From Birdsong Metrics to Ancient Arctic DNA: Selected Publications from the 1st Quarter, 2014

In the first quarter of 2014, researchers at The Environment Institute have published on a vast array of topics, from Ancient DNA in the Arctic, to birdsongs to  recommendations for improvements to guidelines such as the Ecological Footprint in order to better inform policy makers.

A selection of these publications is listed below.

1. Fifty thousand years of Arctic vegetation and megafaunal diet. Nature
Research into the type of vegetation present during the last 50 thousand years in the Arctic is presented. Rather than using fossilised pollen as the main source of data as has been the case for previous studies, this study used plant and nematode DNA from sites across the Arctic. This data brings into question the diet of megafauna such as the woolly mammoth.

2. Distribution and Diversity of Soil Microfauna from East Antarctica: Assessing the Link between Biotic and Abiotic Factors. PLOS ONE
An investigation into soil microfauna composition, abundance, and distribution in East Antarctica. The study found that where a population exists is likely to be determined by soil geochemistry.

3. Higher Levels of Multiple Paternities Increase Seedling Survival in the Long-Lived Tree Eucalyptus gracilis. PLOS ONE
Data from populations of Eucalyptus gracilis (white mallee or yorrell) across the Murray-Darling Basin in southern Australia was collected in order to gain an understanding of how local environments affect seed quality.

4. Rapid deforestation threatens mid‐elevational endemic birds but climate change is most important at higher elevations. Biodiversity Research
The effect of deforestation and climate change on bird communities in Lore Lindu National Park, Sulawesi, Indonesia was investigated. The National Park is a globally important hotspot of avian endemism, and has lost almost 12% of its forest in the decade of 2000-2010.

5. Does the Shoe Fit? Real versus Imagined Ecological Footprints. PLOS BIOLOGY
This article seeks to demonstrate that “Ecological Footprint” measurements as currently constructed and presented misleading and cannot be used effectively in any serious science or policy context. Outlined are a set of principles that any ecological indicator should be based on in order to be scientifically sound and relevant for use in decision making.

6. Historical changes in mean trophic level of southern Australian fisheries. Marine and Freshwater Research
It is suggested that care in interpretation of mean trophic level (MTL) of catches should be taken because reductions do not necessarily reflect change in species high on the food chain by fishing pressure. They found that the change in MTL is mainly attributable to large catches of sardines.

7. Ecology Needs a Convention of Nomenclature. BioScience
A convention of ecological nomenclature as well as a transnational institution to manage it is proposed, in order to overcome the synonymy and polysemy across disciplines, which currently handicaps the progress of ecology.

8.Emerging Challenges for the Drinking Water Industry Environmental Science & Technology
Three principles that underpin alternative water source choices are introduced: Reliability, thresholds and future projections of water quality and quantity.

9. The evolution of lncRNA repertoires and expression patterns in tetrapods. Nature
The first large-scale evolutionary study of long noncoding RNA (lncRNA) repertoires and expression patterns in eleven tetrapod species is presented. About 400 highly conserved lncRNA’s (of more than 10 000 identified) probably originated an astonishing 300 million years ago at least.

10. Direct evidence for organic carbon preservation as clay-organic nanocomposites in a Devonian black shale; from deposition to diagenesis Earth and Planetary Science Letters
The temperature and oxygenation of the oceans are influenced by one of the most fundamental biogeochemical processes on Earth-the burial of organic carbon in marine sediments. This buried organic carbon also comprises the primary source of hydrocarbons. This paper presents research into the composition of Woodford Shale.

11. A guide to southern temperate seagrasses (Book, CSIRO Publishing)
A reference guide to the diverse seagrasses present in the ocean of the temperate parts of the southern hemisphere. Evolution, biology and ecology of the seagrasses is introduced. This book allows readers to rapidly identify a particular species, including those often confused with others.

12. A Potential Metric of the Attractiveness of Bird Song to Humans. Ethology
Bird species such as the common nightingale and European blackbird have songs that are known to have inspired classical music. Developing a metric for these songs might help identify birds that are present in international bird trade which could contribute to studies of invasion and conservation biology.

13. Genetics in conservation management: Revised recommendations for the 50/500 rules, Red List criteria and population viability analyses. Biological Conservation
A review of recent theoretical and empirical evidence concludes that the population rules for minimising inbreeding and for maintaining evolutionary potential in perpetuity need to be at least doubled and sections of the IUCN Red List criteria require revision, to be more effective conservation tools.

New Review: Parasites as biological tags to assess host population structure: Guidelines, recent genetic advances and comments on a holistic approach

A new review involving Environment Institute member Bronwyn Gillanders, as well as Sarah Catalano, Ian Whittington and Stephen Donnellan of the Australian Centre for Evolutionary Biology and Biodiversity has recently been published in the International Journal for Parasitology: Parasites and Wildlife.

