Chan, Yuan-Fu, Hodgson, jenny and Whitlock, Raj (2026) The relationship between environmental stress and inbreeding depression in populations of animals and plants: a data resource for meta-analysis (Version 1.0). [Data Collection]
Description
This dataset comprises data and code needed to support meta-analyses on the relationship between inbreeding depression and environmental variation and stress, in populations of animals and plants. These materials are sufficient to replicate all analyses and figures in a companion manuscript (Chan, Hodgson & Whitlock, 2026; Inbreeding depression is greater in benign than in stressful environments, under review). The dataset has two subfolders: the “Data” subfolder contains data files, and the “Code” subfolder contains R-scripts for analysis and plotting. Each subfolder contains a readme.txt file fully describing the directory contents. Instructions for working with code and data are found in ./Code/readme.txt. The data The first data file comprises a tab-delimited text file (Chan_Ibd_Env_non_redundant_06_2026.tsv) which records inbreeding depression effect sizes, their sampling variance, samples sizes, standard error and a range of contextual information, extracted from 116 published research articles. The contextual information defines data structure (effect sizes nested within articles), and describes traits in which inbreeding costs were observed, organism taxonomy, observation environment, breeding or mating design, including inbreeding coefficients of observed progeny individuals. The second data file is also a tab-delimited text file (Chan_Datasource_Bibliography_06_2026.tsv) and contains bibliographical information for all articles that contributed data to Chan_Ibd_Env_non_redundant_06_2026.tsv (including author information, article title, publication/ journal title, volume, pages). The two data files are linked by a common field of article identifiers (Article_ID). Accompanying the two data files are two comma-delimited metadata files (Chan_Ibd_Env_non_redundant_metadata_06_26.csv and Chan_Datasource_Bibliography_06_2026_metadata.csv). These files give specific detail on the definition of all fields present in the two data files. Finally, a text file (readme.txt) describes the directory contents, recapitulating some of the information given above. The code The Code folder contains a collection of R-scripts (plain text files, with .R extensions) that can be run in the R statistical software. First, aanalysis readyprovided to transform the main data file (Chan_Ibd_Env_non_redundant_06_2026.tsv) into a format that is analysis ready. Eight R-scripts are provided to analyse data and plot figures that were included in our manuscript and its supplementary information. The R-script Master.R allows each of these (in total) 9 scripts to be conveniently sourced and run from the command line, generating plots without copy/pasting the underlying code. This file also specifies packages to be installed before running any code. Beyond this, there are two R-scripts to run a numerical simulation that we included in our manuscript (NumericSimulation_EnE.R and NumericSimulation_InE.R) and a convenience script for plotting error bars around points in graphs (Bar_plot_error_bars.R). Finally, a readme.txt file summarises the contents of the Code directory and gives additional specific detail for running code and computing resource requirements for doing so. The articles contributing data to our dataset are: Bibliography 1. S. Andersson, Does inbreeding promote evolutionary reduction of flower size? Experimental evidence from Crepis tectorum (Asteraceae). American Journal of Botany 99, 1388-1398 (2012). 2. J. R. Auld, R. A. Relyea, Life-history plasticity and inbreeding depression under mate limitation and predation risk: cumulative lifetime fitness dissected with a life table response experiment. Evolutionary Ecology 24, 1171-1185 (2010). 3. J. R. Auld, R. A. Relyea, Inbreeding depression in adaptive plasticity under predation risk in a freshwater snail. Biology Letters 6, 222-224 (2010). 4. R. Bello-Bedoy, J. Núñez-Farfán, The effect of inbreeding on defence against multiple enemies in Datura stramonium. Journal of Evolutionary Biology 24, 518-530 (2011). 5. A. R. Brown et al., Climate change and pollution speed declines in zebrafish populations. Proceedings of the National Academy of Sciences of the United States of America 112, E1237-E1246 (2015). 6. D. V. Calleri, E. M. Reid, R. B. Rosengaus, E. L. Vargo, J. F. A. Traniello, Inbreeding and disease resistance in a social insect: effects of heterozygosity on immnnocompetence in the termite Zootermopsis angusticollis. Proceedings of the Royal Society B-Biological Sciences 273, 2633-2640 (2006). 7. S. A. Campbell, R. Halitschke, J. S. Thaler, A. Kessler, Plant mating systems affect adaptive plasticity in response to herbivory. Plant Journal 78, 481-490 (2014). 8. S. A. Campbell, J. S. Thaler, A. Kessler, Plant chemistry underlies herbivore-mediated inbreeding depression in nature. Ecology Letters 16, 252-260 (2013). 9. S. Carleial, M. van Kleunen, M. Stift, Relatively weak inbreeding depression in selfing but also in outcrossing populations of North American Arabidopsis lyrata. Journal of Evolutionary Biology 30, 1994-2004 (2017). 10. D. E. Carr, M. D. Eubanks, Inbreeding alters resistance to insect herbivory and host plant quality in Mimulus guttatus (Scrophulariaceae). Evolution 56, 22-30 (2002). 11. D. E. Carr, J. F. Murphy, M. D. Eubanks, The susceptibility and response of inbred and outbred Mimulus guttatus to infection by Cucumber mosaic virus. Evolutionary Ecology 17, 85-103 (2003). 