Unravelling the mystery of endemic versus translocated populations of the endangered Australian lungfish (Neoceratodus forsteri).

The Australian lungfish is a primitive and endangered representative of the subclass Dipnoi. The distribution of this species is limited to south-east Queensland, with some populations considered endemic and others possibly descending from translocations in the late nineteenth century shortly after European discovery. Attempts to resolve the historical distribution of this species have met with conflicting results based on descriptive genetic studies. Understanding if all populations are endemic or some are the result of, or influenced by, translocation events, has implications for conservation management. In this work, we analysed the genetic variation at three types of markers (mtDNA genomes, 11 STRs and 5196 nuclear SNPs) using the approximate Bayesian computation (ABC) algorithm to compare several demographic models. We postulated different contributions of Mary River and Burnett River gene pools into the Brisbane River and North Pine River populations, related to documented translocation events. We ran the analysis for each marker type separately, and we also estimated the posterior probabilities of the models combining the markers. Nuclear SNPs have the highest power to correctly identify the true model among the simulated datasets (where the model was known), but different marker types typically provided similar answers. The most supported demographic model able to explain the real dataset implies that an endemic gene pool is still present in the Brisbane and North Pine Rivers and coexists with the gene pools derived from past documented translocation events. These results support the view that ABC modelling can be useful to reconstruct complex historical translocation events with contemporary implications, and will inform ongoing conservation efforts for the endangered and iconic Australian lungfish.

Relaxation of Natural Selection in the Evolution of the Giant Lungfish Genomes.

Nonadaptive hypotheses on the evolution of eukaryotic genome size predict an expansion when the process of purifying selection becomes weak. Accordingly, species with huge genomes, such as lungfish, are expected to show a genome-wide relaxation signature of selection compared with other organisms. However, few studies have empirically tested this prediction using genomic data in a comparative framework. Here, we show that 1) the newly assembled transcriptome of the Australian lungfish, Neoceratodus forsteri, is characterized by an excess of pervasive transcription, or transcriptional leakage, possibly due to suboptimal transcriptional control, and 2) a significant relaxation signature in coding genes in lungfish species compared with other vertebrates. Based on these observations, we propose that the largest known animal genomes evolved in a nearly neutral scenario where genome expansion is less efficiently constrained.

Age structure of the Australian lungfish (Neoceratodus forsteri).

The Australian lungfish has been studied for more than a century without any knowledge of the longevity of the species. Traditional methods for ageing fish, such as analysis of otolith (ear stone) rings is complicated in that lungfish otoliths differ from teleost fish in composition. As otolith sampling is also lethal, this is not appropriate for a protected species listed under Australian legislation. Lungfish scales were removed from 500 fish from the Brisbane, Burnett and Mary rivers. A sub-sample of scales (85) were aged using bomb radiocarbon techniques and validated using scales marked previously with oxytetracycline. Lungfish ages ranged from 2.5-77 years of age. Estimated population age structures derived using an Age Length Key revealed different recruitment patterns between river systems. There were statistically significant von Bertalanffy growth model parameters estimated for each of the three rivers based on limited sample sizes. In addition, length frequency distributions between river systems were also significantly different. Further studies will be conducted to review drivers that may explain these inter-river differences.

Monitoring age-related trends in genomic diversity of Australian lungfish.

An important challenge for conservation science is to detect declines in intraspecific diversity so that management action can be guided towards populations or species at risk. The lifespan of Australian lungfish (Neoceratodus forsteri) exceeds 80 years, and human impacts on breeding habitat over the last half century may have impeded recruitment, leaving populations dominated by old postreproductive individuals, potentially resulting in a small and declining breeding population. Here, we conduct a "single-sample" evaluation of genetic erosion within contemporary populations of the Australian lungfish. Genetic erosion is a temporal decline in intraspecific diversity due to factors such as reduced population size and inbreeding. We examined whether young individuals showed signs of reduced genetic diversity and/or inbreeding using a novel bomb radiocarbon dating method to age lungfish nonlethally, based on 14 C ratios of scales. A total of 15,201 single nucleotide polymorphic (SNP) loci were genotyped in 92 individuals ranging in age from 2 to 77 years old. Standardized individual heterozygosity and individual inbreeding coefficients varied widely within and between riverine populations, but neither was associated with age, so perceived problems with recruitment have not translated into genetic erosion that could be considered a proximate threat to lungfish populations. Conservation concern has surrounded Australian lungfish for over a century. However, our results suggest that long-lived threatened species can maintain stable levels of intraspecific variability when sufficient reproductive opportunities exist over the course of a long lifespan.

