2018
Hipp, Andrew L.; Manos, Paul S.; González-Rodríguez, Antonio; Hahn, Marlene; Kaproth, Matthew; McVay, John D.; Avalos, Susana Valencia; Cavender-Bares, Jeannine
Sympatric parallel diversification of major oak clades in the Americas and the origins of Mexican species diversity Artículo de revista
En: New Phytologist, vol. 217, iss. 1, pp. 439-452, 2018, ISSN: 14698137.
Resumen | Enlaces | Etiquetas: American oaks, convergence, niche evolution, phylogeny, Quercus, restriction site-associated DNA sequencing (RAD-seq), sympatric parallel diversification, woody plants
@article{Hipp2018,
title = {Sympatric parallel diversification of major oak clades in the Americas and the origins of Mexican species diversity},
author = {Andrew L. Hipp and Paul S. Manos and Antonio González-Rodríguez and Marlene Hahn and Matthew Kaproth and John D. McVay and Susana Valencia Avalos and Jeannine Cavender-Bares},
doi = {10.1111/nph.14773},
issn = {14698137},
year = {2018},
date = {2018-01-01},
journal = {New Phytologist},
volume = {217},
issue = {1},
pages = {439-452},
publisher = {Blackwell Publishing Ltd},
abstract = {Oaks (Quercus, Fagaceae) are the dominant tree genus of North America in species number and biomass, and Mexico is a global center of oak diversity. Understanding the origins of oak diversity is key to understanding biodiversity of northern temperate forests. A phylogenetic study of biogeography, niche evolution and diversification patterns in Quercus was performed using 300 samples, 146 species. Next-generation sequencing data were generated using the restriction-site associated DNA (RAD-seq) method. A time-calibrated maximum likelihood phylogeny was inferred and analyzed with bioclimatic, soils, and leaf habit data to reconstruct the biogeographic and evolutionary history of the American oaks. Our highly resolved phylogeny demonstrates sympatric parallel diversification in climatic niche, leaf habit, and diversification rates. The two major American oak clades arose in what is now the boreal zone and radiated, in parallel, from eastern North America into Mexico and Central America. Oaks adapted rapidly to niche transitions. The Mexican oaks are particularly numerous, not because Mexico is a center of origin, but because of high rates of lineage diversification associated with high rates of evolution along moisture gradients and between the evergreen and deciduous leaf habits. Sympatric parallel diversification in the oaks has shaped the diversity of North American forests.},
keywords = {American oaks, convergence, niche evolution, phylogeny, Quercus, restriction site-associated DNA sequencing (RAD-seq), sympatric parallel diversification, woody plants},
pubstate = {published},
tppubtype = {article}
}
Oaks (Quercus, Fagaceae) are the dominant tree genus of North America in species number and biomass, and Mexico is a global center of oak diversity. Understanding the origins of oak diversity is key to understanding biodiversity of northern temperate forests. A phylogenetic study of biogeography, niche evolution and diversification patterns in Quercus was performed using 300 samples, 146 species. Next-generation sequencing data were generated using the restriction-site associated DNA (RAD-seq) method. A time-calibrated maximum likelihood phylogeny was inferred and analyzed with bioclimatic, soils, and leaf habit data to reconstruct the biogeographic and evolutionary history of the American oaks. Our highly resolved phylogeny demonstrates sympatric parallel diversification in climatic niche, leaf habit, and diversification rates. The two major American oak clades arose in what is now the boreal zone and radiated, in parallel, from eastern North America into Mexico and Central America. Oaks adapted rapidly to niche transitions. The Mexican oaks are particularly numerous, not because Mexico is a center of origin, but because of high rates of lineage diversification associated with high rates of evolution along moisture gradients and between the evergreen and deciduous leaf habits. Sympatric parallel diversification in the oaks has shaped the diversity of North American forests.
Hipp, Andrew L.; Manos, Paul S.; González-Rodríguez, Antonio; Hahn, Marlene; Kaproth, Matthew; McVay, John D.; Avalos, Susana Valencia; Cavender-Bares, Jeannine
Sympatric parallel diversification of major oak clades in the Americas and the origins of Mexican species diversity Artículo de revista
En: New Phytologist, vol. 217, iss. 1, pp. 439-452, 2018, ISSN: 14698137.
