21 Works

Data from: Diversification across biomes in a continental lizard radiation

Lauren G. Ashman, Jason G. Bragg, Paul Doughty, Mark Norman Hutchinson, Sarah Bank, Nick Matzke, Paul M. Oliver, Craig Moritz, N. J. Matzke & P. Oliver
Ecological opportunity is a powerful driver of evolutionary diversification, and predicts rapid lineage and phenotypic diversification following colonisation of competitor-free habitats. Alternatively, topographic or environmental heterogeneity could be key to generating and sustaining diversity. We explore these hypotheses in a widespread lineage of Australian lizards: the Gehyra variegata group. This clade occurs across two biomes: the Australian monsoonal tropics (AMT), where it overlaps a separate, larger bodied clade of Gehyra and is largely restricted to...

Data from: Phylodynamic model adequacy using posterior predictive simulations

Sebastian Duchene, Remco Bouckaert, David A Duchene, Tanja Stadler & Alexei J Drummond
Rapidly evolving pathogens, such as viruses and bacteria, accumulate genetic change at a similar timescale over which their epidemiological processes occur, such that it is possible to make inferences about their infectious spread using phylogenetic time-trees. For this purpose it is necessary to choose a phylodynamic model. However, the resulting inferences are contingent on whether the model adequately describes key features of the data. Model adequacy methods allow formal rejection of a model if it...

Data from: Taxon cycle predictions supported by model-based inference in Indo-Pacific trap-jaw ants (Hymenoptera: Formicidae: Odontomachus)

Pável Matos-Maraví, Nicholas J. Matzke, Fredrick J. Larabee, Ronald M. Clouse, Ward C. Wheeler, Daniela Magdalena Sorger, Andrew V. Suarez & Milan Janda
Non-equilibrium dynamics and non-neutral processes, such as trait-dependent dispersal, are often missing from quantitative island biogeography models despite their potential explanatory value. One of the most influential non-equilibrium models is the taxon cycle, but it has been difficult to test its validity as a general biogeographical framework. Here, we test predictions of the taxon-cycle model using six expected phylogenetic patterns and a time-calibrated phylogeny of Indo-Pacific Odontomachus (Hymenoptera: Formicidae: Ponerinae), one of the ant genera...

Data from: A novel mechanism of gland formation in zebrafish involving transdifferentiation of renal epithelial cells and live cell extrusion

Richard W. Naylor, Hao-Han G Chang, Sarah Qubisi & Alan J. Davidson
Transdifferentiation is the poorly understood phenomenon whereby a terminally differentiated cell acquires a completely new identity. Here, we describe a rare example of a naturally occurring transdifferentiation in zebrafish in which kidney distal tubule epithelial cells are converted into an endocrine gland known as the Corpuscles of Stannius (CS). We find that this process requires Notch signalling and is associated with the cytoplasmic sequestration of the Hnf1b transcription factor, a master-regulator of renal tubule fate....

Data from: Influences of fire–vegetation feedbacks and post-fire recovery rates on forest landscape vulnerability to altered fire regimes

Alan J. Tepley, Enrique Thomann, Thomas T. Veblen, George L.W. Perry, Andrés Holz, Juan Paritsis, Thomas Kitzberger, Kristina J. Anderson-Teixeira & George L. W. Perry
1. In the context of on-going climatic warming, forest landscapes face increasing risk of conversion to non-forest vegetation through alteration of their fire regimes and their post-fire recovery dynamics. However, this pressure could be amplified or dampened, depending on how fire-driven changes to vegetation feed back to alter the extent or behavior of subsequent fires. 2. Here we develop a mathematical model to formalize understanding of how fire–vegetation feedbacks and the time to forest recovery...

Data from: Incorporating non-equilibrium dynamics into demographic history inferences of a migratory marine species

Emma L. Carroll, Rachael Alderman, John L. Bannister, Martine Bérubé, Peter B. Best, Laura Boren, C. Scott Baker, Rochelle Constantine, Ken Findlay, Robert Harcourt, Louisiane Lemaire, Per J. Palsbøll, Nathalie J. Patenaude, Victoria J. Rowntree, Jon Seger, Debbie Steel, Luciano O. Valenzuela, Mandy Watson & Oscar E. Gaggiotti
Understanding how dispersal and gene flow link geographically separated populations over evolutionary history is challenging, particularly in migratory marine species. In southern right whales (SRWs, Eubalaena australis), patterns of genetic diversity are likely influenced by the glacial climate cycle and recent history of whaling. Here we use a dataset of mitochondrial DNA (mtDNA) sequences (n=1,327) and nuclear markers (17 microsatellite loci, n=222) from major wintering grounds to investigate circumpolar population structure, historical demography, and effective...

