skip to main content
US FlagAn official website of the United States government
dot gov icon
Official websites use .gov
A .gov website belongs to an official government organization in the United States.
https lock icon
Secure .gov websites use HTTPS
A lock ( lock ) or https:// means you've safely connected to the .gov website. Share sensitive information only on official, secure websites.


Title: Coyotes in New York City Carry Variable Genomic Dog Ancestry and Influence Their Interactions with Humans
Coyotes are ubiquitous on the North American landscape as a result of their recent expansion across the continent. They have been documented in the heart of some of the most urbanized cities, such as Chicago, Los Angeles, and New York City. Here, we explored the genomic composition of 16 coyotes in the New York metropolitan area to investigate genomic demography and admixture for urban-dwelling canids in Queens County, New York. We identified moderate-to-high estimates of relatedness among coyotes living in Queens (r = 0.0–0.5) and adjacent neighborhoods, suggestive of a relatively small population. Although we found low background levels of domestic-dog ancestry across most coyotes in our sample (5%), we identified a male suspected to be a first-generation coyote–dog hybrid with 46% dog ancestry, as well as his two putative backcrossed offspring that carried approximately 25% dog ancestry. The male coyote–dog hybrid and one backcrossed offspring each carried two transposable element insertions that are associated with human-directed hypersociability in dogs and gray wolves. An additional, unrelated coyote with little dog ancestry also carried two of these insertions. These genetic patterns suggest that gene flow from domestic dogs may become an increasingly important consideration as coyotes continue to inhabit metropolitan regions.  more » « less
Award ID(s):
1919452
PAR ID:
10376109
Author(s) / Creator(s):
; ; ; ; ;
Date Published:
Journal Name:
Genes
Volume:
13
Issue:
9
ISSN:
2073-4425
Page Range / eLocation ID:
1661
Format(s):
Medium: X
Sponsoring Org:
National Science Foundation
More Like this
  1. Gossmann, Toni (Ed.)
    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. 
    more » « less
  2. Abstract In the past decade, studies have demonstrated that urban and nonurban wildlife populations exhibit differences in foraging behavior and diet. However, little is known about how environmental heterogeneity shapes dietary variation of organisms within cities. We examined the vertebrate prey components of diets of coyotes (Canis latrans) in San Francisco to quantify territory‐ and individual‐level dietary differences and determine how within‐city variation in land cover and land use affects coyote diet. We genotyped fecal samples for individual coyote identification and used DNA metabarcoding to quantify diet composition and individual niche differentiation. The highest contributor to coyote diet overall was anthropogenic food followed by small mammals. The most frequently detected species were domestic chicken, pocket gopher (Thomomys bottae), domestic pig, and raccoon (Procyon lotor). Diet composition varied significantly across territories and among individuals, with territories explaining most of the variation. Within territories (i.e., family groups), the amount of dietary variation attributed to among‐individual differences increased with green space and decreased with impervious surface cover. The quantity of anthropogenic food in scats also was positively correlated with impervious surface cover, suggesting that coyotes consumed more human food in more urbanized territories. The quantity of invasive, human‐commensal rodents in the diet was positively correlated with the number of food services in a territory. Overall, our results revealed substantial intraspecific variation in coyote diet associated with urban landscape heterogeneity and point to a diversifying effect of urbanization on population diet. 
    more » « less
  3. Abstract Global change is increasing the frequency and severity of human‐wildlife interactions by pushing people and wildlife into increasingly resource‐limited shared spaces. To understand the dynamics of human‐wildlife interactions and what may constitute human‐wildlife coexistence in the Anthropocene, there is a critical need to explore the spatial, temporal, sociocultural and ecological variables that contribute to human‐wildlife conflicts in urban areas.Due to their opportunistic foraging and behavioural flexibility, coyotes (Canis latrans) frequently interact with people in urban environments. San Francisco, California, USA hosts a very high density of coyotes, making it an excellent region for analysing urban human‐coyote interactions and attitudes toward coyotes over time and space.We used a community‐curated long‐term data source from San Francisco Animal Care and Control to summarise a decade of coyote sightings and human‐coyote interactions in San Francisco and to characterise spatiotemporal patterns of attitudes and interaction types in relation to housing density, socioeconomics, pollution and human vulnerability metrics, and green space availability.We found that human‐coyote conflict reports have been significantly increasing over the past 5 years and that there were more conflicts during the coyote pup‐rearing season (April–June), the dry season (June–September) and the COVID‐19 pandemic. Conflict reports were also more likely to involve dogs and occur inside of parks, despite more overall sightings occurring outside of parks. Generalised linear mixed models revealed that conflicts were more likely to occur in places with higher vegetation greenness and median income. Meanwhile reported coyote boldness, hazing and human attitudes toward coyotes were also correlated with pollution burden and human population vulnerability indices.Synthesis and applications: Our results provide compelling evidence suggesting that human‐coyote conflicts are intimately associated with social‐ecological heterogeneities and time, emphasizing that the road to coexistence will require socially informed strategies. Additional long‐term research articulating how the social‐ecological drivers of conflict (e.g. human food subsidies, interactions with domestic species, climate‐induced droughts, socioeconomic disparities, etc.) change over time will be essential in building adaptive management efforts that effectively mitigate future conflicts from occurring. Read the freePlain Language Summaryfor this article on the Journal blog. 
