Humanization of wildlife gut microbiota in urban environments

  1. Brian A Dillard  Is a corresponding author
  2. Albert K Chung
  3. Alex R Gunderson
  4. Shane C Campbell-Staton
  5. Andrew H Moeller  Is a corresponding author
  1. Cornell University, United States
  2. Princeton University, United States
  3. Tulane University, United States

Abstract

Urbanization is rapidly altering Earth’s environments, demanding investigation of the impacts on resident wildlife. Here, we show that urban populations of coyotes (Canis latrans), crested anole lizards (Anolis cristatellus), and white-crowned sparrows (Zonotrichia leucophrys) acquire gut microbiota constituents found in humans, including gut bacterial lineages associated with urbanization in humans. Comparisons of urban and rural wildlife and human populations revealed significant convergence of gut microbiota among urban populations relative to rural populations. All bacterial lineages overrepresented in urban wildlife relative to rural wildlife and differentially abundant between urban and rural humans were also overrepresented in urban humans relative to rural humans. Remarkably, the bacterial lineage most overrepresented in urban anoles was a Bacteroides sequence variant that was also the most significantly overrepresented in urban human populations. These results indicate parallel effects of urbanization on human and wildlife gut microbiota and suggest spillover of bacteria from humans into wildlife in cities.

Data availability

Sequencing data have been deposited in Data Dryad at https://dx.doi.org/10.5061/dryad.dfn2z353d

The following data sets were generated
The following previously published data sets were used

Article and author information

Author details

  1. Brian A Dillard

    Department of Ecology and Evolutionary Biology, Cornell University, Ithaca, United States
    For correspondence
    bd429@cornell.edu
    Competing interests
    The authors declare that no competing interests exist.
    ORCID icon "This ORCID iD identifies the author of this article:" 0000-0003-1845-2980
  2. Albert K Chung

    Princeton University, Princeton, NJ, United States
    Competing interests
    The authors declare that no competing interests exist.
  3. Alex R Gunderson

    Tulane University, Tulane, United States
    Competing interests
    The authors declare that no competing interests exist.
  4. Shane C Campbell-Staton

    Princeton University, Princeton, NJ, United States
    Competing interests
    The authors declare that no competing interests exist.
  5. Andrew H Moeller

    Department of Ecology and Evolutionary Biology, Cornell University, Ithaca, United States
    For correspondence
    ahm226@cornell.edu
    Competing interests
    The authors declare that no competing interests exist.
    ORCID icon "This ORCID iD identifies the author of this article:" 0000-0002-8377-4647

Funding

National Institute of General Medical Sciences (R35 GM138284)

  • Andrew H Moeller

The funders had no role in study design, data collection and interpretation, or the decision to submit the work for publication.

Copyright

© 2022, Dillard et al.

This article is distributed under the terms of the Creative Commons Attribution License permitting unrestricted use and redistribution provided that the original author and source are credited.

Metrics

  • 3,591
    views
  • 849
    downloads
  • 25
    citations

Views, downloads and citations are aggregated across all versions of this paper published by eLife.

Download links

A two-part list of links to download the article, or parts of the article, in various formats.

Downloads (link to download the article as PDF)

Open citations (links to open the citations from this article in various online reference manager services)

Cite this article (links to download the citations from this article in formats compatible with various reference manager tools)

  1. Brian A Dillard
  2. Albert K Chung
  3. Alex R Gunderson
  4. Shane C Campbell-Staton
  5. Andrew H Moeller
(2022)
Humanization of wildlife gut microbiota in urban environments
eLife 11:e76381.
https://doi.org/10.7554/eLife.76381

Share this article

https://doi.org/10.7554/eLife.76381

Further reading

    1. Ecology
    2. Evolutionary Biology
    Justine Boutry, Océane Rieu ... Fréderic Thomas
    Research Article

    While host phenotypic manipulation by parasites is a widespread phenomenon, whether tumors, which can be likened to parasite entities, can also manipulate their hosts is not known. Theory predicts that this should nevertheless be the case, especially when tumors (neoplasms) are transmissible. We explored this hypothesis in a cnidarian Hydra model system, in which spontaneous tumors can occur in the lab, and lineages in which such neoplastic cells are vertically transmitted (through host budding) have been maintained for over 15 years. Remarkably, the hydras with long-term transmissible tumors show an unexpected increase in the number of their tentacles, allowing for the possibility that these neoplastic cells can manipulate the host. By experimentally transplanting healthy as well as neoplastic tissues derived from both recent and long-term transmissible tumors, we found that only the long-term transmissible tumors were able to trigger the growth of additional tentacles. Also, supernumerary tentacles, by permitting higher foraging efficiency for the host, were associated with an increased budding rate, thereby favoring the vertical transmission of tumors. To our knowledge, this is the first evidence that, like true parasites, transmissible tumors can evolve strategies to manipulate the phenotype of their host.

    1. Ecology
    Ming-Qiang Wang, Shi-Kun Guo ... Chao-Dong Zhu
    Research Article

    Environmental factors can influence ecological networks, but these effects are poorly understood in the realm of the phylogeny of host-parasitoid interactions. Especially, we lack a comprehensive understanding of the ways that biotic factors, including plant species richness, overall community phylogenetic and functional composition of consumers, and abiotic factors such as microclimate, determine host-parasitoid network structure and host-parasitoid community dynamics. To address this, we leveraged a 5-year dataset of trap-nesting bees and wasps and their parasitoids collected in a highly controlled, large-scale subtropical tree biodiversity experiment. We tested for effects of tree species richness, tree phylogenetic, and functional diversity, and species and phylogenetic composition on species and phylogenetic diversity of both host and parasitoid communities and the composition of their interaction networks. We show that multiple components of tree diversity and canopy cover impacted both, species and phylogenetic composition of hosts and parasitoids. Generally, phylogenetic associations between hosts and parasitoids reflected nonrandomly structured interactions between phylogenetic trees of hosts and parasitoids. Further, host-parasitoid network structure was influenced by tree species richness, tree phylogenetic diversity, and canopy cover. Our study indicates that the composition of higher trophic levels and corresponding interaction networks are determined by plant diversity and canopy cover, especially via trophic links in species-rich ecosystems.