123 Works

Data from: Marine environmental DNA biomonitoring reveals seasonal patterns in biodiversity and identifies ecosystem responses to anomalous climatic events

Tina E. Berry, Benjamin J. Saunders, Megan L. Coghlan, Michael Stat, Simon Jarman, Anthony J. Richardson, Claire H. Davies, Oliver Berry, Euan S. Harvey & Michael Bunce
Marine ecosystems are changing rapidly as the oceans warm and become more acidic. The physical factors and the changes to ocean chemistry that they drive can all be measured with great precision. Changes in the biological composition of communities in different ocean regions are far more challenging to measure because most biological monitoring methods focus on a limited taxonomic or size range. Environmental DNA (eDNA) analysis has the potential to solve this problem in biological...

Data from: New determination of prey and parasite species for Northern Indian Ocean blue whales

Asha De Vos, Cassandra E. Faux, James Marthick, Joanne Dickinson, Simon Jarman & Simon N. Jarman
Blue whales are little studied, face significant anthropogenic threats and within the Northern Indian Ocean, have a restricted range, making them an archetype for conservation needs of megafauna around the world. We studied feeding behaviour of blue whales using dietary DNA metabarcoding of faecal samples. While globally blue whale populations feed predominantly on Euphausiidae, 87 % of prey DNA amplicons extracted from faecal samples from this population were sergestid shrimp, demonstrating that blue whales can...

Data from: A new actinopterygian from the Late Devonian Gogo Formation, Western Australia

Brian Choo, Jing Lu, Sam Giles, Kate Trinajstic & John A. Long
The study of early actinopterygians (ray-finned fishes) from the Devonian has been hampered by imperfect preservation in the majority of taxa. The Late Devonian (early Frasnian) Gogo Formation of north-western Western Australia is notable in producing complete fossil actinopterygians with exceptional three-dimensional preservation of both the dermal and endoskeletal anatomy. Four taxa have been described and have proved invaluable in understanding the anatomy of early representatives of this clade. Here, we present a fifth Gogo...

Data from: Ancient DNA microsatellite analyses of the extinct New Zealand giant moa (Dinornis robustus) identify relatives within a single fossil site

Morten E. Allentoft, Rasmus Heller, Richard N. Holdaway & Michael Bunce
By analysing ancient DNA (aDNA) from 74 14C-dated individuals of the extinct South Island giant moa (Dinornis robustus) of New Zealand, we identified four dyads of closely related adult females. Although our total sample included bones from four fossil deposits located within a 10 km radius, these eight individuals had all been excavated from the same locality. Indications of kinship were based on high pairwise genetic relatedness (rXY) in six microsatellite markers genotyped from aDNA,...

Data from: Atypical residency of short-beaked common dolphins (Delphinus delphis) to a shallow, urbanized embayment in south-eastern Australia

Suzanne Mason, Chandra Salgado Kent, David Donnelly, Jeffrey Weir & Kerstin Bilgmann
Short-beaked common dolphins (Delphinus delphis) are typically considered highly mobile, offshore delphinids. This study assessed the residency of a small community of short-beaked common dolphins in the shallow, urbanized Port Phillip Bay, south-eastern Australia. The ability to identify common dolphins by their dorsal fin markings and coloration using photo-identification was also investigated. Systematic and non-systematic boat surveys were undertaken between 2007 and 2014. Results showed that 13 adult common dolphins and their offspring inhabit Port...

Data from: Naturally occurring hybrids of coral reef butterflyfishes have similar fitness compared to parental species

Stefano R. Montanari, Jean-Paul A. Hobbs, Morgan S. Pratchett, Line K. Bay & Lynne Van Herwerden
Hybridisation can produce evolutionary novelty by increasing fitness and adaptive capacity. Heterosis, or hybrid vigour, has been documented in many plant and animal taxa, and is a notable consequence of hybridisation that has been exploited for decades in agriculture and aquaculture. On the contrary, loss of fitness in naturally occurring hybrid taxa has been observed in many cases. This can have negative consequences for the parental species involved (wasted reproductive effort), and has raised concerns...

Data from: Seed moisture content as a primary trait regulating the lethal temperature thresholds of seeds.

Ryan Tangney, David J. Merritt, Joseph B. Fontaine & Ben P. Miller
1) Fire has shaped biological responses of plants and plant communities in fire-prone systems and is linked to myriad ecological processes but also frequently puts people and infrastructure at risk. Fuel or hazard-reduction burning is a common practice aimed at reducing the risk of high-severity fires, which ideally also incorporates consideration of biodiversity values. Within fire-prone systems, seed banks are often critical for plant species’ regeneration, and seeds are typically adapted to survive the passage...