    more » « less
  4. Abstract Echinococcus multilocularisis a zoonotic cestode that uses canids as definitive hosts and rodents as intermediate hosts. In humans, this parasite is the causative agent of alveolar echinococcosis. Recently, its range has been expanding across the Northern Hemisphere, and it is increasingly detected in wild canids, domestic dogs, and humans across Canada and the United States. While this expansion has been documented in isolated studies across the continent, a lack of routine sampling in wildlife hinders our ability to anticipate and mitigate further spread ofE. multilocularis. We confirmed the presence ofE. multilocularisin Washington State, USA, using a combination of morphological and molecular techniques across carcasses and field-collected scats of coyotes (Canis latrans), this region’s most common wild canid. Morphological identification of adult worms was confirmed by next-generation sequencing. Over a third of all samples tested positive forE. multiloculariswhen all methodologies were combined. Sequencing revealed a haplotype ofE. multilocularismatching a documented haplotype originally of European origin in British Columbia, Canada. Our study provides the first confirmation ofE. multilocularisin a wild host on the west coast of the U.S and provides additional haplotype information crucial to tracking the geographical expansion of the parasite. We also provide a new next-generation sequencing primer targeting cestodes of canids. The difference in amplification between intestinal and fecal samples suggests that non-invasive fecal sampling using DNA metabarcoding—a popular method of helminth surveillance —may lead to underestimation of prevalence, hindering control measures. The global significance of these findings extends beyond North America;E. multilocularisis a major public health concern in Europe and Asia, where alveolar echinococcosis is increasingly diagnosed in humans. Our study highlights the urgent need for increased surveillance and improved diagnostic strategies worldwide, particularly in regions with significant human-wildlife contact. Author summaryParasites that are transmitted between wildlife, domestic animals, and people are an important part of global health. One such parasite isEchinococcus multilocularis, a small tapeworm of canids that can cause a severe, life-threatening disease in humans called alveolar echinococcosis. Many wild canid hosts of the parasite, such as coyotes, overlap significantly with domestic dogs, which facilitates transmission to humans. In Europe, Asia, and Arctic regions of North America,E. multilocularishas long been recognized as a major public health problem. In recent decades its range has expanded across the Northern Hemisphere, raising concern. In this study, we discoveredE. multilocularisin coyotes in a densely populated area of Washington State, USA — the first detection ofE. multilocularisin a wild host in the region. More than one-third of our coyote samples containedE. multilocularis, confirming that it is widespread in the area. Genetic testing showed that the strain we detected matched one previously found in Canada, originally from Europe. Our findings underscore the importance of monitoringE. multilocularisand other parasites in wildlife so that emerging public health threats can be detected early, reducing risk to people and pets. 
    more » « less
  5. Rocky Mountain spotted fever (RMSF) is a significant health problem in Sonora, Mexico. The tick vector, Rhipicephalus sanguineus, feeds almost exclusively on domestic dogs that, in this region, also serve as the reservoir for the tick-borne pathogen, Rickettsia rickettsii. A process-based mathematical model of the life cycle of R. sanguineus was developed to predict combinations of insecticidal dog collars and long-lasting insecticidal wall treatments resulting in suppression of indoor tick populations. Because of a high burden of RMSF in a rural community near the Sonora state capital of Hermosillo, a test area was treated with a combination of insecticidal dog collars and long-lasting insecticidal wall treatments from March 2018 to April 2019, with subsequent reduction in RMSF cases and deaths. An estimated 80% of the dogs in the area had collars applied and 15% of the houses were treated. Data on tick abundance on walls and dogs, collected during this intervention, were used to parameterize the model. Model results show a variety of treatment combinations likely to be as successful as the one carried out in the test community. 
    more » « less