17 Works

Data from: An integrated approach to historical population assessment of the great whales: case of the New Zealand southern right whale

Jennifer A. Jackson, Emma L. Carroll, Tim D. Smith, Alex N. Zerbini, Nathalie J. Patenaude & C. Scott Baker
Accurate estimation of historical abundance provides an essential baseline for judging the recovery of the great whales. This is particularly challenging for whales hunted prior to twentieth century modern whaling, as population-level catch records are often incomplete. Assessments of whale recovery using pre-modern exploitation indices are therefore rare, despite the intensive, global nature of nineteenth century whaling. Right whales (Eubalaena spp.) were particularly exploited: slow swimmers with strong fidelity to sheltered calving bays, the species...

Data from: De novo transcriptome analysis of the common New Zealand stick insect Clitarchus hookeri (Phasmatodea) reveals genes involved in olfaction, digestion and sexual reproduction

Chen Wu, Ross N Crowhurst, Alice B. Dennis, Victoria G. Twort, Shanlin Liu, Richard D. Newcomb, Howard A. Ross & Thomas R. Buckley
Phasmatodea, more commonly known as stick insects, have been poorly studied at the molecular level for several key traits, such as components of the sensory system and regulators of reproduction and development, impeding a deeper understanding of their functional biology. Here, we employ de novo transcriptome analysis to identify genes with primary functions related to female odour reception, digestion, and male sexual traits in the New Zealand common stick insect Clitarchus hookeri (White). The female...

Data from: Bayesian total-evidence dating reveals the recent crown radiation of penguins

Alexandra Gavryushkina, Tracy A. Heath, Daniel T. Ksepka, Tanja Stadler, David Welch & Alexei J. Drummond
The total-evidence approach to divergence time dating uses molecular and morphological data from extant and fossil species to infer phylogenetic relationships, species divergence times, and macroevolutionary parameters in a single coherent framework. Current model-based implementations of this approach lack an appropriate model for the tree describing the diversification and fossilization process and can produce estimates that lead to erroneous conclusions. We address this shortcoming by providing a total-evidence method implemented in a Bayesian framework. This...

Data from: Building strong relationships between conservation genetics and primary industry leads to mutually beneficial genomic advances

Stephanie J. Galla, Thomas R. Buckley, Rob Elshire, Marie L. Hale, Michael Knapp, John McCallum, Roger Moraga, Anna W. Santure, Phillip Wilcox & Tammy E. Steeves
Several reviews in the past decade have heralded the benefits of embracing high-throughput sequencing technologies to inform conservation policy and the management of threatened species, but few have offered practical advice on how to expedite the transition from conservation genetics to conservation genomics. Here, we argue that an effective and efficient way to navigate this transition is to capitalize on emerging synergies between conservation genetics and primary industry (e.g., agriculture, fisheries, forestry and horticulture). Here,...

Data from: Vocalisation repertoire of female bluefin gurnard (Chelidonichthys kumu) in captivity: Sound structure, context and vocal activity

Craig A. Radford, Shahriman Ghazali, John C. Montgomery, Andrew G. Jeffs & Shahriman M. Ghazali
Fish vocalisation is often a major component of underwater soundscapes. Therefore, interpretation of these soundscapes requires an understanding of the vocalisation characteristics of common soniferous fish species. This study of captive female bluefin gurnard, Chelidonichthys kumu, aims to formally characterise their vocalisation sounds and daily pattern of sound production. Four types of sound were produced and characterised, twice as many as previously reported in this species. These sounds fit two aural categories; grunt and growl,...