This review, titled Parasites as biological tags to assess host population structure: Guidelines, recent genetic advances and comments on a holistic approach includes a summary of the population studies that have used parasites as biological tags for marine fish and cephalopods. The new ways that parasite genetic data can be incorporated into population structure studies is discussed.

Hundreds of dicyemid parasites (white, fuzzy strands) attached to the renal appendage (in red) of a cuttlefish individual.

Hundreds of dicyemid parasites (white, fuzzy strands) attached to the renal appendage (in red) of a cuttlefish individual.

Download the review to find out more.

EI research shows broad-scale trends in climatic and environmental change in Australia over the past 30 ka

A new paper involving Environment Institute member John Tibby as well as L. Petherick (Queensland University of Technology & The University of Queensland), H. Bostock (National Institute of Water and Atmosphere), T.J. Cohen (The University of Wollongong), K. Fitzsimmons (Max Planck Institute for Evolutionary Anthropology), M.-S. Fletcher (Australian National University & University of Chile), P.Moss (University of Queensland), J. Reeves (University of Ballarat), S. Mooney (University of New South Wales), T. Barrows (University of Exeter), J. Kemp (Northumbria University), J. Jansen (Stockholm University), G. Nanson (University of Wollongong) and A. Dosseto (University of Wollongong) has recently been published in the the journal Quaternary Science Reviews.

John Tibby, one of the researchers involved on the paper

John Tibby, one of the researchers involved on the paper

The paper titled ”Climatic records over the past 30 ka from temperate Australia – a synthesis from the Oz-INTIMATE workgroup’ investigates broad-scale trends in climatic and environmental change in Australia over the past 30 ka.

Temperate Australia sits between the heat engine of the tropics and the cold Southern Ocean, encompassing a range of rainfall regimes and falling under the influence of different climatic drivers, despite this, researchers were able  to synthesise available palaeoenvironmental records and show that it is possible to gain insight into broader scale climatic and environmental variability without losing the intricacies of individual records.

Read the paper to find out more.

New paper investigating whale shark populations

A new paper involving Environment Institute members Ana Sequeira, Camille Mellin (also Australian Institute of Marine Science) and Corey Bradshaw (also SARDI) as well as Mark Meekan (Australian Institute of Marine Science) and David Sims (Marine Biological Association of the United Kingdom) has recently been published in the Journal of Fish Biology.

The paper titled ‘Inferred global connectivity of whale shark Rhincodon typus populations’ collates available data on sightings, tracked movements and distribution information of whale sharks (Rhincodon Typus).

Currently, information on population geographic connectivity, migration and demography of whale sharks is still limited and scattered. However, understanding whale sharks migratory behaviour is central to its conservation management. The study provides evidence for the hypothesis of broad-scale connectivity among populations, and generates a model describing how the world’s whale sharks are part of a single, global meta-population.

Image: Whale Shark, coutesy of KAZ2.0/Flickr

Image: Whale Shark, coutesy of KAZ2.0/Flickr

The model provides a worldwide perspective of possible whale shark migration routes, and suggests a modified focus for additional research to test its predictions. The authors suggest that the framework can be used to trim the hypotheses for whale shark movements and aggregation timings, thereby isolating possible mating and breeding areas that are currently unknown. They believe this will assist efforts to predict the longer-term response of the species to ocean warming and changing patterns of human-induced mortality.

Download the paper to find out more.

New Paper: Predicting the Distribution of Commercially Important Invertebrate Stocks under Future Climate

A new paper involving Environment Institute members Bayden Russell, Sean Connell, Camille Mellin (also Australian Institute of Marine Science), Barry Brook, Owen Burnell and Damien Fordham has recently been published in the journal PLOS One.

The journal titled ‘Predicting the Distribution of Commercially Important Invertebrate Stocks under Future Climate’ projected the future distribution and numbers of two commercially harvested abalone species (blacklip abalone, Haliotis rubra and greenlip abalone, H. laevigata) inhabiting coastal South Australia, using multiple species distribution models (SDM) and for decadal time slices through to 2100.The projections are based on two contrasting global greenhouse gas emissions scenarios. The results provide a practical first approximation of the potential impact of climate-induced change on the two species of marine invertebrates in the same fishery.

Read the paper to find out more about these results.

New Paper: Exogenous and endogenous determinants of spatial aggregation patterns in Tibetan Plateau meadow vegetation

A new paper involving Environment Institute member Corey Bradshaw (also SARDI) as well as Jiajia Liu (Fudan University). Deyan Wu (Lanzhou University), Xiaoyu Peng (Lanzhou University) and Shurong Zhou (Fudan University) was recently published in the Journal of Plant Ecology.