12. Z. Q. Chen et al., Inbreeding produces trade-offs between maternal fecundity and offspring survival in a monandrous spider. Animal Behaviour 132, 253-259 (2017). 13. P. O. Cheptou, A. Berger, A. Blanchard, C. Collin, J. 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Stillwell, Environmental effects on sex differences in the genetic load for adult lifespan in a seed-feeding beetle. Heredity 103, 62-72 (2009). 29. C. W. Fox, R. C. Stillwell, W. G. Wallin, C. L. Curtis, D. H. Reed, Inbreeding-environment interactions for fitness: complex relationships between inbreeding depression and temperature stress in a seed-feeding beetle. Evolutionary Ecology 25, 25-43 (2011). 30. K. Franke, K. Fischer, Effects of inbreeding and temperature stress on life history and immune function in a butterfly. Journal of Evolutionary Biology 26, 517-528 (2013). 31. A. García-Fernández, J. M. Iriondo, A. Escudero, Inbreeding at the edge: does inbreeding depression increase under more stressful conditions? Oikos 121, 1435-1445 (2012). 32. H. Garcia-Serrano, J. Escarré, L. Caño, F. X. Sans, Comparing the effect of habitat on the magnitude of inbreeding depression in the Mediterranean native Senecio malacitanus and the alien S-inaequidens:: consequences for invasive ability. Botany-Botanique 86, 63-75 (2008). 33. C. Goodwillie, Inbreeding depression and mating systems in two species of Linanthus (Polemoniaceae). Heredity 84, 283-293 (2000). 34. M. J. Groom, T. E. Preuninger, Population type can influence the magnitude of inbreeding depression in Clarkia concinna (Onagraceae). Evolutionary Ecology 14, 155-180 (2000). 35. C. R. Haag, O. Sakwinska, D. Ebert, Test of synergistic interaction between infection and inbreeding in Daphnia magna. Evolution 57, 777-783 (2003). 36. C. N. Hayes, J. A. Winsor, A. G. Stephenson, Environmental variation influences the magnitude of inbreeding depression in Cucurbita pepo ssp texana (Cucurbitaceae). Journal of Evolutionary Biology 18, 147-155 (2005). 37. C. N. Hayes, J. A. Winsor, A. G. Stephenson, Inbreeding influences herbivory in Cucurbita pepo ssp texana (Cucurbitaceae). Oecologia 140, 601-608 (2004). 38. J. Hereford, Inbreeding depression does not increase in foreign environments: a field experimental study. AoB Plants 6 (2014). 39. J. S. Heywood, Biparental inbreeding depression in the self-incompatible annual plant Gaillardia-pulchella (Asteraceae). American Journal of Botany 80, 545-550 (1993). 40. R. A. Hufbauer, A. Rutschmann, B. Serrate, H. V. de Conchard, B. Facon, Role of propagule pressure in colonization success: disentangling the relative importance of demographic, genetic and habitat effects. Journal of Evolutionary Biology 26, 1691-1699 (2013). 41. H. M. Hull-Sanders, M. D. Eubanks, Plant defense theory provides insight into interactions involving inbred plants and insect herbivores. Ecology 86, 897-904 (2005). 42. C. T. Ivey, D. E. Carr, Effects of herbivory and inbreeding on the pollinators and mating system of Mimulus guttatus (Phrymaceae). American Journal of Botany 92, 1641-1649 (2005). 43. C. T. Ivey, D. E. Carr, M. D. Eubanks, Effects of inbreeding in Mimulus guttatus on tolerance to herbivory in natural environments. Ecology 85, 567-574 (2004). 44. T. Janicke, N. Vellnow, T. Lamy, E. Chapuis, P. David, Inbreeding depression of mating behavior and its reproductive consequences in a freshwater snail. Behavioral Ecology 25, 288-299 (2014). 45. T. Janicke, N. Vellnow, V. Sarda, P. David, Sex-specific inbreeding depression depends on the strength of male-male competition. Evolution 67, 2861-2875 (2013). 46. P. N. Joseph, D. A. Sasson, P. E. Allen, U. Somjee, C. W. Miller, Adult nutrition, but not inbreeding, affects male primary sexual traits in the leaf-footed cactus bug Narnia femorata (Hemiptera: Coreidae). Ecol Evol 6, 4792-4799 (2016). 47. D. Joubert, R. Bijlsma, Interplay between habitat fragmentation and climate change: inbreeding affects the response to thermal stress in Drosophila melanogaster. Climate Research 43, 57-70 (2010). 48. A. Kalske, A. Muola, P. Mutikainen, R. Leimu, Preference for outbred host plants and positive effects of inbreeding on egg survival in a specialist herbivore. 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Stephenson, Inbreeding Depression in Solanum carolinense (Solanaceae) under Field Conditions and Implications for Mating System Evolution. Plos One 6 (2011). 54. B. F. Kennedy, E. Elle, The inbreeding depression cost of selfing: importance of flower size and population size in Collinsia parviflora (Veronicaceae). American Journal of Botany 95, 1596-1605 (2008). 55. A. Kjærsgaard et al., Temperature-specific acclimation effects on adult locomotor performance of inbred and crossbred Drosophila melanogaster. Physiological Entomology 39, 127-135 (2014). 56. H. P. Koelewijn, Sibling competition, size variation and frequency-dependent outcrossing advantage in Plantago coronopus. Evolutionary Ecology 18, 51-74 (2004). 57. J. M. Koslow, K. Clay, The mixed mating system of Impatiens capensis and infection by a foliar rust pathogen: Patterns of resistance and fitness consequences. Evolution 61, 2643-2654 (2007). 58. T. N. Kristensen, J. S. F. Barker, K. S. Pedersen, V. 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| Keywords: | Conservation genetics, Environmental stress, Fitness cost, Inbreeding depression, Meta-analysis |
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| Date Deposited: | 07 Jul 2026 09:01 |
| Last Modified: | 07 Jul 2026 09:09 |
| DOI: | 10.17638/datacat.liverpool.ac.uk/3095 |
| URI: | https://datacat.liverpool.ac.uk/id/eprint/3095 |
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