A phylogenomic perspective on the biogeography of skinks in the Plestiodon brevirostris group inferred from target enrichment of ultraconserved elements
Por:
Bryson, Jr., Robert W., Linkem, Charles W., Pavon-Vazquez, Carlos J., Nieto-Montes de Oca, Adrian, Klicka, John, McCormack, John E.
Publicada:
1 sep 2017
Resumen:
Aim The aim of our study was to reconstruct ancestral geographic
distributions from time-calibrated phylogenies generated from
phylogenomic data to answer three broad questions about the biogeography
of skinks in the Plestiodon brevirostris group: (1) Are biogeographic
patterns correlated with the formation of the TransMexican Volcanic
Belt? (2) Do different methods of phylogenetic estimation result in
different topologies? If so, (3) are biogeographic reconstructions
impacted by the use of different phylogenetic trees?
Location Mexico.
Methods We used target enrichment of ultraconserved elements (UCEs) to
obtain sequence data from 58 skinks representing 11 of the 13 described
species in the group. We estimated time-calibrated phylogenies using
concatenated and multi-species coalescent phylogenetic approaches. We
used these phylogenies to reconstruct ancestral geographic
distributions.
Results The final dataset contained 3,282 UCEs from each skink. Samples
of each putative species formed well-supported clades in phylogenetic
trees. Time-calibrated phylogenies estimated using concatenated and
multispecies coalescent methods were generally congruent, but differed
in the placement of one basal relationship. Divergences in the P.
brevirostris group were temporally and spatially congruent with the
pre-Pleistocene formation of the Trans-Mexican Volcanic Belt. The group
most likely colonized the Mexican highlands from east to west during the
Late Miocene and Pliocene. Inferences about the early biogeographic
history of the group were confounded by the unresolved placement of a
key phylogenetic relationship deep in the phylogeny.
Conclusions Skinks in the P. brevirostris group represent another
example of a widespread montane Mexican taxon with a long history of
pre-Pleistocene diversification associated with the primary formation of
the Trans-Mexican Volcanic Belt. This mountain range seems to have been
both a cradle of diversification for P. brevirostris group species and a
land bridge facilitating dispersal across the Mexican highlands. Our
results highlight the probable existence of new species within the P.
brevirostris complex and suggest that querying a large portion of the
genome may be critically important for studying the biogeographic
history of these skinks. However, inferred differences between the
concatenated and multispecies coalescent phylogenies, and the different
biogeographic histories of the P. brevirostris group reconstructed from
these phylogenies, caution that methods of estimating phylogenetic trees
used in biogeographic reconstructions need to be carefully considered.
Filiaciones:
Linkem, Charles W.:
Univ Washington, Dept Biol, Box 351800, Seattle, WA 98195 USA
Pavon-Vazquez, Carlos J.:
Univ Nacl Autonoma Mexico, Fac Ciencias, Dept Biol Evolut, Lab Herpetol,Museo Zool, Apartado Postal 70-153, Mexico City 04510, DF, Mexico
Nieto-Montes de Oca, Adrian:
Univ Nacl Autonoma Mexico, Fac Ciencias, Dept Biol Evolut, Lab Herpetol,Museo Zool, Apartado Postal 70-153, Mexico City 04510, DF, Mexico
Klicka, John:
Univ Washington, Dept Biol, Box 351800, Seattle, WA 98195 USA
Univ Washington, Burke Museum Nat Hist & Culture, Box 351800, Seattle, WA 98195 USA
McCormack, John E.:
Occidental Coll, Moore Lab Zool, 1600 Campus Rd, Los Angeles, CA 90041 USA
|