50 Works

Evolutionary history of Neotropical savannas geographically concentrates species, phylogenetic and functional diversity of lizards

Jessica Fenker, Fabricius M. C. B. Domingos, Leonardo G. Tedeschi, Dan F. Rosauer, Fernanda P. Werneck, Guarino R. Colli, Roger M. D. Ledo, Emanuel M. Fonseca, Adrian A. Garda, Derek Tucker, , Maria F. Breitman, Flavia Soares, Lilian G. Giugliano & Craig Moritz
Supporting information (scripts) to compute diversity and endemism indices copied and available by Dan Rosauer (https ://github.com/DanRosauer/phylospatial). Aim: Understanding where and why species diversity is geographically concentrated remains a challenge in biogeography and macroevolution. This is true for the Cerrado, the most biodiverse tropical savanna in the world, which has experienced profound biodiversity loss. Previous studies have focused on a single metric (species composition), neglecting the fact that ‘species’ within the biome are often composed...

Phylogenomics, biogeography and taxonomic revision of New Guinean pythons (Pythonidae, Leiopython) harvested for international trade

Damien Esquerre, Daniel J. D. Natusch, Jessica A. Lyons, Amir Hamidy, Alan R. Lemmon, Emily M. Lemmon, Awal Riyanto, J. Scott Keogh & Stephen Donnellan
The large and enigmatic New Guinean pythons in the genus Leiopython are harvested from the wild to supply the international trade in pets. Six species are currently recognized (albertisii, biakensis, fredparkeri, huonensis, meridionalis, montanus) but the taxonomy of this group has been controversial. We combined analysis of 421 nuclear loci and complete mitochondrial genomes with morphological data to construct a detailed phylogeny of this group, understand their biogeographic patterns and establish the systematic diversity of...

Data from: Congruence and conflict in the higher-level phylogenetics of squamate reptiles: an expanded phylogenomic perspective

Sonal Singhal, Timothy Colston, Maggie Grundler, Stephen Smith, Gabriel Costa, Guarino Colli, Craig Moritz, Alexander Pyron & Daniel Rabosky
Genome-scale data have the potential to clarify phylogenetic relationships across the tree of life, but have also revealed extensive gene tree conflict. This seeming paradox, whereby larger datasets both increase statistical confidence and uncover significant discordance, suggests that understanding sources of conflict is important for accurate reconstruction of evolutionary history. We explore this paradox in squamate reptiles, the vertebrate clade comprising lizards, snakes, and amphisbaenians. We collected an average of 5103 loci for 91 species...

Data for Analysis of Keystone Predation - trait based or driven by extrinsic processes?

Bruce Menge, Melissa Foley, Matthew Robart, Erin Richmond, Mae Noble & Francis Chan
Keystone predation can be a determinant of community structure, including species diversity, but factors underlying “keystoneness” have been minimally explored. Using the system in which the original keystone, the sea star Pisaster ochraceus, was discovered, we focused on two potential (but overlapping) determinants of keystoneness: intrinsic traits or state variables of the species (e.g., size, density), and extrinsic environmental parameters (e.g., prey productivity) that may provide conditions favorable for keystone predator evolution. Using a comparative-experimental...

Supplementary data for: Primate phylogenomics uncovers multiple rapid radiations and ancient interspecific introgression

Dan Vanderpool, Bin Quang Minh, Robert Lanfear, Daniel Hughes, Shwetha Murali, R. Alan Harris, Muthuswamy Raveendran, Donna M. Muzny, Richard A. Gibbs, Kim C. Worley, Jeffrey Rogers, Matthew W. Hahn, Mark S. Hibbins & Robert J. Williamson
Our understanding of the evolutionary history of primates is undergoing continual revision due to ongoing genome sequencing efforts. Bolstered by growing fossil evidence, these data have led to increased acceptance of once controversial hypotheses regarding phylogenetic relationships, hybridization and introgression, and the biogeographical history of primate groups. Among these findings is a pattern of recent introgression between species within all major primate groups examined to date, though little is known about introgression deeper in time....

