bioRxiv Science⌕ Search

bioRxiv · 10.1101/2024.04.30.591983

Comparing approaches to quantify urbanization on a multicontinental scale

Abstract

Urbanization is an increasingly prevalent driver of environmental, ecological, and evolutionary change in both terrestrial and aquatic systems, and it is important that our sampling designs accurately capture this urban environmental change. Common approaches to sampling urban environments include: urban-nonurban transects, which sample along urbanization gradients; random points, which sample locations at random within an area of interest; and systematic points, which sample locations based on a regularly-spaced grid from a predetermined starting point within the area of interest. Presently, we lack a comparative analysis of the efficacy of these different sampling designs in capturing variation in urban environments. Here, we compare the environmental variation captured by transect- and point-based sampling designs in 136 cities across six continents. We quantified and compared a common set of environmental variables for each sampling design, with variables capturing landcover, climate, and socioeconomic facets of urban environments. Mean landcover and socioeconomic metrics consistently differed among sampling designs, in contrast to climate variables that primarily varied among cities. Additionally, changes in environmental variables with distance from the city centre depended on the sampling design, with this distance-by-sampling design interaction present in 27%-51% of cities, depending on the environmental variable. This implies that the rate of environmental change along urban-nonurban gradients frequently depends on the sampling design used. We also examined potential causes of deviations between transect- and point-based sampling designs and identified human population density and city area as common predictors of deviations between transect- and point-sampling designs. Our results show that sampling design can dictate how the urban environment is characterized, with sampling design as important - or more important - as the selected environmental variable. We further developed R code so researchers can implement these methods as they develop and validate sampling designs in novel or unstudied urban environments.

Source connections

Explore related subjects

Keep this discovery

Explore connections, maps & timelines

BibTeXRIS

Murray-Stoker, D., Santangelo, J. S., Szulkin, M., Johnson, M.. 2024-05-03. Comparing approaches to quantify urbanization on a multicontinental scale. https://doi.org/10.1101/2024.04.30.591983

Cite the original work for its findings. Save a collection to share your selection of sources.

KEEP EXPLORING

Related preprints

Host availability, climate and pupal-stage ecology shape the predicted environmental suitability of the New World screwworm across Central and South America

Background: The New World screwworm, Cochliomyia hominivorax, causes primary myiasis in warm-blooded vertebrates. Its recent resurgence in Central America has renewed the need for spatial tools that identify environmentally suitable areas and surveillance gaps. Most previous distribution models have emphasized climate and livestock, whereas ecological constraints acting during the free-living pupal stage have rarely been incorporated. Methods: We compiled 2,461 georeferenced occurrence reports from the literature across Central and South America and linked them to climate, livestock density, forest cover and superficial soil predictors. Four sequential (nested) logistic models quantified the incremental contribution of predictor blocks, compared using likelihood-ratio tests, AIC and discrimination metrics. Logistic regression and Random Forest were then compared using five-fold spatial block cross-validation, which we treat as the primary measure of generalisation, and an independent municipality-level 70:30 train-test split. Variable importance was assessed using Random Forest Mean Decrease Accuracy together with partial-dependence profiles. Because presence and pseudo-absence classes were balanced before fitting, model outputs are interpreted as relative environmental suitability rather than absolute probability of occurrence. Results: The literature database represented 2,589 infected hosts, dominated by cattle, pigs, dogs and humans. Across the sequential models, AUC increased from 0.780 for climate alone to 0.898 with livestock density, 0.908 with forest cover and 0.918 with superficial soil properties; the increment attributable to the soil block ({Delta}AUC = 0.010) was smaller than the between-fold variability observed under spatial cross-validation (SD 0.049) and is therefore reported as suggestive rather than established. Sheep and horse density and cold-quarter soil temperature showed the highest Mean Decrease Accuracy values, while silt texture ranked above cattle density and forest cover. Under spatial block cross-validation Random Forest was markedly more stable than the GLM (mean AUC 0.926 {+/-} 0.049 versus 0.814 {+/-} 0.157) and was retained as the final model. On the independent municipality-level test set it achieved AUC 0.981, TSS 0.824, sensitivity 0.850 and specificity 0.972, values we regard as optimistic relative to the spatially blocked estimates. Predicted suitability was highest across Central America and parts of northern and tropical South America. Conclusions: C. hominivorax occurrence was associated with interacting climatic, host and landscape conditions. Superficial soil variables added a small, biologically interpretable signal consistent with constraints acting during pupation, but one that lies within the uncertainty of our spatial validation and requires confirmation with independent data. The maps estimate relative environmental suitability rather than infection incidence, and are intended to identify areas where surveillance could be strengthened rather than to guide control operations directly.

ecology↗

Phenotypic variation in divergent mitochondrial haplotypes in migratory three-spined stickleback

Mitochondria are essential components in life-sustaining organismal processes. The mitochondrial genome can be influenced by selection, and divergent mitochondrial haplotypes have substantial potential to affect interspecies variation in life-history and physiology, yet little is known about whole organism phenotypic changes that might accompany mitochondrial genomic divergence. Three-spined stickleback on the Scottish island of North Uist provide a model to study this as their populations exhibit a well-mixed nuclear genome, yet two highly diverged mitochondrial haplotypes ( trans-Atlantic and European). Three-spined stickleback were sampled from six lochs to investigate associations between mitochondrial haplotype and phenotypic traits including organ size, body size, and ovule volume/clutch size, as well as citrate synthase enzyme activity. Results showed that mitochondrial haplotype has an influence on male gonadosomatic index (GSI) and potentially citrate synthase (CS) enzyme activity. Differences in male GSI may be explained by the timing of male spermatogenesis or potentially a need for larger testes in European haplotype fish. While no other phenotypic trait showed differences between mitochondrial haplotypes, there were many differences between sexes and populations e.g. in body size and organ/muscle size.

ecology↗

Gregariousness can promote invasion success of pest insects while higher environmental heterogeneity decreases it

Climate change and environmental homogenization are expected to facilitate the expansion of many forest pest insect species and increase the vulnerability of forest ecosystems to insect outbreaks. At present, we lack empirical data on how the antipredator defence traits of pest insects interact with the local environmental conditions and shape outbreak risk. Here we study this and ask 1) how the antipredator defence strategy of pest insects shapes survival under naturally varying predator community, and 2) how is predation risk shaped by the diversity and structure of forests? We tested these questions by conducting a field predation experiment with artificial prey system (prey items made from edible dough) where we manipulated the gregariousness, unpalatability and defensive colouration of prey and tested their effects on prey survival. Additionally, we measured environmental variables and invertebrate predator community structure along the prey transects to analyse how they shape overall predation risk. Our results show that the predation risk was always lowest for gregarious prey irrespective of other defence strategies. Furthermore, our results indicate that predation pressure was lower in more homogenously structured forest areas or areas with a weak quality deadwood continuum in comparison to locations with more natural state forests and good quality deadwood continuum. Altogether, our results suggest that gregariousness can facilitate pest insects to form outbreaks by increasing their survival against generalist predators. However, by maintaining higher heterogeneity in forests, it is possible to ensure higher predation pressure to regulate their population growth.

ecology↗