Australia’s species need an independent champion

img_1196Last week myself and colleagues from Charles Sturt University, Deakin University and the University of Queensland wrote a piece for The Conversation arguing that the role of Australia’s Threatened Species Commissioner should be strengthened and made independent from government. It is a timely piece – the first Commissioner recently stepped down and his replacement is currently being sought. It represents an important moment to reflect on the successes and failings of the role so far, and ways it could better serve Australia’s diverse and precious biodiversity.

You can read the article in full here.

New paper: Can habitat management mitigate disease impacts on threatened amphibians?

swabbingHow does one control a rapacious pathogen? If it were an infectious agent of humans, we would have much in our armoury. We could isolate the stricken, and slow the pathogens spread. We could search for the vector and extinguish it. We could take antibodies from the immune and treat the susceptible with their serum. Or we could disseminate doses of powerful antibiotics or vaccines, and lead the pathogen down the path to functional extinction.

But what if the pathogen targets wildlife? In that case, our armoury is much diminished. So much so that the outcome of wildlife-pathogen interactions in nature are almost always determined by natural mechanisms; death of the vulnerable and, failing complete extinction, either survival and proliferation of the immune or the recovered, or persistence of susceptible populations in refugia, away from reservoir hosts or in regions outside the pathogen’s environmental hitting zone.

In our latest paper, just out in Conservation Letters, we assess the degree to which knowledge of environmental refugia can be used to mitigate the impacts of perhaps the worst wildlife pathogen of modern times – the amphibian chytrid fungus. Chytrid emerged as a major pathogen of amphibians late last century, for reasons unknown. It spread across the globe, facilitated by us, and decimated frogs and toads as it went. The toll is difficult to quantify (and continues to mount), but at least 200 species are now thought to have either succumbed completely to chytridiomycosis, or suffered significant population declines.

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Chytrid sporangium, CSIRO

Despite this, chytrid is not invincible. In fact, it has some key environmental frailties – its pathogenicity falls sharply at warmer temperatures, and it cannot tolerate acidic or alkaline environments, nor those which are somewhat saline. In short, it has several environmental Achilles heels.

We set out to assess the degree to which these weaknesses could be harnessed to bolster amphibian population viability. For small metapopulations of our focal species, the threatened Growling Grass Frog, we used simulations to understand how slight increases to wetland water temperatures and salinity (achieved by reducing wetland shading, increasing wetland size and depth, and tapping groundwater) could reduce pathogen prevalence and increase rates of frog population persistence. In addition, we assessed the degree to which strategic creation of warm and slighty saline wetlands (<10,000 µS/cm) could enhance metapopulation viability. The work builds on our 2015 paper which demonstrated that environmental refugia, metapopulation size and connectivity are important determinants of the persistence of Growling Grass Frog populations afflicted by chytrid.

So, what did we find? Three things in particular. First, our simulations suggest that habitat management to mitigate chytrid impacts will be most effective in climates where hosts are already less susceptible to the disease; that is, within climatic refugia where disease impacts are already curtailed. Second, our work suggests that creating new wetlands with refugial properties may be substantially more effective than manipulating existing habitat, in part because altering existing habitat will be constrained by other environmental considerations. Third, increasing metapopulation size and connectivity through strategic habitat creation can greatly reduce extinction risk, because dense-clusters of wetlands are much more likely to enable a balance between the opposing forces of population extinction and (re)colonisation.

Our work is one of very few to assess the effectiveness of habitat-based management levers for controlling wildlife disease. The results are encouraging. The next step is to test the effectiveness of habitat-based management of chytrid in the field. We need well-designed, statistically rigorous experiments replicated across multiple taxa to understand the scale and breadth of its effectiveness, its practicality under varying contexts, and the cost-benefit ratio relative to other potential control options.

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A pool on the Merri Creek recently choked by invasive Phragmites, Willows and Hawthorn. Once an important breeding site for Growling Grass Frogs, the species is no longer found here

But in the interim, our work provides clear guidance to managers of Growling Grass Frogs in southern Australia, and its sister-taxa the Green and Golden Bell Frog and Yellow-spotted Bell Frog. The niche of these frogs has narrowed in the wake of chytrid. Today, they require dense networks of wetlands that receive copious sun, and they can benefit from slightly saline environments. If shading from riparian trees and invasive emergent vegetation is prevalent in the systems you manage, thin it out or remove it all together. If wetlands are sparse, small and shallow, seek to build adjacent wetlands which are large, deep and unshaded, providing not just disease refugia, but bolstering metapopulation size and connectivity as well. And if you have access to slightly saline ground water (<10,000 µS/cm), consider sinking bores and feeding some wetlands with this water source. Do let us know how you get on.