Linking behavioural thermoregulation, boldness and individual state in male Carpetan rock lizards

Gergely Horváth, Octavio Jiménez-Robles, José Martín, Pilar López, Ignacio De La Riva & Gábor Herczeg
Mechanisms affecting consistent inter-individual behavioural variation (i.e. animal personality) are of wide scientific interest. In poikilotherms, ambient temperature is one of the most important environmental factors with a direct link to a variety of fitness-related traits. Recent empirical evidence suggests that individual differences in boldness are linked to behavioural thermoregulation strategy in heliothermic species, as individuals are regularly exposed to predators during basking. Here, we tested for links between behavioural thermoregulation strategy, boldness and individual...

Lateglacial and Holocene pollen and charcoal records for truwana/Cape Barren Island, Bass Strait, southeast Australia.

Matthew Adeleye, Simon Haberle, Stephen Harris & Felicitas Hopf
We reconstruct long-term vegetation development in a temperate Australian oceanic setting using wetland sediments, pollen and charcoal records from truwana/Cape Barren Island in Bass Strait to reconstruct vegetation and fire history. Magnetic susceptibility and organic content were also derived for two of the four sites considered as proxies for local sedimentary changes. Result shows that the lateglacial landscape (14,000–13000 cal yr BP) was characterized by open grassy Eucalyptus woodland in Bass Strait, and Eucalyptus woodland...

Does breeding season variation affect evolution of a sexual signaling trait in a tropical lizard clade?

Levi Gray, Anthony Barley, David Hillis, Carlos Pavón-Vázquez, Steven Poe & Brittney White
Sexually selected traits can be expected to increase in importance when the period of sexual behavior is constrained, such as in seasonally restricted breeders. Anolis lizard male dewlaps are classic examples of multifaceted signaling traits, with demonstrated intraspecific reproductive function reflected in courtship behavior. Fitch and Hillis found a correlation between dewlap size and seasonality in mainland Anolis using traditional statistical methods. Here, we present two tests of the Fitch-Hillis Hypothesis using new phylogenetic and...

Data from: No link between nymph and adult colouration in shield bugs: weak selection by predators

Iliana Medina, Regina Vega-Trejo, Thomas Wallenius, Damien Esquerre, Constanza Leon, Daniela Perez & Megan Head
Many organisms use different anti-predator strategies throughout their life, but little is known about the reasons or implications of such changes. For years it has been suggested that selection by predators should favour uniformity in local warning signals. If this is the case, we would expect high resemblance in colour across life stages in aposematic animals where young and adults share similar morphology and habitat. In this study we used shield bugs (Hemiptera: Pentatomoidea) to...

Safe, Risk-Free, Standardised Food for All, Is That What We Will Eat Tomorrow?

Penny Wilson

Metasomatism in the upper-most subcontinental mantle in the presence of Ti-rich hydrous carbonated silicate melt

Naina Goswami

Assessing confidence in root placement on phylogenies: an empirical study using non-reversible models for Mammals

Suha Naser-Khdour, Bui Quang Minh & Robert Lanfear
Using time-reversible Markov models is a very common practice in phylogenetic analysis, because although we expect many of their assumptions to be violated by empirical data, they provide high computational efficiency. However, these models lack the ability to infer the root placement of the estimated phylogeny. In order to compensate for the inability of these models to root the tree, many researchers use external information such as using outgroup taxa or additional assumptions such as...

Overlap in the wing shape of migratory, nomadic and sedentary grass parrots

Dejan Stojanovic, Teresa Neeman & Robert Heinsohn
Bird wing shape is highly correlated with mobility, and vagile species have more pointed wing tips than sedentary ones. Most studies of bird wing shape are biased to the northern hemisphere, and consider only two migratory syndromes (north-south migrants or sedentary species). There are major gaps in knowledge about the wing shapes of different taxa with other movement strategies (e.g. nomads) in the southern hemisphere. Parrots are a prominent southern hemisphere bird order with complex...