The paper titled ‘Exogenous and endogenous determinants of spatial aggregation patterns in Tibetan Plateau meadow vegetation’ aimed to measure the relative importance of various endogenous and exogenous processes influencing the spatial distribution of the individuals of plant species at different temporal and spatial scales in a species-rich and high-cover meadow in the eastern Tibetan Plateau.The  results indicate that self-thinning and habitat heterogeneity all contribute to determine the spatial aggregation patterns of plant individuals in the area.

Download the paper to find out more.

Silver lining to coral reef climate cloud

A team of Researchers, led by Merinda Nash from Australian National University (ANU),  have found parts of our coral reefs are more resistant to ocean acidification than first thought.

The study was published in the journal Nature Climate Change today (Monday 10th December) and details their analyses of the mineral structure of coralline algae.

Photo by Dr Bayden Russell, University of Adelaide

Photo by Dr Bayden Russell, University of Adelaide

The team involves Environment Institute member Dr Bayden Russell, who is one of the authors on the paper.

The researchers discovered an extra mineral, dolomite, in coralline algae, which made the organism less susceptible to being dissolved in increasingly acidic oceans.

“A coral reef is like a house – the coral are the bricks, but the coralline algae are the cement that holds it all together,” explains lead author and PhD candidate with the ANU Research School of Physics & Engineering, Merinda Nash.

“Researchers are concerned that when atmospheric carbon levels rise and ocean acidity increases, the magnesium calcite which makes up the coralline algae will dissolve first, threatening the very foundations of the reef.

“However, in a rare piece of good news, we found when we analysed algal samples from Heron Island on the Great Barrier Reef that the cell spaces in the algae were filled with dolomite, the same strong mineral that makes up the Dolomite Alps in Italy.”

Read the full media release sent out today by ANU.

Download a copy of the paper.

 

 

New paper: Ecologically realistic estimates of maximum population growth using informed Bayesian priors

A new paper involving Environment Institute members Steven Delean, Barry Brook and Corey Bradshaw (also SARDI) has recently been published in the journal Methods in Ecology and Evolution.

Dr Steven Delean, The University of Adelaide

The paper titled ‘Ecologically realistic estimates of maximum population growth using informed Bayesian priors’ uses easily obtained prior information about allometric relationships and life history characteristics of a range of mammal species to inform the estimation of growth responses of populations to their previous densities. The results show that prior knowledge of species’ life history is necessary to provide ecologically realistic estimates of regulatory dynamics even in the absence of detailed demographic data.

Find out more about this research by downloading the paper.

New paper: A quantitative assessment of a reliable screening technique for the STR analysis of telogen hair roots

A new paper involving Environment Institute members Janette Edson, Alan Cooper and Jeremy Austin, as well as Elizabeth Brooks (Forensic and Data Centres, The Australian Federal Police), Carolyn McLaren (University of Canberra), James Robertson (University of Canberra), Dennis McNevin (University of Canberra) has recently been published in the Journal Forensic Science International:Genetics.

The paper titled, ‘A quantitative assessment of a reliable screening technique for the STR analysis of telogen hair roots’ looks at human telogen hairs, which are commonly recovered as trace evidence but currently have limited use for forensic DNA analysis. The paper presents methods that can be incorporated into routine trace and DNA analysis, providing an efficient and cost effective method to screen telogen hairs and predict STR (short tandem repeats) profiling success prior to destructive DNA analysis. The results of this study indicate telogen hairs may provide a reliable source of nuclear DNA for use in routine casework.

Read the paper to find out more.

New Paper – At Limits of Life: Multidisciplinary Insights Reveal Environmental Constraints on Biotic Diversity in Continental Antarctica

A new paper written by Environment Institute member Mark Stevens (also SA Museum), Catarina Magalhaes (University of Porto), S. Craig Cary (University of Waikato & University of Delaware), Becky Ball (Arizona State University), Bryan Storey (University of Canterbury), Diana Hall (Colorado State University), Roman Turk (University of Salzburg) and Ulrike Ruprecht (University of Salzburg) has recently been published in the journal PLoS One.

The area where the research was conducted. (Photo by Mark Stevens)

The paper, titled ‘At Limits of Life: Multidisciplinary Insights Reveal Environmental Constraints on Biotic Diversity in Continental Antarctica,’ furthers our knowledge about why life exists in such an inhospitable location. The study revealed that spatial heterogeneity (a mix of concentrations of multiple species filling its area) and past geological history is fundamental to understanding why certain life exists in Antarctica and where they are found.

Read the paper to find out more.

Read Mark Stevens guest blog post on Biodiversity Revolution to find out what he had to say about the paper.