journal article Open Access Dec 30, 2024

Adaptation in the Alleyways: Candidate Genes Under Potential Selection in Urban Coyotes

View at Publisher Save 10.1093/gbe/evae279
Abstract
Abstract
In the context of evolutionary time, cities are an extremely recent development. Although our understanding of how urbanization alters ecosystems is well developed, empirical work examining the consequences of urbanization on adaptive evolution remains limited. To facilitate future work, we offer candidate genes for one of the most prominent urban carnivores across North America. The coyote (Canis latrans) is a highly adaptable carnivore distributed throughout urban and nonurban regions in North America. As such, the coyote can serve as a blueprint for understanding the various pathways by which urbanization can influence the genomes of wildlife via comparisons along urban–rural gradients, as well as between metropolitan areas. Given the close evolutionary relationship between coyotes and domestic dogs, we leverage the well-annotated dog genome and highly conserved mammalian genes from model species to outline how urbanization may alter coyote genotypes and shape coyote phenotypes. We identify variables that may alter selection pressure for urban coyotes and offer suggestions of candidate genes to explore. Specifically, we focus on pathways related to diet, health, behavior, cognition, and reproduction. In a rapidly urbanizing world, understanding how species cope and adapt to anthropogenic change can facilitate the persistence of, and coexistence with, these species.
Topics

No keywords indexed for this article. Browse by subject →

References
298
[1]
Ahmed "Functional null mutations of MSRB3 encoding methionine sulfoxide reductase are associated with human deafness DFNB74" Am J Hum Genet (2011) 10.1016/j.ajhg.2010.11.010
[2]
Aiello "The expensive-tissue hypothesis: the brain and the digestive system in human and primate evolution" Curr Anthropol (1995) 10.1086/204350
[3]
Alberti "Urban driven phenotypic changes: empirical observations and theoretical implications for evolutionary feedback" Phil Trans R Soc (2017) 10.1098/rstb.2016.0029
[4]
Al-Daghri "Susceptibility to type 2 diabetes may be modulated by haplotypes in G6PC2, a target of positive selection" BMC Evol Biol (2017) 10.1186/s12862-017-0897-z
[5]
Andrews "Regulation of metallothionein gene expression by oxidative stress and metal ions" Biochem Pharmacol (2000) 10.1016/s0006-2952(99)00301-9
[6]
Arendt "Diet adaptation in dog reflects spread of prehistoric agriculture" Heredity (Edinb). (2016) 10.1038/hdy.2016.48
[7]
Arendt "Amylase activity is associated with AMY2B copy numbers in dog: implications for dog domestication, diet and diabetes" Anim Genet (2014) 10.1111/age.12179
[9]
The genomic signature of dog domestication reveals adaptation to a starch-rich diet

Erik Axelsson, Abhirami Ratnakumar, Maja-Louise Arendt et al.

Nature 2013 10.1038/nature11837
[10]
Babik "The genomic response to urbanization in the damselfly Ischnura elegans" Evol Appl (2023) 10.1111/eva.13603
[11]
Banks "Serum leptin levels as a marker for a syndrome X-like condition in wild baboons" J Clin Endocrinol Metab (2003) 10.1210/jc.2002-021695
[12]
Big city life: carnivores in urban environments

P. W. Bateman, P. A. Fleming

Journal of Zoology 2012 10.1111/j.1469-7998.2011.00887.x
[13]
Brain-derived neurotrophic factor and its clinical implications

Siresha Bathina, Undurti N. Das

Archives of Medical Science 2015 10.5114/aoms.2015.56342
[14]
Beckmann "Behavioral responses of wild animals to anthropogenic change: insights from domestication" Behav Ecol Sociobiol (2022) 10.1007/s00265-022-03205-6
[15]
Beckmann "Carnivores, urban landscapes, and longitudinal studies: a case history of black bears" Hum Wildl Confl (2008) 10.26077/3x8t-y791
[16]
Survival and divergence in a small group: The extraordinary genomic history of the endangered Apennine brown bear stragglers

Andrea Benazzo, Emiliano Trucchi, James A. Cahill et al.