Data from: The influence of selection on MHC DQA and DQB haplotypes in the endemic New Zealand Hector’s and Māui dolphins

Dorothea Heimeier, Alana Alexander, Rebecca M. Hamner, Franz Pichler & C Scott Baker
Strong balancing selection on the Major Histocompatibility Complex (MHC) can lead to different patterns in gene frequencies and neutral genomic variation within species. We investigated diversity and geographic structure of MHC genes DQA and DQB, as well as their inferred functional haplotypes, from two regional populations (East and West Coast) of the endangered Hector’s dolphin (Cephalorhynchus hectori hectori) and the critically endangered Māui dolphin (Cephalorhynchus hectori maui) (West Coast, North Island), and contrasted these results...

Data from: Multiple QTL underlie milk phenotypes at the CSF2RB locus

Thomas J. Lopdell, Kathryn Tiplady, Christine Couldrey, Thomas J. J. Johnson, Michael Keehan, Stephen R. Davis, Bevin L. Harris, Richard J. Spelman, Russell G. Snell & Mathew D. Littlejohn
Background: Over many years, artificial selection has substantially improved milk production by cows. However, the genes that underlie milk production quantitative trait loci (QTL) remain relatively poorly characterised. Here, we investigate a previously reported QTL located at the CSF2RB locus on chromosome 5, for several milk production phenotypes, to better understand its underlying genetic and molecular causes. Results: Using a population of 29,350 taurine dairy cows, we conducted association analyses for milk yield and composition...

Data from: Patterns of phenotypic plasticity and local adaptation in the wide elevation range of the alpine plant Arabis alpina

Pierre De Villemereuil, Médéric Mouterde, Oscar E. Gaggiotti & Irène Till-Bottraud
Local adaptation and phenotypic plasticity are two important characteristics of alpine plants to overcome the threats caused by global changes. Among alpine species, Arabis alpina is characterised by an unusually wide altitudinal amplitude, ranging from 800 to 3,100 m of elevation in the French Alps. Two non‐exclusive hypotheses can explain the presence of A. alpina across this broad ecological gradient: adaptive phenotypic plasticity or local adaptation, making this species especially useful to better understand these...

Data from: A high density SNP chip for genotyping great tit (Parus major) populations and its application to studying the genetic architecture of exploration behaviour

Jun-Mo Kim, Anna W. Santure, Henry J. Barton, John L. Quinn, Eleanor F. Cole, Marcel E. Visser, Ben C. Sheldon, Martien A.M. Groenen, Kees Van Oers, Jon Slate & J.-M. Kim
High density SNP microarrays (‘SNP chips’) are a rapid, accurate and efficient method for genotyping several hundred thousand polymorphisms in large numbers of individuals. While SNP chips are routinely used in human genetics and in animal and plant breeding, they are less widely used in evolutionary and ecological research. In this paper we describe the development and application of a high density Affymetrix Axiom chip with around 500 000 SNPs, designed to perform genomics studies...

Data from: Exaggerated male legs increase mating success by reducing disturbance to females in the cave wētā Pachyrhamma waitomoensis

Murray Fea & Gregory I. Holwell
Mate guarding is a widespread behaviour resulting from sperm competition and conflict over optimal remating rates. It is a key way in which males exhibit differential mating investment, and represents a complex interplay between mating effort, intrasexual competition, opportunity costs and sexual conflict. Nevertheless, although there are many examples of exaggerated male structures used to fight rivals, few animals have developed specialised male morphological adaptations for directly sheltering females from disturbance by non-rivals. Here we...

Data from: Model selection and parameter inference in phylogenetics using nested sampling

Patricio Maturana Russel, Brendon J. Brewer, Steffen Klaere & Remco R. Bouckaert
Bayesian inference methods rely on numerical algorithms for both model selection and parameter inference. In general, these algorithms require a high computational effort to yield reliable estimates. One of the major challenges in phylogenetics is the estimation of the marginal likelihood. This quantity is commonly used for comparing different evolutionary models, but its calculation, even for simple models, incurs high computational cost. Another interesting challenge relates to the estimation of the posterior distribution. Often, long...

Data from: An Ishihara-style test of animal colour vision

Karen L. Cheney, Naomi.F. Green, Alexander P. Vibert, Misha Vorobyev, Justin Marshall, Daniel C. Osorio & John A. Endler
Colour vision mediates ecologically relevant tasks for many animals, such as mate choice, foraging and predator avoidance. However, our understanding of animal colour perception is largely derived from human psychophysics, even though animal visual systems differ from our own. Behavioural tests of non-human animals are required to understand how colour signals are perceived by them. Here we introduce a novel test of colour vision in animals inspired by the Ishihara colour charts, which are widely...

Data from: Equivalent effect of UV coloration and vibratory signal on mating success in a jumping spider

Hua Zeng, Samantha S.E. Wee, Christina J. Painting, Shichang Zhang, Daiqin Li & Samantha S E Wee
Ultraviolet (UV; wavelengths: 280–400 nm) colouration has been shown to be an important visual signal but has not been studied in conjunction with other signals such as vibratory signals previously. Here we investigated multimodal signal function in the visual and substrate-borne vibratory modalities of the UV-ornamented jumping spider Cosmophasis umbratica, in which the importance of UV colouration in courtship displays has been demonstrated. We first described vibratory signals produced by courting males. We found that...