Data from: The rise and fall of arbuscular mycorrhizal fungal diversity during ecosystem retrogression

Manuela Krüger, François P. Teste, Etienne Laliberté, Hans Lambers, Megan Coghlan, Graham Zemunik & Michael Bunce
Ecosystem retrogression following long-term pedogenesis is attributed to phosphorus (P) limitation of primary productivity. Arbuscular mycorrhizal fungi (AMF) enhance P acquisition for most terrestrial plants, but it has been suggested that this strategy becomes less effective in strongly weathered soils with extremely low P availability. Using next generation sequencing of the large subunit ribosomal RNA gene in roots and soil, we compared the composition and diversity of AMF communities in three contrasting stages of a...

Data from: A novel stereo-video method to investigate fish-habitat relationships

Danielle L. Collins, Tim J. Langlois, Todd Bond, Thomas H. Holmes, Euan S. Harvey, Rebecca Fisher & Dianne L. McLean
Habitat complexity is known to influence the structure of fish assemblages. A number of techniques have previously been used to measure complexity, including quantitative in situ methods, which can be time-consuming and labour-intensive, and more rapid semi-quantitative visual scoring methods. This study investigated the utility of a novel method for estimating complexity, whereby habitat height was measured using stereo-photogrammetry from diver-operated stereo-video, traditionally used to sample fish assemblages. This ‘stereo-height’ method was compared to established...

Data from: Assessing the utility of eDNA as a tool to survey reef-fish communities in the Red Sea

Joseph D. DiBattista, Darren J. Coker, Tane H. Sinclair-Taylor, Michael Stat, Michael L. Berumen & Michael Bunce
Relatively small volumes of water may contain sufficient environmental DNA (eDNA) to detect target aquatic organisms via genetic sequencing. We therefore assessed the utility of eDNA to document the diversity of coral reef fishes in the central Red Sea. DNA from seawater samples was extracted, amplified using fish-specific 16S mitochondrial DNA primers, and sequenced using a metabarcoding workflow. DNA sequences were assigned to taxa using available genetic repositories or custom genetic databases generated from reference...

Fatal and non-fatal events within 14 days after early, intensive mobilization post stroke

Julie Bernhardt, Karen Borschmann, Janice Collier, Amanda Thrift, Peter Langhorne, Sandy Middleton, Richard Lindley, Helen Dewey, Philip Bath, Catherine Said, Leonid Churilov, Fiona Ellery, Christopher Bladin, Christopher Reid, Judith Frayne, Velandai Srikanth, Stephen Read & Geoffrey Donnan
Objective: We examined fatal and non-fatal Serious Adverse Events (SAEs) at 14 days within AVERT. Method: A prospective, parallel group, assessor blinded, randomized international clinical trial comparing very early intensive mobilization training (VEM) with usual care (UC); with follow up to 3 months. Included: Patients with ischaemic and haemorrhagic stroke within 24 hours of onset and physiological parameters within set limits. Treatment with thrombolytics allowed. Excluded: Patients with severe premorbid disability and/or comorbidities. Interventions continued...

Evolutionary biogeography of the reef-building coral genus Galaxea across the Indo-Pacific ocean

Patricia Wepfer, Patricia H. Wepfer, Yuichi Nakajima, Makamas Sutthacheep, Veronica Z. Radice, Zoe Richards, Put Ang, Tullia Terraneo, Mareike Sudek, Atsushi Fujimura, Robert J. Toonen, Alexander S. Mikheyev, Evan P. Economo & Satoshi Mitarai
Stony corals (Scleractinia) form the basis for some of the most diverse ecosytems on Earth, but we have much to learn about their evolutionary history and systematic relationships. In order to improve our understanding of species in corals we here investigated phylogenetic relationships between morphologically defined species and genetic lineages in the genus Galaxea (Euphyllidae) using a combined phylogenomic and phylogeographic ap- proach. Previous studies revealed the nominal species G. fascicularis included three genetically well-differ-...

