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

  • 3,268
    views
  • 802
    downloads
  • 22
    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. Microbiology and Infectious Disease
    Tom Clegg, Samraat Pawar
    Research Article

    Predicting how species diversity changes along environmental gradients is an enduring problem in ecology. In microbes current theories tend to invoke energy availability and enzyme kinetics as the main drivers of temperature-richness relationships. Here we derive a general empirically-grounded theory that can explain this phenomenon by linking microbial species richness in competitive communities to variation in the temperature-dependence of their interaction and growth rates. Specifically, the shape of the microbial community temperature-richness relationship depends on how rapidly the strength of effective competition between species pairs changes with temperature relative to the variance of their growth rates. Furthermore, it predicts that a thermal specialist-generalist tradeoff in growth rates alters coexistence by shifting this balance, causing richness to peak at relatively higher temperatures. Finally, we show that the observed patterns of variation in thermal performance curves of metabolic traits across extant bacterial taxa is indeed sufficient to generate the variety of community-level temperature-richness responses observed in the real world. Our results provide a new and general mechanism that can help explain temperature-diversity gradients in microbial communities, and provide a quantitative framework for interlinking variation in the thermal physiology of microbial species to their community-level diversity.

    1. Ecology
    Chao Wen, Yuyi Lu ... Lars Chittka
    Research Article

    Bumblebees (Bombus terrestris) have been shown to engage in string-pulling behavior to access rewards. The objective of this study was to elucidate whether bumblebees display means-end comprehension in a string-pulling task. We presented bumblebees with two options: one where a string was connected to an artificial flower containing a reward and the other presenting an interrupted string. Bumblebees displayed a consistent preference for pulling connected strings over interrupted ones after training with a stepwise pulling technique. When exposed to novel string colors, bees continued to exhibit a bias towards pulling the connected string. This suggests that bumblebees engage in featural generalization of the visual display of the string connected to the flower in this task. If the view of the string connected to the flower was restricted during the training phase, the proportion of bumblebees choosing the connected strings significantly decreased. Similarly, when the bumblebees were confronted with coiled connected strings during the testing phase, they failed to identify and reject the interrupted strings. This finding underscores the significance of visual consistency in enabling the bumblebees to perform the task successfully. Our results suggest that bumblebees’ ability to distinguish between continuous strings and interrupted strings relies on a combination of image matching and associative learning, rather than means-end understanding. These insights contribute to a deeper understanding of the cognitive processes employed by bumblebees when tackling complex spatial tasks.