Limited mass-independent individual variation in resting metabolic rate in a wild population of snow voles (Chionomys nivalis)

Andres Hagmayer, Glauco Camenisch, Cindy Canale, Erik Postma & Timothée Bonnet
Resting metabolic rate (RMR) is a potentially important axis of physiological adaptation to the thermal environment. However, our understanding of the causes and consequences of individual variation in RMR in the wild is hampered by a lack of data, as well as analytical challenges. RMR measurements in the wild are generally characterized by large measurement errors and a strong dependency on mass. The latter is problematic when assessing the ability of RMR to evolve independently...

An experimental test to separate the effects of male age and mating history on female mate choice

Upama Aich, Timothee Bonnet, Rebecca Bathgate & Michael Jennions
Should females prefer older males as mates? Male survival to old age might indicate the presence of fitness-enhancing genes that increase offspring fitness. However, many correlational studies show that mating with older males can lower female fecundity, and even reduce offspring fitness due to epigenetic or germline mutation effects. One problem in quantifying female choice based on male age is that age is usually confounded with mating history. This begs a question: Do females choose...

Complex effects of helper relatedness on female extra-pair reproduction in a cooperative breeder

Gabriela Karolina Hajduk, Andrew Cockburn, Helen Osmond & Loeske Kruuk
In cooperatively-breeding species, the presence of male helpers in a group often reduces the breeding female’s fidelity to her social partner, possibly because there is more than one potential sire in the group. Using a long-term study of cooperatively-breeding superb fairy-wrens (Malurus cyaneus) and records of paternity in 1936 broods, we show that the effect of helpers on rates of extra-pair paternity varied according to the helpers’ relatedness to the breeding female. The presence of...

Modifying plant photosynthesis and growth via simultaneous chloroplast transformation of Rubisco large and small subunits

Elena Martin-Avila, Yi-Leen Lim, Rosemary Birch, Lynnette Dirk, Sally Buck, Timothy Rhodes, Robert Sharwood, Maxim Kapralov & Spencer Whitney
Engineering improved Rubisco poses a crucial strategy for enhancing photosynthesis but is challenged by the alternate locations of the plastome rbcL gene and nuclear RbcS genes. Here we develop a RNAi-RbcS Nicotiana tabacum (tobacco) master-line, tobRrΔS, amenable to rbcL-rbcS co-engineering by chloroplast transformation. Four tobacco genotypes coding alternative rbcS genes and adjoining 5ˈ-intergenic sequences revealed Rubisco production was highest in the lines incorporating a rbcS gene whose codon use and 5ˈUTR matched rbcL. These lines...

Under the karst: detecting hidden subterranean assemblages using eDNA metabarcoding in the caves of Christmas Island, Australia

Katrina West, Zoe Richards, Euan Harvey, Robert Susac, Alicia Grealy & Michael Bunce
Subterranean ecosystems are understudied and challenging to conventionally survey given the inaccessibility of underground voids and networks. In this study, we conducted a eukaryotic environmental (eDNA) metabarcoding survey across the karst landscape of Christmas Island, (Indian Ocean, Australia) to evaluate the utility of this non-invasive technique to detect subterranean aquatic ‘stygofauna’ assemblages. Three metabarcoding assays targeting the mitochondrial 16S rRNA and nuclear 18S genes were applied to 159 water and sediment samples collected from 23...

The National Mission for Future Crop and Community Resilience

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Data from: Ageing and senescence across reproductive traits and survival in superb fairy-wrens (Malurus cyaneus)

Eve Cooper
Why do senescence rates of fitness-related traits often vary dramatically? By considering the full ageing trajectories of multiple traits we can better understand how a species’ life-history shapes the evolution of senescence within a population. Here, we examined age-related changes in sex-specific survival, reproduction, and several components of reproduction using a long-term study of a cooperatively-breeding songbird, the superb fairy-wren (Malurus cyaneus). We compared ageing patterns between traits by estimating standardized rates of maturation, the...