2016 Herping in review

Between 2013 and 2015, I was lucky enough to embark on an ecological odyssey to the UK. With backing from a Victorian Postdoctoral Research Fellowship, I set off for the University of York and spent a happy two years learning at the knee of Prof. Chris Thomas. Through daily chats with Chris, and the other great folk that called York’s J2 lab home, I gathered a sense of the incredible biodiversity data sets that UK ecologists have at their disposal. The British populace, I soon realised, are just as fanatical about collecting biodiversity data as they are about train spotting, building model aeroplanes and tracking down obscure antiques. From immense observational data sets, to comprehensive, statistically-rigorous monitoring programs, the Brits produce masses of species occurrence and abundance data every year. I was hugely impressed; not just with the British fervor for good, solid data, but the end products too – great ecological science and perhaps an unrivaled capacity to monitor the country’s biodiversity.

Returning to Australia, I had a new found sense of the importance of maintaining records of the species I see in my travels. Specifically, time-stamped occurrence data, the sorts of which are vital to producing species distribution maps and models, and which, in the long-term, can provide insights into population declines, range shifts or even invasions. I’ve been diligently keeping these records ever since, with annual uploads to the Victorian Biodiversity Atlas and the Atlas of Living Australia.

This post will be the first of an annual series sharing those records with you. My intentions are two-fold: i) to share a snippet of the wonderful reptiles and frogs I’ve had the pleasure of meeting each year, and; ii) to encourage you to keep these records too, and to submit them regularly to either a state or national biodiversity atlas.

So, what of 2016? In all, I managed 126 records of 53 species, with observations from the tropical forests of North Queensland, through southern Queensland, New South Wales and into the hills and plains of Victoria. I met numerous new species, including Scrub Python, Jungle Carpet Python, New England Tree Frog, Striped Burrowing Frog, Golden Crowned Snake, Cascade Tree Frog, Sudell’s Frog, Rugose Toadlet and Red-eyed Tree Frog. The full species list can be found in the table that follows, with further details here. I also had the opportunity to photograph many of the species I encountered this year, having finally managed to save enough pennies for a decent digital camera. I’ll leave off with a few of the images I captured (you can head over to my Flickr page if you would like to see more).

Until next year then. Here’s hoping 2017 is just as rewarding…

Species list:

Species Common Name
Amalosia lesueurii Lesueur’s Velvet Gecko
Amphibolurus muricatus Jacky Dragon
Boiga irregularis Brown Tree Snake
Cacophis squamulosus Golden Crowned Snake
Carlia tetradactyla Southern Rainbow Skink
Chelodina longicollis Common Long-necked Turtle
Christinus marmoratus Marbled Gecko
Concinnia martini Martin’s Skink
Crinia parinsignifera Plains Froglet
Crinia signifera Common Froglet
Cryptoblepharus pannosus Ragged Snake-eyed Skink
Ctenotus spaldingi Robust Skink
Ctenotus taeniolatus Copper-tailed Skink
Cyclorana alboguttata Striped Burrowing Frog
Delma impar Striped Legless Lizard
Diporiphora australis Tommy Roundhead
Egernia striolata Tree Skink
Emydura macquarii Murray River Turtle
Eulamprus quoyii Eastern Water Skink
Geocrinia victoriana Victorian Smooth Froglet
Chelonia mydas Green Sea Turtle
Hemidactylus frenatus Asian House Gecko
Hemiergis decresiensis Three-toed Skink
Intellagama lesueurii Eastern Water Dragon
Intellagama lesueurii howittii Gippsland Water Dragon
Lampropholis guichenoti Garden Skink
Land Mullet Bellatorias major
Lerista bouganvilli Bouganville’s Skink
Limnodynastes dumerilii Banjo Frog
Limnodynastes peronii Striped Marsh Frog
Limnodynastes tasmaniensis Spotted Marsh Frog
Liopholis modesta Eastern Ranges Rock Skink
Litoria aurea Green and Golden Bell Frog
Litoria caerulea Green Tree Frog
Litoria chloris Red-eyed Tree Frog
Litoria ewingii Southern Brown Tree Frog
Litoria fallax Eastern Dwarf Tree Frog
Litoria pearsoniana Cascade Tree Frog
Litoria peronii Peron’s Tree Frog
Litoria subglandulosa New England Tree Frog
Litoria verreauxii Whistling Tree Frog
Mixophyse fasciolatus Great Barred Frog
Morethia boulengeri Boulenger’s Skink
Neobatrachus sudelli Common Spade-foot Toad
Parasuta flagellum Little Whip Snake
Pogona barbata Eastern Bearded Dragon
Pseudechis porphyriacus Red-bellied Black Snake
Pseudomoia pagenstecheri Tussock Skink
Pseudonaja textilis Common Brown Snake
Strophurus intermedius Eastern Spiny-tailed Gecko
Tiliqua scincoides Eastern Blue-tongue
Tropidechis carinatus Rough-scaled Snake
Uperoleia rugosa Rugose Toadlet

