Journal article Open Access

Presence of a resident species aids invader evolution

Lachapelle, Josianne; Bestion, Elvire; Jackson, Eleanor; Schaum, C-Elisa

These are the script and data needed to replicate all figures and stats in 

Presence of a resident species aids invader evolution 

Authors: Josianne Lachapelle, Elvire Bestion, Eleanor E Jackson , C- Elisa Schaum (corresponding author) 

as accepted for publication with Limnology & Oceanography 

The word file  "ZenodoSaltFresh_Extra" contains additional information on ROS tolerance and production in the strains used in this experiment. While we do not focus on the ROS data in the main manuscript, we think the additional information is worth sharing. 

The R file "R code for Presence of a resident species aids invader evolution.R" contains all code needed, and should run in all current versions of R and R studio (in mid 2022). 

Below, we describe in alphabetical order the content of the csv files. Should any raw raw data (e.g. flow cytometre files) be of interest, please get in touch with the corresponding author. 

biomass.cellsize.over.time.csv is used for stats and figures tracking changes in cell size and /or biomass throughout the experiment. 

clones_SAL only.csv contains the growth rates of invaders and coloniser species after the samples had been made clonal again after evolution in their selection and ancestral environments. This allows us to test how replicable a certain response is within a population. 

decomposed samples growth.csv has all data needed to analyse the growth of mixed culture samples that were turned into mono culture samples at the end of the selection experiment, and the 'relative growth' column compares growth rates of these 'decomposed' samples to samples that have always been in co culture and  to growth rates of samples that have always been in mono -culture.

decomposed short.csv looks at how quickly (or whether it happens quickly in the first place) samples develop any kind of dependence on the other species being present. 

fitness.assay.data.csv contains cell counts and weekly growth rates per well plate ID ("plateloc") of each unique bio replicate for each unique combination of biological and environmental treatment throughout the entire experiment.

forestplot_salt.csv combines the phenotype data needed to create the forest plot in the main manuscript. 

growthNILE.csv is for analysing and plotting the relationship between (changes in) growth rate and (changes in) Nile Red fluorescence, which is a proxy for intracellular lipid content. 

means_transfer.csv is built from fitness.assay.data.csv and contains averages per week per unique treatment combination. 

NP decomposed.csv contains net photosynthesis data for samples evolved in mono and mixed culture, as well as for samples evolved in mixed culture, but decomposed back into mono cultures. 

sal_trial_OTchlamy.csv we ran a salinity trial to test the ranges of salinity to use. The data are in this spreadsheet.

shoRtlong.csv contains growth rate data for each unique treatment combination in the short-term (beginning of the selection experiment or reciprocal assay at the end of the experiment) and in the long-term (end of selection experiment )to test whether long term responses can be predicted from short-term data

sizegrowthROS_datasets_BOTH.csv This combines the size dataset with our dataset of ROS tolerance and ROS production to test for correlations between size and ROS production/sensitivity.   

temptrial_OTchlamy.csv was used to create temperature tolerance curves following a trial to determine the temperatures to use in the selection experiment 

trajecs_stable_gr.csv contains cell counts at the beginning, middle, and end of each batch cycle, allowing us to test whether growth remained exponential throughout the experiment. 
 

Files (2.9 MB)
Name Size
biomass.cellsize.over.time.csv
md5:98c57ce744a9eafb761da3cce892d6b1
1.6 MB Download
clones_SAL only.csv
md5:2b17d6b1fe697fcba0eae868cd80b948
218.7 kB Download
decomposed samples growth.csv
md5:1e39205f5d3e9f6cf48d127eb089e7d2
3.5 kB Download
decomposed short.csv
md5:d63363ec0a31e990714659db46f8d106
5.6 kB Download
fitness.assay.data.csv
md5:9750caf14610cb34841e4cfc0d2b5723
295.5 kB Download
forestplot_salt.csv
md5:e340fe9fda4bb17ad2562339aa399c8d
4.6 kB Download
growthNILE.csv
md5:425170fe7d44dbd6f6fb7e93a7965d99
3.7 kB Download
means_transfer.csv
md5:9bd83cb987860e8d2d711a199df8be3e
205.2 kB Download
NP decomposed.csv
md5:9e77ed9d0189be44af69525d322dbeab
24.8 kB Download
R code for Presence of a resident species aids invader evolution.R
md5:bcb3ecba69111fff3fb541ba01fe794e
59.9 kB Download
sal_trial_OTChlamy.csv
md5:6055b5c9b08a7aab7670fb27d37a760c
1.2 kB Download
shoRtlong.csv
md5:21e38034e2b5fb7f3438e087162f0766
9.4 kB Download
sizegrowthROS_datasets_BOTH.csv
md5:1d432d8217aa2597af6412be54592e4f
6.5 kB Download
temptrial_OTchlamy.csv
md5:7ef0eebe2fc5e5aab86bc01cc5dfe056
490 Bytes Download
ZenodoSaltFresh_Extra.docx
md5:d1db0cafc43898896f70addbc00e592e
444.8 kB Download
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