Data from: Sexual cannibalism and population viability

Adam M. Fisher, Stephen J. Cornell, Greg I. Holwell, Tom A.R. Price, Tom A. R. Price & Gregory I. Holwell
Some behaviours that typically increase fitness at the individual level, may reduce population persistence, particularly in the face of environmental changes. Sexual cannibalism is an extreme mating behaviour which typically involves a male being devoured by the female immediately before, during or after copulation, and is widespread amongst predatory invertebrates. Although the individual-level effects of sexual cannibalism are reasonably well understood, very little is known about the population-level effects. We constructed both a mathematical model...

Data from: Inter-continental karyotype-environment parallelism supports a role for a chromosomal inversion in local adaptation in a seaweed fly

Claire Mérot, Emma Berdan, Charles Babin, Eric Normandeau, Maren Wellenreuther, Louis Bernatchez & Emma L. Berdan
Large chromosomal rearrangements are thought to facilitate adaptation to heterogeneous environments by limiting genomic recombination. Indeed, inversions have been implicated in adaptation along environmental clines and in ecotype specialisation. Here, we combine classical ecological studies and population genetics to investigate an inversion polymorphism previously documented in Europe among natural populations of the seaweed fly Coelopa frigida along a latitudinal cline in North America. We test if the inversion is present in North America and polymorphic,...

Data from: Spatio-temporal and demographic variation in the diet of New Zealand lesser short-tailed bats (Mystacina tuberculata)

Zenon J. Czenze, J. Leon Tucker, Elizabeth L. Clare, Joanne E. Littlefair, David Hemprich-Bennet, Hernani F.M. Oliveira, R. Mark Brigham, Anthony J.R. Hickey & Stuart Parsons
Variation in the diet of generalist insectivores can be affected by site-specific traits including weather, habitat, and season, as well as demographic traits like reproductive status and age. We used molecular methods to compare diets of three distinct New Zealand populations of lesser short-tailed bats, Mystacina tuberculata. Summer diets were compared between a southern cold-temperate (Eglinton) and a northern population (Puroera). Winter diets were compared between Pureora and a subtropical offshore island population (Hauturu). This...

Data from: Exotic flies maintain pollination services as native pollinators decline with agricultural expansion

Jamie R. Stavert, David E. Pattemore, Ignasi Bartomeus, Anne C. Gaskett & Jacqueline R. Beggs
1.Globally, conversion of natural habitat to agricultural land is a primary driver of declines in critical ecosystem services, including pollination. However, exotic species are often well-adapted to human-modified environments and could compensate for ecosystem services that are lost when native species decline. 2.We measured pollination services (pollen delivery to stigma) provided by wild insects to a mass flowering crop, pak choi Brassica rapa at 12 sites across a gradient of increasing agricultural land use (agricultural...

Data from: Local adaptation reduces the metabolic cost of environmental warming

Emma R. Moffett, David C. Fryxell, Eric P. Palkovacs, Michael T. Kinnison & Kevin S. Simon
Metabolism shapes the ecosystem role of organisms by dictating their energy demand and nutrient recycling potential. Metabolic theory (MTE) predicts consumer metabolic and recycling rates will rise in a warming world, especially if body size declines, but it ignores potential for adaptation. We measured metabolic and nutrient excretion rates of individuals from populations of a globally invasive fish that recently colonized a wide temperature range (19-37°C) on two continents. Fish body size declined across our...

Data from: Floral community predicts pollinators' color preference: implications for Batesian floral mimicry

Michael R. Whitehead, Anne C. Gaskett, Steve D. Johnson & Steven D Johnson
Animals that rely on nectar are expected to display floral trait preferences correlating to the signals of nectar source flowers. Batesian mimicry evolves to exploit these pre-existing signal-receiver relationships, attracting pollinators through an adaptive resemblance to specific co-occurring rewarding species. The nectar-feeding long-proboscid flies of South Africa are pollinators for several deceptive orchid species that are putatively Batesian mimics. We tested whether flies’ measured color preference varied among communities providing different nectar-source diets, which would...

Data from: Can threatened species adapt in restored habitat? No expected evolutionary response in lay date for the New Zealand hihi

Pierre De Villemereuil, Alexis Rutschmann, John G. Ewen, Anna W. Santure, Patricia Brekke & Pierre Villemereuil
Many bird species have been observed shifting their laying date to earlier in the year in response to climate change. However the vast majority of these studies were performed on non-threatened species, less impacted by reduced genetic diversity (which is expected to limit evolutionary response) as a consequence of genetic bottlenecks, drift and population isolation. Here we study the relationship between lay date and fitness, as well as its genetic basis, to understand the evolutionary...

Registration Year

  • 2018

Resource Types

  • Dataset


  • University of Auckland
  • Oregon State University
  • Australian National University
  • University of Melbourne
  • University of Gothenburg
  • University of St Andrews
  • University of Kansas
  • Swiss Institute of Bioinformatics
  • Newport (United States)
  • University of Sussex