Genome Sequence of a Ranavirus Isolated from a Red-Eared Slider (Trachemys scripta elegans) in Poland

ABSTRACT The red-eared slider (RES) ranavirus (RESRV) was isolated from a free-ranging RES turtle that died with evidence of respiratory disease. The RESRV genome sequence (106,878 bp) was determined, and phylogenetic analysis revealed that it is a common midwife toad virus (CMTV) strain. This study is the first report of CMTV in RES.

In-situ severe breeding habitat intervention only achieves temporary success in reducing Batrachochytrium dendrobatidis infection

Chytridiomycosis, an emerging infectious disease caused by the fungus Batrachochytrium dendrobatidis (Bd), is causing sharp declines in amphibian populations around the globe. A substantial research effort has been made to study the disease, including treatments against Bd, but most treatments have been applied to captive amphibians only. We report a study aimed at clearing wild populations of the Common Midwife toad Alytes obstetricans. We removed all larvae from natural breeding sites (cattle troughs) and conducted two types of severe breeding habitat manipulation (complete drying and fencing for the whole breeding season). While larval removal followed by drying was a successful method of Bd elimination, the effect was only temporary. Since terrestrial habits of adult A. obstetricans prevent them from infection, our findings suggest that, even in simple breeding habitats where all aquatic amphibian stages can be handled and extreme habitat intervention is possible, Bd cannot be eliminated without controlling other potential Bd reservoirs in the surroundings of breeding sites.

Hybrid zone genomics supports candidate species in Iberian Alytes obstetricans

While estimates of genetic divergence are increasingly used in molecular taxonomy, hybrid zone analyses can provide decisive evidence for evaluating candidate species. Applying a population genomic approach (RAD-sequencing) to a fine-scale transect sampling, we analyzed the transition between two Iberian subspecies of the common midwife toad (Alytes obstetricans almogavarii and A. o. pertinax) in Catalonia (northeastern Spain), which putatively diverged since the Plio-Pleistocene. Their hybrid zone was remarkably narrow, with extensive admixture restricted to a single locality (close to Tarragona), and congruent allele frequency clines for the mitochondrial (13 km wide) and the average nuclear genomes (16 km wide). We also fitted clines independently for 89 taxon-diagnostic SNPs: most of them behave like the nuclear background, but a subset (13%) is completely impermeable to gene flow and might be linked to barrier loci involved in hybrid incompatibilities. Assuming that midwife toads are able to disperse in the area of contact, we conclude that these taxa experience partial reproductive isolation and represent incipient species, i.e. Alytes almogavarii and Alytes obstetricans. Interestingly, their evolutionary age and mitochondrial divergence fall below the thresholds proposed in molecular systematics studies, emphasizing the difficulty of predicting the outcome of secondary contacts between young lineages entering the grey zone of speciation.

Midwife toads (Alytes obstetricans) select their diurnal refuges based on hydric and thermal properties

Most amphibians use both aquatic and terrestrial habitats. While the aquatic phase attracted considerable interest, terrestrial habitat use is often less investigated. We studied diurnal refuge selection in the Midwife toad in Western central France. We used a factorial design and tested the effect of refuge type (wood versus rubber boards) and substrate (wet sawdust versus bare soil). Most animals were observed under refuges with sawdust substrate. An interaction between refuge type and temperature was detected with higher presence probability under rubber refuges at low temperature. Conflicting hydric and thermic requirements are likely determinants of the observed pattern.

Frog Virus 3 Genomes Reveal Prevalent Recombination between Ranavirus Lineages and Their Origins in Canada

ABSTRACT Ranaviruses are pathogens associated with the decline of amphibian populations across much of their distribution. In North America, frog virus 3 (FV3) is a widely distributed pathogen with wild populations of amphibians harboring different lineages and putative recombinants between FV3 and common midwife toad virus (CMTV). These recombinants have higher pathogenicity, and CMTV-derived genes associated with virulence are reported in wild strains in Canada. However, while FV3 is linked to amphibian die-offs in North America, CMTVs have been reported only in commercial frog farms in North America. We sequenced complete genomes of 18 FV3 isolates from three amphibian species to characterize genetic diversity of the lineages in Canada and infer possible recombinant regions. The 18 FV3 isolates displayed different signals of recombination, varying from none to interspersed recombination with previously isolated CMTV-like viruses. In general, most recombination breakpoints were located within open reading frames (ORFs), generating new ORFs and proteins that were a mixture between FV3 and CMTV. A combined spatial and temporal phylogeny suggests the presence of the FV3 lineage in Canada is relatively contemporary (<100 years), corroborating the hypothesis that both CMTV- and FV3-like viruses spread to North America when the international commercial amphibian trade started. Our results highlight the importance of pathogen surveillance and viral dynamics using full genomes to more clearly understand the mechanisms of disease origin and spread. IMPORTANCE Amphibian populations are declining worldwide, and these declines have been linked to a number of anthropogenic factors, including disease. Among the pathogens associated with amphibian mortality, ranaviruses have caused massive die-offs across continents. In North America, frog virus 3 (FV3) is a widespread ranavirus that can infect wild and captive amphibians. In this study, we sequenced full FV3 genomes isolated from frogs in Canada. We report widespread recombination between FV3 and common midwife toad virus (CMTV). Phylogenies indicate a recent origin for FV3 in Canada, possibly as a result of international amphibian trade.