Extremely low microsatellite diversity but distinct population structure in a long-lived threatened species, the Australian lungfish Neoceratodus forsteri (Dipnoi).

The Australian lungfish is a unique living representative of an ancient dipnoan lineage, listed as 'vulnerable' to extinction under Australia's Environment Protection and Biodiversity Conservation Act 1999. Historical accounts indicate this species occurred naturally in two adjacent river systems in Australia, the Burnett and Mary. Current day populations in other rivers are thought to have arisen by translocation from these source populations. Early genetic work detected very little variation and so had limited power to answer questions relevant for management including how genetic variation is partitioned within and among sub-populations. In this study, we use newly developed microsatellite markers to examine samples from the Burnett and Mary Rivers, as well as from two populations thought to be of translocated origin, Brisbane and North Pine. We test whether there is significant genetic structure among and within river drainages; assign putatively translocated populations to potential source populations; and estimate effective population sizes. Eleven polymorphic microsatellite loci genotyped in 218 individuals gave an average within-population heterozygosity of 0.39 which is low relative to other threatened taxa and for freshwater fishes in general. Based on FST values (average over loci = 0.11) and STRUCTURE analyses, we identify three distinct populations in the natural range, one in the Burnett and two distinct populations in the Mary. These analyses also support the hypothesis that the Mary River is the likely source of translocated populations in the Brisbane and North Pine rivers, which agrees with historical published records of a translocation event giving rise to these populations. We were unable to obtain bounded estimates of effective population size, as we have too few genotype combinations, although point estimates were low, ranging from 29 - 129. We recommend that, in order to preserve any local adaptation in the three distinct populations that they be managed separately.

A new coccidian (Apicomplexa: Eimeriidae) from Galápagos tortoise, Chelonoidis sp. (Testudines: Testudinidae), from the Dallas Zoo.

During January 1994, feces from a captive juvenile Galápagos tortoise, Chelonoidis sp., from the Dallas Zoo, Dallas County, Texas was examined for coccidia. The tortoise was found to harbor an eimerian which is described as new. Sporulated oocysts of Eimeria iversoni n. sp. were ovoidal with a smooth, single-layered wall (∼ 0.5-0.8) that measured (L × W) 13.5 × 10.3 µm, with a length/width (L/W) ratio of 1.3; micropyle, oocyst residuum, and polar granule(s) were all absent; 2 conical projections were present on 1 end of oocyst and measured 1.0-1.5. Sporocysts were elongate-ellipsoidal and measured 8.3 × 4.5 µm, with L/W of 1.8; a Stieda body (∼ 0.5 high) was present, but substieda and parastieda bodies were absent; a sporocyst residuum was composed of 2-5 granules in a compact mass between sporozoites; sporozoites were banana-shaped and measured 9.5 × 2.5 in situ, with an ellipsoidal posterior refractile body and a spheroidal anterior refractile body. This is only the second time an eimerian has been reported from Galápagos tortoises.

Predicting the vulnerability of reservoirs to poor water quality and cyanobacterial blooms.

Cyanobacterial blooms in drinking water reservoirs present a major ecosystem functioning and human health issue. The ability to predict reservoir vulnerability to these blooms would provide information critical for decision making, hazard prevention and management. We developed a new, comparative index of vulnerability based on simple measures of reservoir and catchment characteristics, rather than water quality data, which were instead used to test the index's effectiveness. Testing was based on water quality data collected over a number of seasons and years from 15 drinking water reservoirs in subtropical, southeast Queensland. The index correlated significantly and strongly with algal cell densities, including potentially toxic cyanobacteria, as well as with the proportions of cyanobacteria in summer months. The index also performed better than each of the measures of reservoir and catchment characteristics alone, and as such, was able to encapsulate the physical characteristics of subtropical reservoirs, and their catchments, into an effective indicator of the vulnerability to summer blooms. This was further demonstrated by calculating the index for a new reservoir to be built within the study region. Under planned dimensions and land use, a comparatively high level of vulnerability was reached within a few years. However, the index score and the number of years taken to reach a similar level of vulnerability could be reduced simply by decreasing the percentage of grazing land cover via revegetation within the catchment. With climate change, continued river impoundment and the growing demand for potable water, our index has potential decision making benefits when planning future reservoirs to reduce their vulnerability to cyanobacterial blooms.