14 Works

Data from: GHOST: Recovering Historical Signal from Heterotachously-evolved Sequence Alignments

Stephen M. Crotty, Bui Quang Minh, Nigel G. Bean, Barbara R. Holland, Jonathan Tuke, Lars S. Jermiin & Arndt Von Haeseler
Molecular sequence data that have evolved under the influence of heterotachous evolutionary processes are known to mislead phylogenetic inference. We introduce the General Heterogeneous evolution On a Single Topology (GHOST) model of sequence evolution, implemented under a maximum-likelihood framework in the phylogenetic program IQ-TREE (http://www.iqtree.org). Simulations show that using the GHOST model, IQ-TREE can accurately recover the tree topology, branch lengths, and substitution model parameters from heterotachously evolved sequences. We investigate the performance of the...

Data from: Low food availability during gestation enhances offspring post-natal growth, but reduces survival, in a viviparous lizard

Thomas Botterill-James, Kirke L. Munch, Ben Halliwell, David G. Chapple, Michael G. Gardner, Erik Wapstra & Geoffrey M. While
The environment experienced by a mother can have profound effects on the fitness of her offspring (i.e., maternal effects). Maternal effects can be adaptive when the developmental environments experienced by offspring promote phenotypes that provide fitness benefits either via matching offspring phenotype to the post-developmental environment (also known as anticipatory maternal effects) or through direct effects on offspring growth and survival. We tested these hypotheses in a viviparous lizard using a factorial experimental design in...

Urbanization impacts apex predator gene flow but not genetic diversity across an urban-rural divide

Daryl R Trumbo, Patricia E Salerno, Kenneth Logan, Mat Alldredge, Roderick B Gagne, Christopher P Kozakiewicz, Simona Kraberger, Nick Fountain-Jones, Meggan E Craft, Scott Carver, Holly B Ernest, Kevin Crooks, Sue VandeWoude & W. Chris Funk
Apex predators are important indicators of intact natural ecosystems. They are also sensitive to urbanization because they require broad home ranges and extensive contiguous habitat to support their prey base. Pumas (Puma concolor) can persist near human developed areas, but urbanization may be detrimental to their movement ecology, population structure, and genetic diversity. To investigate potential effects of urbanization in population connectivity of pumas, we performed a landscape genomics study of 130 pumas on the...

Data from: Temporal partitioning of activity: rising and falling top-predator abundance triggers community-wide shifts in diel activity

Calum Cunningham, Vincent Scoleri, Christopher Johnson, Leon Barmuta & Menna Jones
Top predators cause avoidance behaviours in competitors and prey, which can lead to niche partitioning and facilitate coexistence. We investigate changes in partitioning of the temporal niche in a mammalian community in response to both the rapid decline in abundance of a top predator and its rapid increase, produced by two concurrent natural experiments: 1) the severe decline of the Tasmanian devil due to a transmissible cancer, and 2) the introduction of Tasmanian devils to...

Data from: Tracing the rise of malignant cell lines: distribution, epidemiology and evolutionary interactions of two transmissible cancers in Tasmanian devils

Samantha James, Geordie Jennings, Young Mi Kwon, Maximilian Stammnitz, Alexandra Fraik, Andrew Storfer, Sebastien Comte, David Pemberton, Samantha Fox, Bill Brown, Ruth Pye, Gregory Woods, Bruce Lyons, Paul Hohenlohe, Hamish McCallum, Hannah V. Siddle, Frederic Thomas, Beata Ujvari, Elizabeth P. Murchison, Menna Jones & Rodrigo Hamede
Emerging infectious diseases are rising globally and understanding host-pathogen interactions during the initial stages of disease emergence is essential for assessing potential evolutionary dynamics and designing novel management strategies. Tasmanian devils (Sarcophilus harrisii) are endangered due to a transmissible cancer – devil facial tumour disease (DFTD) – that since its emergence in the 1990’s, has affected most populations throughout Tasmania. Recent studies suggest that devils are adapting to the DFTD epidemic and that disease-induced extinction...

Data from: Feline immunodeficiency virus in puma: estimation of force of infection reveals insights into transmission

Jennifer Reynolds, Scott Carver, Mark Cunningham, Ken Logan, Winston Vickers, Kevin Crooks, Sue VandeWoude & Meggan Craft
Determining parameters that govern pathogen transmission (such as the force of infection, FOI), and pathogen impacts on morbidity and mortality, is exceptionally challenging for wildlife. Vital parameters can vary, for example across host populations, between sexes and within an individual's lifetime. Feline immunodeficiency virus (FIV) is a lentivirus affecting domestic and wild cat species, forming species-specific viral--host associations. FIV infection is common in populations of puma (Puma concolor), yet uncertainty remains over transmission parameters and...

Data from: Rate of inter-sex interactions affects injury likelihood in Tasmanian devil contact networks

David G. Hamilton, Menna E. Jones, Elissa Z. Cameron, Hamish McCallum, Andrew Storfer, Paul A. Hohenlohe & Rodrigo K. Hamede
Identifying the types of contacts that result in disease transmission is important for accurately modelling and predicting transmission dynamics and disease spread in wild populations. We investigated contacts within a population of adult Tasmanian devils (Sarcophilus harrisii) over a six-month period and tested whether individual-level contact patterns were correlated with accumulation of bite wounds. Bite wounds are important in the spread of devil facial tumour disease (DFTD), a clonal cancer cell line transmitted through direct...