Data from: Small tropical forest trees have a greater capacity to adjust carbon metabolism to long‐term drought than large canopy trees

David Bartholomew, Paulo Bittencourt, Antonio Da Costa, Lindsay Banin, Patrícia Costa, Sarah Coughlin, Tomas Domingues, Leandro Ferreira, André Giles, Maurizio Mencuccini, Lina Mercado, Raquel Miatto, Alex Oliveira, Rafael Oliveira, Patrick Meir & Lucy Rowland
The response of small understory trees to long‐term drought is vital in determining the future composition, carbon stocks and dynamics of tropical forests. Long‐term drought is, however, also likely to expose understory trees to increased light availability driven by drought‐induced mortality. Relatively little is known about the potential for understory trees to adjust their physiology to both decreasing water and increasing light availability. We analysed data on maximum photosynthetic capacity (J max, V cmax), leaf...

Data from: Phylogenomics, biogeography and morphometrics reveal rapid phenotypic evolution in pythons after crossing Wallace’s line

Damien Esquerre, Stephen Donnellan, Ian Brennan, Alan Lemmon, Emily Lemmon, Hussam Zaher, Felipe Grazziotin & Scott Keogh
Ecological opportunities can be provided to organisms that cross stringent biogeographic barriers towards environments with new ecological niches. Wallace’s and Lyddeker’s lines are arguably the most famous biogeographic barriers, separating the Asian and Australo-Papuan biotas. One of the most ecomorphologically diverse groups of reptiles, the pythons, is distributed across these lines, and are remarkably more diverse in phenotype and ecology east of Wallace’s line in Australo-Papua. We used an anchored hybrid enrichment approach, with near...

Data from: Amelioration of ocean acidification and warming effects through physiological buffering of a macroalgae

Steve Doo, Aero Leplastrier, Alexia Graba-Landry, Januar Harianto, Ross Coleman & Maria Byrne
Concurrent anthropogenic global climate change and ocean acidification is expected to have a negative impact on calcifying marine organisms. While knowledge of biological responses of organisms to oceanic stress has emerged from single species experiments, these do not capture ecologically relevant scenarios where the potential for multi-organism physiological interactions is assessed. Marine algae provide an interesting case study, as their photosynthetic activity elevates pH in the surrounding microenvironment, potentially buffering more acidic conditions for associated...

Genomic evidence of introgression and adaptation in a model subtropical tree species, Eucalyptus grandis

Marja Mostert-O'Neill, Sharon Reynolds, Juan Acosta, David Lee, Justin Borevitz & Alexander Myburg
The genetic consequences of adaptation to changing environments can be deciphered using landscape genomics, which may help predict species’ responses to global climate change. Towards this, we used genome-wide SNP marker analysis to determine population structure and patterns of genetic differentiation in terms of neutral and adaptive genetic variation in the natural range of Eucalyptus grandis, a widely cultivated subtropical and temperate species, serving as genomic reference for the genus. We analysed introgression patterns at...

Using different body size measures can lead to different conclusions about the effects of climate change

Liam Bailey, Loeske Kruuk, Richard Allen, Mark Clayton, John Stein & Janet Gardner
Aim: Declining animal body size has been proposed as a general response to increasing global temperatures that should be observed across a broad biogeographical scale. However, published studies have shown large variation in both the magnitude and direction of body size trends. We aim to investigate how the way body size is measured (body mass, structural size, body condition) may contribute to differences in body size trends between studies. Location: Semi-arid Australia. Taxon: White-plumed honeyeater...

Registration Year

  • 2020
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Resource Types

  • Dataset
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Affiliations

  • Australian National University
    50
  • Commonwealth Scientific and Industrial Research Organisation
    3
  • University of Exeter
    3
  • University of Adelaide
    2
  • Museu Paraense Emílio Goeldi
    2
  • University of Edinburgh
    2
  • Macquarie University
    2
  • University of Kentucky
    2
  • University of Sao Paulo
    2
  • University of Canberra
    2