Images:

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Cascade Tree Frog (Litoria pearsoniana), Springbrook QLD

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Eastern Brown Snake (Pseudonaja textilis), Redesdale VIC

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Gippsland Water Dragon (Intellagama lesueurii howittii), Mallacoota VIC

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Scrub Python (Morelia kinghorni), Tully QLD

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Red-eyed Tree Frog (Litoria chloris), Mt Warning NSW

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Lesueur’s Velvet Gecko (Amalosia lesueurii), Retreat NSW

New paper – After the epidemic: ongoing declines, stabilisations and recoveries in chytridiomycosis impacted amphibians

csiro_scienceimage_1392_scanning_electron_micrograph_of_chytrid_fungusWe humans live in perpetual fear of epidemics. Some nasty new bug emerging from the jungle, sweeping across humanity and knocking off millions of us in the process. Or perhaps an existing pathogen that mutates into a superbug capable of spreading like wildfire, transmitted by as little as a dirty look.

While sometimes bordering on irrational (cheers Hollywood), our fear of epidemics is well placed. We’ve had some doozies in the not too distant past. Take Spanish Flu – a disease that killed somewhere between 50 and 100 million people between 1918 and 1920, reducing the world population by up to 5%. What’s more, our spine-bearing brethren give us regular reminders of the ruinous power of pathogens. Examples include white-nose syndrome in bats, avian malaria, Parapoxvirus in squirrels and the recent implosion of Saiga populations on the Eurasian steppe.

In the wildlife realm however, one disease stands head-and-shoulders above the rest as a potent reminder of the destructive capacity of pathogens. Chytridiomycosis, caused by the fungus Batrachochytrium dendrobatidis, has killed literally millions of frogs across the globe over the last four decades, driving thousands of local extinctions and either major decline or global extinction for up to 200 species. A truly remarkable feat for a single pathogen. In Australia, chytrid hit in the late 1970’s, arriving first (we believe) in Brisbane, before heading north and south along the east coast, and skipping across to Western Australia and Tasmania. It left carnage in its wake. Frogs that were formally abundant and readily found simply disappeared. Apart from a few observed die-offs, numerous populations went up in a figurative puff of smoke. Seven species met their doom.

Our most recent paper reviews what happened next. Led by the inimitable Dr Ben Scheele, the paper draws together published and unpublished data to review the fate of Australian frogs impacted by chytridiomycosis following the initial epidemic. We detail the varying responses of these species, ranging from ongoing decline, to stabilisation and even recovery. Furthermore, the review draws together the known mechanisms underpinning these responses, which Australian and international herpetologists have steadily revealed over the last two decades.

The news is mixed. Chytridiomycosis remains the chief threat to several highly endangered frogs in Australia, such as the Southern Corroboree Frog and Baw Baw Frog, both of which may soon no longer persist in the wild. However, others have stabilised and some have even clawed back formerly occupied territory. Encouragingly, the latter may be on-route to full recovery. The review also highlights that we now know enough to trial management options for some species. For example, it may be possible to target reintroduction efforts to habitats with few reservoir hosts of chytrid, or we may be able to manipulate the environment in ways that gives susceptible frogs an epidemiological or demographic edge over the fungus (a topic on which my own research has focused in recent years).