Data from: Climate impacts on the ocean are making the Sustainable Development Goals a moving target traveling away from us

Gerald G. Singh, Nathalie Hilmi, Joey R. Bernhardt, Andres M. Cisneros Montemayor, Madeline Cashion, Yoshitaka Ota, Sevil Acar, Jason M. Brown, Richard Cottrell, Salpie Djoundourian, Pedro C. Gonzalez-Espinosa, Vicky Lam, Nadine Marshall, Barbara Neumann, Nicolas Pascal, Gabriel Reygondeau, Joacim Rocklov, Alain Safa, Laura R. Virto & William Cheung
1. Climate change is impacting marine ecosystems and their goods and services in diverse ways, which can directly hinder our ability to achieve the Sustainable Development Goals, set out under the 2030 Agenda for Sustainable Development. 2. Through expert elicitation and a literature review, we find that most climate change effects have a wide variety of negative consequences across marine ecosystem services, though most studies have highlighted impacts from warming and consequences to marine species....

Data from: Isolation, marine transgression, and translocation of the bare-nosed wombat (Vombatus ursinus)

Alynn M. Martin, Scott Carver, Kirstin Proft, Tamieka A. Fraser, Adam Polkinghorne, Sam Banks & Christopher P. Burridge
Island populations can represent genetically distinct and evolutionarily important lineages relative to mainland conspecifics. However, phenotypic divergence of island populations does not necessarily reflect genetic divergence, particularly for lineages inhabiting islands periodically connected during Pleistocene low sea stands. Marine barriers may also not be solely responsible for any divergence that is observed. Here, we investigated genetic divergence among and within the three phenotypically-distinct subspecies of bare-nosed wombats (Vombatus ursinus) in southeast Australia that are presently—but...

Data from: Maternal effects obscure condition-dependent sex allocation in changing environments

Amy Edwards, Elissa Cameron, Erik Wapstra & Joanne McEvoy
Climate change increases environmental fluctuations which thereby impact population demography. Species with temperature-dependent sex determination may experience more extreme sex ratio skews, but this has not been considered in species with chromosomally-determined sex. However, anticipatory maternal effects cause lifelong physiological changes impacting sex ratios. Here we show, in mice, that more sons were born to mothers in good condition when their breeding environment matched their gestational environment, consistent with theoretical predictions, but mothers in mismatched...

Data from: Biomass consumption by surface fires across Earth's most fire prone continent

Brett P. Murphy, Lynda D. Prior, Mark A. Cochrane, Grant J. Williamson & David M. J. S. Bowman
Landscape fire is a key but poorly understood component of the global carbon cycle. Predicting biomass consumption by fire at large spatial scales is essential to understanding carbon dynamics and hence how fire management can reduce greenhouse gas emissions and increase ecosystem carbon storage. An Australia‐wide field‐based survey (at 113 locations) across large‐scale macroecological gradients (climate, productivity and fire regimes) enabled estimation of how biomass combustion by surface fire directly affects continental‐scale carbon budgets. In...

Data from: Accounting for kin sampling reveals genetic connectivity in Tasmanian and New Zealand school sharks, Galeorhinus galeus

Floriaan Devloo-Delva, Gregory E. Maes, Sebastián I. Hernández, Jaime D. Mcallister, Rasanthi M. Gunasekera, Peter M. Grewe, Robin B. Thomson & Pierre Feutry
Fishing represents a major problem for conservation of chondrichthyans, with a quarter of all species being overexploited. School sharks, Galeorhinus galeus, are targeted by commercial fisheries in Australia and New Zealand. The Australian stock has been depleted to below 20% of its virgin biomass, and the species is recorded as Conservation Dependent within Australia. Individuals are known to move between both countries, but it is disputed whether the stocks are reproductively linked. Accurate and unbiased...

Data from: How accurately do behavioural observations predict reproductive success in free-ranging lizards?

Mats Olsson, Tonia S. Schwartz, Erik Wapstra & Richard Shine
Behavioural ecologists often use data on patterns of male-female association to infer reproductive success of free-ranging animals. For example, a male seen with several females during the mating season is predicted to father more offspring than a male not seen with any females. We explored the putative correlation between this behaviour and actual paternity (as revealed by microsatellite data) from a long-term study on sand lizards (Lacerta agilis), including behavioural observations of 574 adult males...

Urbanization reduces genetic connectivity in bobcats (Lynx rufus) at both intra- and inter-population spatial scales

Christopher P Kozakiewicz, Christopher Burridge, W. Chris Funk, Patricia E Salerno, Daryl R Trumbo, Roderick B Gagne, Erin E Boydston, Robert N Fisher, Lisa M Lyren, Megan K Jennings, Seth P D Riley, Laurel E K Serieys, Sue VandeWoude, Kevin R Crooks & Scott Carver
Urbanization is a major factor driving habitat fragmentation and connectivity loss in wildlife. However, the impacts of urbanization on connectivity can vary among species and even populations due to differences in local landscape characteristics, and our ability to detect these relationships may depend on the spatial scale at which they are measured. Bobcats (Lynx rufus) are relatively sensitive to urbanization and the status of bobcat populations is an important indicator of connectivity in urban coastal...

Registration Year

  • 2019

Resource Types

  • Dataset


  • University of Tasmania
  • Colorado State University
  • University of Minnesota
  • Griffith University
  • Colorado Parks and Wildlife
  • University of Idaho
  • Charles Darwin University
  • James Cook University
  • Washington State University
  • University of Adelaide