The discrete time steps in the Leslie matrix is one hour (note the initial data has been collected at 4 min time intervals). Age goes from birth (second column) to the last column of the matrix. Fertility rates (number of division per hour) are in the top row (first row after the header row). Survival rates are in the sub-diagonal. Final age with open age class.lesMG1655.csvLeslie matrix strain MG1655InlagThis csv file contains data of a age structured, Leslie matrix population projection model for E. coli strain MG1655Inlag. The data has been collected using a microfluidic device, called the mother machine. The discrete time steps in the Leslie matrix is one hour (note the initial data has been collected at 4 min time intervals). Age goes from birth (second column) to the last column of the matrix. Fertility rates (number of division per hour) are in the top row (first row after the header row). Survival rates are in the sub-diagonal. Final age with open age class.lesMG1655Inlag.csvLeslie matrix MG1655LMThis csv file contains data of a age structured, Leslie matrix population projection model for E. coli strain MG1655LM. The data has been collected using a microfluidic device, called the mother machine. The discrete time steps in the Leslie matrix is one hour (note the initial data has been collected at 4 min time intervals). Age goes from birth (second column) to the last column of the matrix. Fertility rates (number of division per hour) are in the top row (first row after the header row). Survival rates are in the sub-diagonal. Final age with open age class.lesMG1655LM.csvLeslie matrix strain W3110This csv file contains data of a age structured Leslie matrix population projection model for E. coli strain W3110. The data has been collected using a microfluidic device, called the mother machine. The discrete time steps in the Leslie matrix is one hour (note the initial data has been collected at 4 min time intervals). Age goes from birth (second column) to the last column of the matrix. Fertility rates (number of division per hour) are in the top row (first row after the header row). Survival rates are in the sub-diagonal. Final age with open age class.lesW3110.csvR code for analyzing the Leslie matrix dataThis is the R code that has been used for computing the different demographic parameters of Table 2 in the article: population growth rate lambda, generation time T, cohort generation time T_c, Mean lifespan, SD lifespan, coefficient of variation (CV) in lifespan, Mean lifetime reproductive success (LRS), SD LRS, CV LRS.LeslieAnalysis.R