With that, I commend the paper to you. As always, if you’d like to read the paper but can’t get through the paywall, drop me an email and I’ll send it through.

Latest paper: Manipulating wetland hydroperiod to improve occupancy rates by an endangered amphibian

IMG_1047_tweakedWorking on wetland biodiversity takes one to some rather odd places. In my case, it has meant copious hours at the back of industrial estates, in flooded quarry pits and dodging unsavory types around urban backwaters. Hardly Kakadu or the Okavango Delta. But even my haunts are glamorous compared to some. Take the Western Treatment Plant – 11,000 ha of sewage treatment ponds in Melbourne’s south-west that processes half of cities’ effluent (a daily contribution from ~2 million people). I can assure that the WTP looks and smells just like you imagine; hardly the sought of place that should fire the inspiration of wetland ecologists.

And yet it does, because the WTP is wetland of global significance. It even sports a RAMSAR listing to prove it. Twitchers are particularly smitten with the place, flocking on mass to see Brolgas, Bitterns, Red-necked Avocets, Freckled Ducks, Pink-eared Ducks and even the critically-endangered Orange-bellied Parrot. For herpetologists like me, the attraction is frogs. As well as being home to squillions of Melbourne’s more common frogs, the WTP supports arguably the single largest remnant population of Growling Grass Frogs in the country.

Our latest paper focuses on keeping the resident Growler population booming. A collaboration with Andrew Hamer of the Australian Research Centre for Urban Ecology, Ecology Australia P/L and Will Steele of Melbourne Water, the paper uses monitoring data collected by EA over four seasons to update an existing model of the metapopulation dynamics of Growlers in Melbourne, and uses this model to predict how managing the hydroperiod of key wetlands could bolster occupancy rates. Furthermore, it includes a test of this management action in the field, assessing the change in occupancy rate at ponds that received top-up watering in the final year of the study. Encouragingly, occupancy rate increased among these ponds relative to those that didn’t receive top-up watering, suggesting that managing hydroperiod could increase both the range and abundance of Growlers at the WTP.

I’ll sign off here and let you peruse the paper for the juicy details (fire me an email if you can’t get through the paywall). If you’re interested in frogs, wetlands, management experiments, simulations or Bayesian statistics, you should like this one.

Here’s cheers to Parasite Ecology

IMG_1014_tweakedJust before Easter, my old friend Michael Scroggie alerted me to the fact that the good folks over at Parasite Ecology had posted a summary of our Ecology Letters paper on the role of chytridiomycosis in frog metapopulation dynamics. They really nailed the key messages of the paper, and even included a cheeky little cartoon that links our messages around migration to contemporary US politics. Nice!

Three new papers

A quick post to plug three papers that have hit the streets over recent months. The first is a case study of interspecific variation in the phenology of advertisement in frog communities. It was a fun paper to do, drawing together my own monitoring data from across northern Melbourne and coupling it with an extensive dataset collected by Stefano Canessa and Kirsten Parris across the same region in 2009. We built models of calling seasonality and within-season meteorological drivers for the resident frogs, and used these models to assess interspecific variation in peak calling periods. The paper is now published online over at Ecology and Evolution.

The second paper is the culmination of copious hard-work by Claire Keely, whose PhD I co-supervise. After 6 months trudging through the swamps of outer Melbourne searching for Growling Grass Frogs, followed by long hours in the lab genotyping hundreds of individuals, Claire has gained important data on the genetic structure and diversity of this endangered species around the city. It is great to see this work come to fruition. You can find out more about the paper and Claire’s PhD here. The paper itself is freely downloadable from Royal Society Open Science.

Third on the list is the first paper from Lucy Rose’s PhD. Lucy is interested in conservation decision making for freshwater systems in southern Australia, and has used our beloved Growler as a case study for integrating uncertainty in cost-effectiveness analyses. Lucy tackled the rather complex case of how Growlers will respond to urban growth in the Lockerbie Precinct north of Melbourne, working her way through the myriad of conservation options for the species to identify those that not only maximize cost-effectiveness, but minimize uncertainty due to demographic stochasticity and model imprecision. Lucy’s paper is currently online early at Conservation Biology.