skip to main content


Title: Identifying Climatic Drivers of Hybridization with a New Ancestral Niche Reconstruction Method
Abstract Applications of molecular phylogenetic approaches have uncovered evidence of hybridization across numerous clades of life, yet the environmental factors responsible for driving opportunities for hybridization remain obscure. Verbal models implicating geographic range shifts that brought species together during the Pleistocene have often been invoked, but quantitative tests using paleoclimatic data are needed to validate these models. Here, we produce a phylogeny for Heuchereae, a clade of 15 genera and 83 species in Saxifragaceae, with complete sampling of recognized species, using 277 nuclear loci and nearly complete chloroplast genomes. We then employ an improved framework with a coalescent simulation approach to test and confirm previous hybridization hypotheses and identify one new intergeneric hybridization event. Focusing on the North American distribution of Heuchereae, we introduce and implement a newly developed approach to reconstruct potential past distributions for ancestral lineages across all species in the clade and across a paleoclimatic record extending from the late Pliocene. Time calibration based on both nuclear and chloroplast trees recovers a mid- to late-Pleistocene date for most inferred hybridization events, a timeframe concomitant with repeated geographic range restriction into overlapping refugia. Our results indicate an important role for past episodes of climate change, and the contrasting responses of species with differing ecological strategies, in generating novel patterns of range contact among plant communities and therefore new opportunities for hybridization. The new ancestral niche method flexibly models the shape of niche while incorporating diverse sources of uncertainty and will be an important addition to the current comparative methods toolkit. [Ancestral niche reconstruction; hybridization; paleoclimate; pleistocene.]  more » « less
Award ID(s):
1930030
PAR ID:
10429732
Author(s) / Creator(s):
; ; ; ; ; ; ; ; ;
Editor(s):
Eaton, Deren
Date Published:
Journal Name:
Systematic Biology
ISSN:
1063-5157
Format(s):
Medium: X
Sponsoring Org:
National Science Foundation
More Like this
  1. Abstract

    Many arctic‐alpine plant genera have undergone speciation during the Quaternary. The bases for these radiations have been ascribed to geographic isolation, abiotic and biotic differences between populations, and/or hybridization and polyploidization. The CordilleranCampanulaL. (Campanulaceae Juss.), a monophyletic clade of mostly endemic arctic‐alpine taxa from western North America, experienced a recent and rapid radiation. We set out to unravel the factors that likely influenced speciation in this group. To do so, we integrated environmental, genetic, and morphological datasets, tested biogeographic hypotheses, and analyzed the potential consequences of the various factors on the evolutionary history of the clade. We created paleodistribution models to identify potential Pleistocene refugia for the clade and estimated niche space for individual taxa using geographic and climatic data. Using 11 nuclear loci, we reconstructed a species tree and tested biogeographic hypotheses derived from the paleodistribution models. Finally, we tested 28 morphological characters, including floral, vegetative, and seed characteristics, for their capacity to differentiate taxa. Our results show that the combined effect of Quaternary climatic variation, isolation among differing environments in the mountains in western North America, and biotic factors influencing floral morphology contributed to speciation in this group during the mid‐Pleistocene. Furthermore, our biogeographic analyses uncovered asynchronous consequences of interglacial and glacial periods for the timing of refugial isolation within the southern and northwestern mountains, respectively. These findings have broad implications for understanding the processes promoting speciation in arctic‐alpine plants and the rise of numerous endemic taxa across the region.

     
    more » « less
  2. Functional traits of vertebrates can be used to infer paleoenvironmental conditions, allowing research into past climate changes and biotic responses. Birds are generally considered poor palaeoclimatic proxies due to their high vagility. Here, we analyze biogeographical and climatic niche information from multiple vertebrate groups including small mammals, reptiles, and birds to infer the paleoclimatic conditions present during the Late Pleistocene (~14,500–17,000 years BP) at Talara, an asphaltic paleontological locality on the northern Peruvian coast. We created Ecological Niche Models for the nearest living relative of each fossil species identified at Talara. We then used the Mutual Ecogeographic Range method, obtaining the overlapping area between distributions for each vertebrate group (birds, reptiles, and small mammals) as well as for combinations of groups, to infer the paleoclimate at Talara and to determinate what taxonomic groups are best for reconstructing climate in this system. Our analyses indicate that conditions at Talara were slightly cooler and significantly wetter than those of the present day. Individually, different vertebrate groups provide different paleoclimatic information. Birds were found to be a poor paleoclimatic proxy. Mammals were good for inferring paleoprecipitation but not paleotemperature. Reptiles were good group for inferring paleotemperature but not paleoprecipitation. While analyzing all vertebrate groups together yields the most robust conclusions, reptiles and small mammals combined are a good proxy for inferring both paleoprecipitation and paleotemperature. Our results suggest an interstadial period that agrees with paleotemperatures inferred from isotopic and sedimentary information. Our research indicates that today, the southern portion of the Cauca biogeographic province (230 km NE from Talara) has comparable climatic conditions to Late Pleistocene Talara. Understanding how the Talara region transitioned from this biodiverse ecosystem to the hyperarid coastal desert of today could have important implications for predicting biotic response and tipping points in the context of modern climate change. 
    more » « less
  3. Abstract