Data from: Global population divergence and admixture of the brown rat (Rattus norvegicus)

Emily E. Puckett, Jane Park, Matthew Combs, Michael J. Blum, Juliet E. Bryant, Adalgisa Caccone, Federico Costa, Eva E. Deinum, Alexandra Esther, Chelsea G. Himsworth, Peter D. Keightley, Albert Ko, Ake Lundkvist, Lorraine M. McElhinney, Serge Morand, Judith Robins, James Russell, Tanja M. Strand, Olga Suarez, Lisa Yon & Jason Munshi-South
Native to China and Mongolia, the brown rat (Rattus norvegicus) now enjoys a worldwide distribution. While black rats and the house mouse tracked the regional development of human agricultural settlements, brown rats did not appear in Europe until the 1500s, suggesting their range expansion was a response to relatively recent increases in global trade. We inferred the global phylogeography of brown rats using 32 k SNPs, and detected 13 evolutionary clusters within five expansion routes....

Data from: Ecoacoustic indices as proxies for biodiversity on temperate reefs

Sydney A. Harris, Nick T. Shears & Craig A. Radford
Diversity measurement techniques can present logistical and financial obstacles to conservation efforts. Ecoacoustics has recently emerged as a promising solution to these issues, providing a mechanism for measuring diversity using acoustic indices, which have proven to be beneficial in terrestrial habitats. This study investigates the application of acoustic measures as a tool for quick and effective marine diversity monitoring via direct, in situ comparison of ecoacoustics indices with species assemblage diversity measures from temperate rocky...

Data from: Does the house sparrow Passer domesticus represent a global model species for egg rejection behavior?

Thomas Manna, Caren Cooper, Shane Baylis, Matthew D. Shawkey, Geoffrey I. N. Waterhouse, Tomas Grim & Mark E. Hauber
Conspecific brood parasitism (CP) is a facultative breeding tactic whereby females lay their eggs in the nests of conspecifics. In some species, potential host individuals have evolved the ability to identify and reject foreign eggs from their nest. Previous studies suggest that the ubiquitous House Sparrow Passer domesticus in Spain and South Africa employs both CP and parasitic egg rejection, while a population in China does not. Given the species’ invasive range expansions, the House...

Data from: Bayesian phylogenetic estimation of clade ages supports trans-atlantic dispersal of cichlid fishes

Michael Matschiner, Zuzana Musilová, Julia M.I. Barth, Zuzana Starostová, Walter Salzburger, Mike Steel & Remco Bouckaert
Divergence-time estimation based on molecular phylogenies and the fossil record has provided insights into fundamental questions of evolutionary biology. In Bayesian node dating, phylogenies are commonly time calibrated through the specification of calibration densities on nodes representing clades with known fossil occurrences. Unfortunately, the optimal shape of these calibration densities is usually unknown and they are therefore often chosen arbitrarily, which directly impacts the reliability of the resulting age estimates. As possible solutions to this...

Data from: Evolutionarily stable disequilibrium: endless dynamics of evolution in a stationary population

Takeuchi Nobuto, Kunihiko Kaneko, Paulien Hogeweg & Nobuto Takeuchi
Evolution is often conceived as changes in the properties of a population over generations. Does this notion exhaust the possible dynamics of evolution? Life is hierarchically organized, and evolution can operate at multiple levels with conflicting tendencies. Using a minimal model of such conflicting multilevel evolution, we demonstrate the possibility of a novel mode of evolution that challenges the above notion: individuals ceaselessly modify their genetically-inherited phenotype and fitness along their lines of descent, without...

Data from: Airflow in the human nasal passage and sinuses of chronic rhinosinusitis subjects

Haribalan Kumar, Ravi Jain, Richard G. Douglas & Merryn H. Tawhai
Chronic Rhinosinusitis (CRS) is a persistent inflammatory disease of the paranasal sinuses that is characterized by clinical symptoms that include a blocked nasal airway, mucus discharge, facial pain, headaches and anosmia [1, 2]. Functional endoscopic sinus surgery (FESS) is performed on patients who fail to improve following medical therapies such as antibiotics and corticosteroids (both systemic and topical nasal sprays). In sinus surgery, the goals are to open the obstructed sinus openings (ostia), to improve...