Functional beta diversity of New Zealand fishes: characterising morphological turnover along depth and latitude gradients, with derivation of functional bioregions

Elisabeth Myers, David Eme, Libby Liggins, Euan Harvey, Clive Roberts & Marti Anderson
Changes in the functional structures of communities are rarely examined along multiple large-scale environmental gradients. Here, we describe patterns in functional beta diversity for New Zealand marine fishes vs depth and latitude, including broad-scale delineation of functional bioregions. We derived eight functional traits related to food acquisition and locomotion and calculated complementary indices of functional beta diversity for 144 species of marine ray-finned fishes occurring along large-scale depth (50 - 1200 m) and latitudinal gradients...

Toba Caldera geochronological and modelling dataset

Adonara Mucek, Martin Danisik, Shanaka De Silva, Daniel Miggins, Axel Schmitt, Indyo Pratomo, Anthony Koppers & Jack Gillespie
Bayesian statistical analysis and inverse thermal history modeling of feldspar 40Ar/39Ar and zircon (U-Th)/He ages reveal that post-caldera dome eruptions at Toba Caldera, Sumatra occurred up to ca. 13.6 kyr later than indicated by 40Ar/39Ar feldspar ages. This discordance implies cold storage of feldspar antecrysts prior to eruption for a maximum duration of ca. 5 and 13 kyr at between 280°C and 500°C. These findings connote that the solidified carapace of remnant magma after the...

Data from: Comparative phylogeography of three host sea anemones in the Indo-Pacific

Pablo Saenz-Agudelo, Madeleine Emms, Emily Giles, Remy Gatins, Gerrit Nanninga, Anna Scott, Jean Paul Hobbs, Ashley Frisch, Suzanne Mills, Ricardo Beldade & Michael Berumen
Aim The mutualistic relationship between anemones and anemonefishes is one of the most iconic examples of symbiosis. However, while anemonefishes have been extensively studied in terms of genetic connectivity, such information is lacking entirely for host sea anemones. Here, we provide the first information on the broad-scale population structure and phylogeographic patterns of three species of host sea anemone, Heteractis magnifica, Stichodactyla mertensii, and Entacmaea quadricolor. We evaluate if there is concordance in genetic structure...

Voices from the Darker Side of Development

Yirga Gelaw Woldeyes, Gaylene Galardi, Rebecca Higgie & Erin Thomas

Voucher specimen image of Krueger 25 (Drosera hartmeyerorum; Droseraceae).

Thilo Krueger

Voucher specimen image of Krueger 28 (Utricularia tubulata; Lentibulariaceae).

Thilo Krueger

Voucher specimen image of Krueger 27 (Utricularia byrneana; Lentibulariaceae).

Thilo Krueger

Data from: Testing multiple substrates for terrestrial biodiversity monitoring using environmental DNA (eDNA) metabarcoding

Mieke E Van Der Heyde, Michael Bunce, Grant Wardell-Johnson, Kristen Fernandes, Nicole White & Paul Nevill
Biological surveys based on visual identification of the biota are challenging, expensive, and time consuming, yet crucial for effective biomonitoring. DNA metabarcoding is a rapidly developing technology that can also facilitate biological surveys. This method involves the use of next generation sequencing technology to determine the community composition of a sample. However, it is uncertain as to what biological substrate should be the primary focus of metabarcoding surveys. This study aims to test multiple sample...

eDNA metabarcoding survey reveals fine-scale coral reef community variation across a remote, tropical island ecosystem

Katrina West, Michael Stat, Euan Harvey, Craig Skepper, Joseph DiBattista, Zoe Richards, Michael Travers, Stephen Newman & Michael Bunce
Environmental DNA (eDNA) metabarcoding, a technique for retrieving multi-species DNA from environmental samples, can detect a diverse array of marine species from filtered seawater samples. There is a growing potential to integrate eDNA alongside existing monitoring methods in order to establish or improve the assessment of species diversity. Remote island reefs are increasingly vulnerable to climate-related threats and as such there is a pressing need for efficient whole-ecosystem surveying approaches to baseline biodiversity, study assemblage...

Data from: Tag jumps illuminated – reducing sequence-to-sample misidentifications in metabarcoding studies

Ida Bærholm Schnell, Kristine Bohmann, M. Thomas P. Gilbert & Ida Baerholm Schnell
Metabarcoding of environmental samples on second-generation sequencing platforms has rapidly become a valuable tool for ecological studies. A fundamental assumption of this approach is the reliance on being able to track tagged amplicons back to the samples from which they originated. In this study, we address the problem of sequences in metabarcoding sequencing outputs with false combinations of used tags (tag jumps). Unless these sequences can be identified and excluded from downstream analyses, tag jumps...

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