    We present a phylogeographic study of at least six reproductively isolated lineages of new world harvester ants within thePogonomyrmex barbatusandP. rugosusspecies group. The genetic and geographic relationships within this clade are complex: Four of the identified lineages show genetic caste determination (GCD) and are divided into two pairs. Each pair has evolved under a mutualistic system that necessitates sympatry. These paired lineages are dependent upon one another because theirGCDrequires interlineage matings for the production of F1 hybrid workers, and intralineage matings are required to produce queens. ThisGCDsystem maintains genetic isolation among these interdependent lineages, while simultaneously requiring co‐expansion and emigration as their distributions have changed over time. It has also been demonstrated that three of these fourGCDlineages have undergone historical hybridization, but the narrower sampling range of previous studies has left questions on the hybrid parentage, breadth, and age of these groups. Thus, reconstructing the phylogenetic and geographic history of this group allows us to evaluate past insights and hypotheses and to plan future inquiries in a more complete historical biogeographic context. Using mitochondrialDNAsequences sampled across most of the morphospecies’ ranges in the U.S.A. and Mexico, we conducted a detailed phylogeographic study. Remarkably, our results indicate that one of theGCDlineage pairs has experienced a dramatic range expansion, despite the genetic load and fitness costs of theGCDsystem. Our analyses also reveal a complex pattern of vicariance and dispersal inPogonomyrmexharvester ants that is largely concordant with models of late Miocene, Pliocene, and Pleistocene range shifts among various arid‐adapted taxa in North America.

     
    more » « less
  4. Abstract

    Although the impact of Pleistocene glacial cycles on the diversification of the tropical biota was once dismissed, increasing evidence suggests that Pleistocene climatic fluctuations greatly affected the distribution and population divergence of tropical organisms. Landscape genomic analyses coupled with paleoclimatic distribution models provide a powerful way to understand the consequences of past climate changes on the present‐day tropical biota. Using genome‐wide SNP data and mitochondrial DNA, combined with projections of the species distribution across the late Quaternary until the present, we evaluate the effect of paleoclimatic shifts on the genetic structure and population differentiation ofHypsiboas lundii, a treefrog endemic to the South American Cerrado savanna. Our results show a recent and strong genetic divergence inH. lundiiacross the Cerrado landscape, yielding four genetic clusters that do not seem congruent with any current physical barrier to gene flow. Isolation by distance (IBD) explains some of the population differentiation, but we also find strong support for past climate changes promoting range shifts and structuring populations even in the presence of IBD. Post‐Pleistocene population persistence in four main areas of historical stable climate in the Cerrado seems to have played a major role establishing the present genetic structure of this treefrog. This pattern is consistent with a model of reduced gene flow in areas with high climatic instability promoting isolation of populations, defined here as “isolation by instability,” highlighting the effects of Pleistocene climatic fluctuations structuring populations in tropical savannas.

     
    more » « less
  5. Premise: A switch in pollinator can occur when a plant lineage enters a new habitat where the ancestral pollinator is less common and a novel pollinator is more common. Since pollinator communities vary according to environmental tolerances and availability of resources, there may be consistent associations between pollination mode and specific regions and habitats. Such associations can be studied in lineages that have experienced multiple pollinator transitions, representing evolutionary replicates. Methods: Our study focused on a large clade of Penstemon wildflower species in western North America that has repeatedly evolved hummingbird-adapted flowers from ancestral bee-adapted flowers. For each species, we estimated geographic ranges from occurrence data and inferred environmental niches from climate, topographical, and soil data. Using a phylogenetic comparative approach, we investigated whether hummingbird-adapted species occupy distinct geographic regions or habitats relative to beeadapted species. Results: Hummingbird-adapted species occur at lower latitudes and lower elevations than bee-adapted species, resulting in a difference in their environmental niche. Hummingbird-adapted species seem to evolve in lineages that previously adapted to lower latitudes and elevations, since bee-adapted species sister to hummingbird-adapted species also occur in these regions and habitats. Sister species pairs – regardless of whether they differ in pollinator – show relatively little geographic range overlap. Conclusions: Adaptation to a novel pollinator may often occur in geographic and ecological isolation from ancestral populations. The ability of a given lineage to adapt to novel pollinators may critically depend on its ability to colonize regions and habitats associated with novel pollinator communities. 
    more » « less