Integrating Phylogenetics and Environmental Niche Models to Explore Speciation Mechanisms in Dendrobatid Frogs

Graham, Catherine H.; Ron, Santiago R.; Santos, Juan Carlos; Schneider, Christopher J.; Moritz, Craig

doi:10.1554/03-274

Cited by 226 publications

(365 citation statements)

References 40 publications

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“…We suggest that these groups could fit the cradle hypothesis (Fjeldså, 1994;Hutter et al, 2013). As proposed by Graham et al (2004) and Hughes and Eastwood (2006), the geographical heterogeneity favoured the geographic diversification where the Cordilleras acted as a barrier, although, the asynchronous North Andean uplift (Case et al, 1990;Cooper et al, 1995;Hoorn et al, 1995) also generated the opportunity for diversification at different times.…”

Section: Leptodeirasupporting

confidence: 62%

Diversification patterns in the North Andean Block: a perspective from biogeographical hypotheses

Ortiz

Miranda-Esquivel

2017

Preprint

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Aim To identify the possible pattern(s) of diversification, occurring in the North AndeanBlock and the correspondence of the geological scenario to the diversification.Location North Andean Block (NAB) and adjacent areas.Methods We used 637 species from six taxonomic classes to estimate phylogenetic relationships, divergence times, dispersal-vicariance events, and ancestral distributions.We assessed four hypotheses that explain the diversification in the NAB. For each hypothesis, we specified: three sets of unequal rates of dispersal between areas and a temporal stratification, containing four-time intervals for the Miocene.

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Section: Leptodeirasupporting

confidence: 62%

Diversification patterns in the North Andean Block: a perspective from biogeographical hypotheses

Ortiz

Miranda-Esquivel

2017

Preprint

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“…Because the ecology of E. ockendeni is likely similar to numerous upper Amazonian terrestrial, direct-developing Eleutherodactylus frogs, the pattern we identified here of continuous population IBD and high genetic polymorphism may be a general pattern of population structure at these small scales. If this restricted gene flow is a product of the limited vagility of neotropical terrestrial amphibians, generally, then this may be a factor of natural history that promotes allopatric or parapatric speciation in these taxa (also suggested by, for example, Garcia-Paris et al, 2000; Graham et al, 2004;Wake, 2005) and may ultimately underlie the high biodiversity in the area.…”

Section: Assessing Genetic Diversitymentioning

confidence: 99%

Applying new inter-individual approaches to assess fine-scale population genetic diversity in a neotropical frog, Eleutherodactylus ockendeni

2007

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We assess patterns of genetic diversity of a neotropical leaflitter frog, Eleutherodactylus ockendeni, in the upper Amazon of Ecuador without a priori delineation of biological populations and with sufficiently intensive sampling to assess inter-individual patterns. We mapped the location of each collected frog across a 5.4 Â 1 km landscape at the Jatun Sacha Biological Station, genotyped 185 individuals using five species-specific DNA microsatellite loci, and sequenced a fragment of mitochondrial cytochrome b for a subset of 51 individuals. The microsatellites were characterized by high allelic diversity and homozygote excess across all loci, suggesting that when pooled the sample is not a panmictic population. We conclude that the lack of panmixia is not attributable to the influence of null alleles or biased sampling of consanguineous family groups. Multiple methods of population cluster analysis, using both Bayesian and maximum likelihood approaches, failed to identify discrete genetic clusters across the sampled area. Using multivariate spatial autocorrelation, kinship coefficients and relatedness coefficients, we identify a continuous isolation by distance population structure, with a first patch size of ca. 260 m and apparently large population sizes. Analysis of mtDNA corroborates the observation of high genetic diversity at fine scales: there are multiple haplotypes, they are non-randomly distributed and a binary haplotype correlogram shows significant spatial genetic autocorrelation. We demonstrate the utility of inter-individual genetic methods and caution against making a priori assumptions about population genetic structure based simply on arbitrary or convenient patterns of sampling.

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“…3). The degree of overlap between species in climate space has been used to infer speciation processes, such as allopatric speciation (5,15). However, our example of two clades (Triturus, Lissotriton) with similar distributional patterns, but arising from different evolutionary processes, challenges such an approach.…”

Section: Discussionmentioning

confidence: 99%

“…Averages may not adequately represent variation within a species and might be biased because of incomplete sampling across the species range (19). Alternatively, several coding strategies for continuous variables have been proposed (15, 19 -22), and among them, MaxMin coding has been used to infer ancestral climatic ranges in a phylogenetic context (15,19). This approach reconstructs the minimum and maximum values independently for each internal node in the topology, and those values are used to infer the climatic range for ancestral species.…”

Section: Ancestral State Reconstruction Of Salamander Climate Envelopesmentioning

confidence: 99%

“…Ancestral-state reconstruction methods for continuous traits assume that each trait evolves according to a stochastic Brownian motion process, with a probability of change along a branch proportional to the length of the branch (21). Although many papers show ancestral-state reconstructions of environmental niche components using this model (15,19,23,24), they fail to provide tests showing whether their data fit this model of evolution, whereas others do not provide an explicit model for niche reconstructions (25,26). The different hypotheses tested with our model for scaling parameters showed a deviation from a Brownian model.…”

Section: Ancestral State Reconstruction Of Salamander Climate Envelopesmentioning

confidence: 99%

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Reconstruction of the climate envelopes of salamanders and their evolution through time

Vieites

Nieto-Román

Wake

2009

Proc. Natl. Acad. Sci. U.S.A.

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Ecological niches evolve through time, but at different rates and to different degrees. An integrated approach using diverse databases, methods, and analytical tools is used to estimate climate envelopes for species of salamanders (family Salamandridae). These species, which range widely across the Holarctic and have a rich and long fossil record, are used to probe the evolutionary dynamics of niches studied in a phylogenetic context through time and across space. Climate data and statistical methods are used to estimate niche dimensions related to precipitation and temperature, in both a phylogenetic and ecogeographic context. Using phylogenetic methods, climate envelopes are estimated for segments of a time-calibrated phylogenetic tree of salamandrids, to explore how far back in time it is reasonable to make such estimates. Our research strategy illuminates some of the challenges and limitations of the available data and methods and identifies potential solutions, such as the need for physiological and behavioral data that may help to better define species' niches or the development of novel evolutionary models that account for paleoclimatic data. We explore and analyze limits to the application of currently available methodologies. Organisms known to have evolved slowly and conservatively, and which are ectotherms and likely to be profoundly affected by climatic variables, may be the most useful for studies of this kind.Grinnellian niches ͉ niche evolution ͉ phylogenetic analysis ͉ Salamandridae

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Integrating Phylogenetics and Environmental Niche Models to Explore Speciation Mechanisms in Dendrobatid Frogs

Cited by 226 publications

References 40 publications

Diversification patterns in the North Andean Block: a perspective from biogeographical hypotheses

Diversification patterns in the North Andean Block: a perspective from biogeographical hypotheses

Applying new inter-individual approaches to assess fine-scale population genetic diversity in a neotropical frog, Eleutherodactylus ockendeni

Reconstruction of the climate envelopes of salamanders and their evolution through time

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