Shorter life and reduced fecundity can increase colony fitness in virtual C. elegans

Published: 15-03-2020| Version 1 | DOI: 10.17632/9h9dyyxc49.1
Contributors:
Evgeny Galimov,
David Gems

Description

This dataset contains raw data generated during simulations, as well as analysed data and graphs. The folder called "Scripts" contains all the script used to generate the data. Readme.txt file inside the folder contains a description regarding how to run the modelling. There are 6 compressed folders corresponding to the 5 different groups of experiments we set up: 1) Simulations where there was no reproductive decline, and where we varied the number of progeny produced by live adult at each timepoint. 2) Simulations where there was reproductive decline, and we tested different reproductive schedules. 3) Simulations where reproduction happened only at day 1 of adulthood, and we varied the number of progeny produced by day 1 adults. 4) Simulations where 4 progeny were produced only at day 1 of adulthood and we varied the number of food that adults consume. 5) Simulations where 4 progeny were produced only at day 1 of adulthood and we varied the number of food that larvae consume. 6) Simulations where 4 progeny were produced only at day 1 of adulthood were a control. We varied amount of food source, shape of food source, grid size, the number of founders. It includes simulations when adult food consumption was declines according to Huang et al 2004 or after day 2 Each subfolder in these folders (i.e. "2_progeny_per_timepoint" subfolder in the unzipped "1_No_reproductive_decline" folder ) corresponds to a particular simulation experiment where reproductive schedule and food consumption rates for adults and larvae are fixed. So, the subfolder contains the result for 4500 simulations (5 different lifespans * 9 different dispersal speeds * 100 repeats). Each subfolder (that corresponds to reproductive schedule and food consumption) also contains a file called run3_fast.py where all the parameters for the simulation are written, and 4 subfolders: 1_Raw_data_by_timepoints, 2_All_conditions__by_timepoints, 3_each_condition__over_all_timepoints, 4_all_conditions_over_all_timepoints 1_Raw_data_by_timepoints – contains raw data from the in silico experiment for all 4500 simulations for each timepoint. Each timepoint is a separate table. 2_All_conditions__by_timepoints – contains different folders where results over all 100 repeats are averaged for all 45 lifespan*speed combinations for each timepoint 3_each_condition__over_all_timepoints – in this folder it is shown how particular metrics (i.e. number of dauers) changes over timepoints for each of 45 pairs of lifespan*dispersal speed 4_all_conditions_over_all_timepoints – the folder contains graphs where all 45 lifespan*speed combinations or 9 speeds for each of 5 lifespans are shown over all timepoints for: number of adults – number of adults at a timepoint. share of food consumption by adults – cumulative share of food consumed by adults by a timepoint. L2S__max – maximum number of dauers by a timepoint. L2S – number of dauers at a timepoint L2S_sum – sum number of dauers by a timepoint.

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