Proceedings of the National Academy of Sciences 2017 10.1073/pnas.1707279114
[17]
Bergmann "Ueber die verhältnisse der wärmeökonomie der thiere zu ihrer grösse" Gottinger Studien (1847)
[18]
Beier (2006)
[19]
Birnie-Gauvin "Nutritional physiology and ecology of wildlife in a changing world" Conserv Physiol (2017) 10.1093/conphys/cox030
[20]
Boehlke "Salivary amylase—the enzyme of unspecialized euryphagous animals" Arch Oral Biol (2015) 10.1016/j.archoralbio.2015.05.008
[21]
Boitani (2006)
[22]
Bolnick "The ecology of individuals: incidence and implications of individual specialization" Am Nat (2003) 10.1086/343878
[23]
Boni "Heat stress, a serious threat to reproductive function in animals and humans" Mol Reprod Dev (2019) 10.1002/mrd.23123
[24]
Bounduriansky "Nongenetic inheritance and its evolutionary implications" Annu Rev Ecol Evol Syst (2009) 10.1146/annurev.ecolsys.39.110707.173441
[25]
Boutin "Food supplementation experiments with terrestrial vertebrates: patterns, problems, and the future" Can J Zool (1990) 10.1139/z90-031
[26]
Boutry "Ecological and evolutionary consequences of anticancer adaptations" iScience (2020) 10.1016/j.isci.2020.101716
[27]
Brassard "Masticatory system integration in a commensal canid: interrelationships between bones, muscles and bite force in the red fox" J Exp Biol (2021) 10.1242/jeb.224394
[28]
Breck "The intrepid urban coyote: a comparison of bold and exploratory behavior in coyotes from urban and rural environments" Sci Rep (2019) 10.1038/s41598-019-38543-5
[29]
Brewer (1994)
[30]
Bridelli "Theoretical analysis of adsorption of metal ions to the surface of melanin particles" Adsorption (2008) 10.1007/s10450-007-9059-8
[31]
Bronson (1989)
[32]
Brooks "Coyotes living near cities are bolder: implications for dog evolution and human–wildlife conflict" Behavior (2020) 10.1163/1568539x-bja10002
[33]
Burgess "Transcriptomic analysis of the temporal host response to skin infestation with the ectoparasitic mite Psoroptes ovis" BMC Genomics (2010) 10.1186/1471-2164-11-624
[34]
Burkhardt-Holm "Endocrine disruptors and water quality: a state-of-the-art review" Int J Water Resour Dev (2010) 10.1080/07900627.2010.489298
[35]
Caizergues "Does urbanization lead to parallel demographic shifts across the world in a cosmopolitan plant?" Mol Ecol (2024) 10.1111/mec.17311
[36]
Campbell-Staton "Selection on adaptive and maladaptive gene expression plasticity during thermal adaptation to urban heat islands" Nat Commun (2021) 10.1038/s41467-021-26334-4
[37]
Campbell-Staton "Parallel selection on thermal physiology facilitates repeated adaptation of city lizards to urban heat islands" Nat Ecol Evol (2020) 10.1038/s41559-020-1131-8
[38]
Candille "A β-defensin mutation causes black coat color in domestic dogs" Science (2007) 10.1126/science.1147880
[39]
Caragiulo "Coyotes in New York City carry variable genomic dog ancestry and influence their interactions with humans" Genes (Basel). (2022) 10.3390/genes13091661
[40]
Carrete "Inter-individual variability in fear of humans and relative brain size of the species are related to contemporary urban invasion birds" PLoS One (2011) 10.1371/journal.pone.0018859
[41]
Behavioral plasticity can facilitate evolution in urban environments

Tal Caspi, Jacob R. Johnson, Max R. Lambert et al.

Trends in Ecology & Evolution 2022 10.1016/j.tree.2022.08.002
[42]
Casto-Robollo "Identification of functional mutations associated with environmental variance of litter size in rabbits" Genet Sel Evol (2020) 10.1186/s12711-020-00542-w
[43]
Cauchoix "Cognition in context: plasticity in cognitive performance in response to ongoing environmental variables" Front Ecol Evol (2020) 10.3389/fevo.2020.00106
[44]
Chatelain "The adaptive function of melanin-based plumage coloration to trace metals" Biol Lett (2014) 10.1098/rsbl.2014.0164
[45]
Chatterton "Salivary alpha-amylase as a measure of endogenous adrenergic activity" Clin Physiol (1996) 10.1111/j.1475-097x.1996.tb00731.x
[46]
Chen "Foxa3 induces goblet cell metaplasia and inhibits innate antiviral immunity" Am J Respir Crit Care Med (2014) 10.1164/rccm.201306-1181oc
[47]
Chen "Comparative transcriptome and methylome of polar bears, giant and red pandas reveal diet-driven adaptive revolution" Evol Appl (2024) 10.1111/eva.13731
[48]
Choppin "Effect of tecarfarin, a novel vitamin K epoxide reductase inhibitor, on coagulation in beagle dogs" Br J Pharmacol (2009) 10.1111/j.1476-5381.2009.00420.x
[49]
Coli "Wolf and dog: what differences exist?" Anatomia (2023) 10.3390/anatomia2010007
[50]
Oxidative Stress and Nutraceuticals in the Modulation of the Immune Function: Current Knowledge in Animals of Veterinary Interest

Monica Colitti, Bruno Stefanon, Gianfranco Gabai et al.

Antioxidants 2019 10.3390/antiox8010028

Showing 50 of 298 references

Metrics
2
Citations
298
References
Details
Published
Dec 30, 2024
Vol/Issue
17(1)
License
View
Funding
School of Environmental and Forest Sciences at the University of Washington Award: #2023333162
Environmental Science, Policy, and Management department at the University of California
Living Earth Collaborative at Washington University in St. Louis
Cite This Article
Samantha E S Kreling, Summer E Vance, Elizabeth Carlen (2024). Adaptation in the Alleyways: Candidate Genes Under Potential Selection in Urban Coyotes. Genome Biology and Evolution, 17(1). https://doi.org/10.1093/gbe/evae279