Literature Referenced

Here is a round-up of literature cited within this material, as well as publications I have found helpful!

Introduction to Natural History Collections

Soltis. 2017. Digitization of herbaria enables novel research. American Journal of Botany.
Herberling et al. 2019. The changing uses of herbarium data in an era of global change: An overview using automated content analysis. BioScience.
Nelson and Ellis. 2018. The history and impact of digitization and digital data mobilization on biodiversity research. Phil. Trans. R. Soc. B.

Daru et al. 2017. Widespread sampling biases in herbaria revealed from large-scale digitization. New Phytologist.
Zizka et al. 2019. CoordinateCleaner: Standardized cleaning of occurrence records from biological collection databases. Methods in Ecology and Evolution.
Aiello-Lammens et al. 2015. spThin: an R package for spatial thinning of species occurrence records for use in ecological niche models. Ecography.
Proosdij et al. 2016. Minimum required number of specimen records to develop accurate species distribution models. Ecography.

Barve et al. 2011. The crucial role of the accessible area in ecological niche modeling and species distribution modeling. Ecological Modelling.
Cobos et al. 2019. An exhaustive analysis of heuristic methods for variable selection in ecological niche modeling and species distribution modeling. Ecological Informatics.

Peterson. 2001. Predicting species' geographic distributions based on ecological niche modeling. The Condor.
Muscarella et al. 2014. ENMeval: An R package for conducting spatially independent evaluations and estimating optimal model complexity for MaxEnt ecological niche models. Methods in Ecology and Evolution.
Sillero N. and A. M. Barbosa. 2020. Common mistakes in ecological niche models. International Journal of Geographical Information Science.
Jiménez & Soberón. 2020. Leaving the area under the receiving operating characteristic curve behind: An evaluation method for species distribution modelling applications based on presence-only data. Methods in Ecology and Evolution.
Cobos et al. 2019. kuenm: an R package for detailed development of ecological niche models using Maxent. PeerJ.
Warren et al. 2010. ENMTools: a toolbox for comparative studies of environmental niche models. Ecography.
Brown and Carnaval. 2019. A tale of two niche: methods, concepts, and evolution. Frontiers of Biogeography.
Warren et al. 2021. The effects of climate change on Australia’s only endemic Pokémon: Measuring bias in species distribution models. Methods in Ecology and Evolution.

Allen et al. 2019. Spatial Phylogenetics of Florida Vascular Plants: The Effects of Calibration and Uncertainty on Diversity Estimates. iScience.
Marchant et al. 2016. Patterns of abiotic niche shifts in allopolyploids relative to their progenitors. New Phytologist.
Gaynor et al. 2018. Climatic niche comparison among ploidal levels in the classic autopolyploid system, Galax urceolata. American Journal of Botany.
Visger et al. 2016. Niche divergence between diploid and autotetraploid Tolmiea. American Journal of Botany.
Wang et al. 2021. Potential distributional shifts in North America of allelopathic invasive plant species under climate change models. Plant Diversity.
Gaynor et al. 2020. Biogeography and ecological niche evolution in Diapensiaceae inferred from phylogenetic analysis. Journal of Systematics and Evolution.
Fitzpatrick and Turelli. 2006. The geography of mammalian speciation: Mixed signals from phylogenies and range maps. Evolution.
Cardillo and Warren. 2016. Analysing patterns of spatial and niche overlap among species at multiple resolutions. Global Ecology and Biogeography.
Jantzen et al. 2019. Effects of taxon sampling and tree reconstruction methods on phylodiversity metrics. Ecology and Evolution.

Are Ecological Niche Models (ENMs) and Species Distribution Models (SDMs) the same?