Data from: Exploring the interaction of avian frugivory and plant spatial heterogeneity and its effect on seed dispersal kernels using a simulation model

Andrew P. McK. Pegman, George L. W. Perry, Mick N. Clout & Andrew P. McKenzie Pegman
Seed dispersal by avian frugivores is one of the key processes influencing plant spatial patterns, but may fail if there is disruption of plant-frugivore mutualisms, such as decline in abundance of dispersers, fragmentation of habitat, or isolation of individual trees. We used simulation model experiments to examine the interaction between frugivore density and behaviour and the spatial arrangement of fruiting plants and its effect on seed dispersal kernels. We focussed on two New Zealand canopy...

Data from: Experimental feeding regime influences urban bird disease dynamics

Josie A. Galbraith, Margaret C. Stanley, Darryl N. Jones & Jacqueline R. Beggs
Wild bird feeding often results in high densities of birds, potentially facilitating transmission of disease. Wild birds are major reservoirs of many zoonotic diseases, and although a number of avian disease outbreaks have been linked to bird feeders, urban bird-feeding and its role in disease systems remains poorly studied. We examined the impacts of typical supplementary feeding practices on the health status of feeder-visiting birds at experimental feeding stations in an urban area of New...

Data from: Staying close to home? Genetic differentiation of rough-toothed dolphins near oceanic islands in the central Pacific Ocean

G. Renee Albertson, Robin W. Baird, Marc Oremus, M. Michael Poole, Karen K. Martien & C. Scott Baker
Rough-toothed dolphins have a worldwide tropical and subtropical distribution, yet little is known about the population structure and social organization of this typically open-ocean species. Although it has been assumed that pelagic dolphins range widely due to the lack of apparent barriers and unpredictable prey distribution, recent evidence suggests rough-toothed dolphins exhibit fidelity to some oceanic islands. Using the most comprehensively extensive dataset for this species to date, we assess the isolation and interchange of...

Data from: Reducing wildlife damage with cost-effective management programmes

Cheryl R. Krull, Margaret C. Stanley, Bruce R. Burns, David Choquenot & Thomas E. Etherington
Limiting the impact of wildlife damage in a cost effective manner requires an understanding of how control inputs change the occurrence of damage through their effect on animal density. Despite this, there are few studies linking wildlife management (control), with changes in animal abundance and prevailing levels of wildlife damage. We use the impact and management of wild pigs as a case study to demonstrate this linkage. Ground disturbance by wild pigs has become a...

Data from: A new plant virus discovered by immunocapture of double stranded RNA; assessment of a novel approach for viral metagenomics studies

Arnaud G. Blouin, Howard A. Ross, Jody Hobson-Peters, Caitlin A. O’Brien, Ben Warren, Robin MacDiarmid & Caitlin A. O'Brien
Next-generation sequencing technologies enable the rapid identification of viral infection of diseased organisms. However, despite a consistent decrease in sequencing costs, it is difficult to justify their use in large-scale surveys without a virus sequence enrichment technique. As the majority of plant viruses have an RNA genome, a common approach is to extract the double-stranded RNA (dsRNA) replicative form, to enrich the replicating virus genetic material over the host background. The traditional dsRNA extraction is...

Data from: Assessing patterns in introduction pathways of alien species by linking major invasion databases

Wolf-Christian Saul, Helen E. Roy, Olaf Booy, Lucilla Carnevali, Hsuan-Ju Chen, Piero Genovesi, Colin A. Harrower, Philip E. Hulme, Shyama Pagad, Jan Pergl & Jonathan M. Jeschke
1. Preventing the arrival of invasive alien species (IAS) is a major priority in managing biological invasions. However, information on introduction pathways is currently scattered across many databases that often use different categorisations to describe similar pathways. This hampers the identification and prioritisation of pathways in order to meet the main targets of recent environmental policies. 2. Therefore, we integrate pathway information from two major IAS databases, IUCN's Global Invasive Species Database (GISD) and the...

Registration Year

  • 2016

Resource Types

  • Dataset


  • University of Auckland
  • Oregon State University
  • Animal and Plant Health Agency
  • University of Canterbury
  • Swiss Federal Institute of Technology in Zurich
  • City University of New York
  • University of Buenos Aires
  • National University of Malaysia
  • Lincoln University