Resumen | Enlaces | Etiquetas: American oaks, convergence, niche evolution, phylogeny, Quercus, restriction site-associated DNA sequencing (RAD-seq), sympatric parallel diversification, woody plants
@article{Hipp2018b,
title = {Sympatric parallel diversification of major oak clades in the Americas and the origins of Mexican species diversity},
author = {Andrew L. Hipp and Paul S. Manos and Antonio González-Rodríguez and Marlene Hahn and Matthew Kaproth and John D. McVay and Susana Valencia Avalos and Jeannine Cavender-Bares},
doi = {10.1111/nph.14773},
issn = {14698137},
year = {2018},
date = {2018-01-01},
journal = {New Phytologist},
volume = {217},
issue = {1},
pages = {439-452},
publisher = {Blackwell Publishing Ltd},
abstract = {Oaks (Quercus, Fagaceae) are the dominant tree genus of North America in species number and biomass, and Mexico is a global center of oak diversity. Understanding the origins of oak diversity is key to understanding biodiversity of northern temperate forests. A phylogenetic study of biogeography, niche evolution and diversification patterns in Quercus was performed using 300 samples, 146 species. Next-generation sequencing data were generated using the restriction-site associated DNA (RAD-seq) method. A time-calibrated maximum likelihood phylogeny was inferred and analyzed with bioclimatic, soils, and leaf habit data to reconstruct the biogeographic and evolutionary history of the American oaks. Our highly resolved phylogeny demonstrates sympatric parallel diversification in climatic niche, leaf habit, and diversification rates. The two major American oak clades arose in what is now the boreal zone and radiated, in parallel, from eastern North America into Mexico and Central America. Oaks adapted rapidly to niche transitions. The Mexican oaks are particularly numerous, not because Mexico is a center of origin, but because of high rates of lineage diversification associated with high rates of evolution along moisture gradients and between the evergreen and deciduous leaf habits. Sympatric parallel diversification in the oaks has shaped the diversity of North American forests.},
keywords = {American oaks, convergence, niche evolution, phylogeny, Quercus, restriction site-associated DNA sequencing (RAD-seq), sympatric parallel diversification, woody plants},
pubstate = {published},
tppubtype = {article}
}
Oaks (Quercus, Fagaceae) are the dominant tree genus of North America in species number and biomass, and Mexico is a global center of oak diversity. Understanding the origins of oak diversity is key to understanding biodiversity of northern temperate forests. A phylogenetic study of biogeography, niche evolution and diversification patterns in Quercus was performed using 300 samples, 146 species. Next-generation sequencing data were generated using the restriction-site associated DNA (RAD-seq) method. A time-calibrated maximum likelihood phylogeny was inferred and analyzed with bioclimatic, soils, and leaf habit data to reconstruct the biogeographic and evolutionary history of the American oaks. Our highly resolved phylogeny demonstrates sympatric parallel diversification in climatic niche, leaf habit, and diversification rates. The two major American oak clades arose in what is now the boreal zone and radiated, in parallel, from eastern North America into Mexico and Central America. Oaks adapted rapidly to niche transitions. The Mexican oaks are particularly numerous, not because Mexico is a center of origin, but because of high rates of lineage diversification associated with high rates of evolution along moisture gradients and between the evergreen and deciduous leaf habits. Sympatric parallel diversification in the oaks has shaped the diversity of North American forests.
2015
Eaton, Deren A. R.; Hipp, Andrew L.; González-Rodríguez, Antonio; Cavender-Bares, Jeannine
Historical introgression among the American live oaks and the comparative nature of tests for introgression Artículo de revista
En: Evolution, vol. 69, iss. 10, pp. 2587-2601, 2015, ISSN: 15585646.
Resumen | Enlaces | Etiquetas: Admixture, Cuba, Hybridization, phylogeny, Quercus, RADseq
@article{Eaton2015,
title = {Historical introgression among the American live oaks and the comparative nature of tests for introgression},
author = {Deren A. R. Eaton and Andrew L. Hipp and Antonio González-Rodríguez and Jeannine Cavender-Bares},
doi = {10.1111/evo.12758},
issn = {15585646},
year = {2015},
date = {2015-01-01},
journal = {Evolution},
volume = {69},
issue = {10},
pages = {2587-2601},
abstract = {Introgressive hybridization challenges the concepts we use to define species and infer phylogenetic relationships. Methods for inferring historical introgression from the genomes of extant species, such as ABBA-BABA tests, are widely used, however, their results can be easily misinterpreted. Because these tests are inherently comparative, they are sensitive to the effects of missing data (unsampled species) and nonindependence (hierarchical relationships among species). We demonstrate this using genomic RADseq data sampled from all extant species in the American live oaks (Quercus series Virentes), a group notorious for hybridization. By considering all species and their phylogenetic relationships, we were able to distinguish true hybridizing lineages from those that falsely appear admixed. Six of seven species show evidence of admixture, often with multiple other species, but which is explained by introgression among a few related lineages occurring in close proximity. We identify the Cuban oak as the most admixed lineage and test alternative scenarios for its origin. The live oaks form a continuous ring-like distribution around the Gulf of Mexico, connected in Cuba, across which they could effectively exchange alleles. However, introgression appears highly localized, suggesting that oak species boundaries and their geographic ranges have remained relatively stable over evolutionary time.},
keywords = {Admixture, Cuba, Hybridization, phylogeny, Quercus, RADseq},
pubstate = {published},
tppubtype = {article}
}
Introgressive hybridization challenges the concepts we use to define species and infer phylogenetic relationships. Methods for inferring historical introgression from the genomes of extant species, such as ABBA-BABA tests, are widely used, however, their results can be easily misinterpreted. Because these tests are inherently comparative, they are sensitive to the effects of missing data (unsampled species) and nonindependence (hierarchical relationships among species). We demonstrate this using genomic RADseq data sampled from all extant species in the American live oaks (Quercus series Virentes), a group notorious for hybridization. By considering all species and their phylogenetic relationships, we were able to distinguish true hybridizing lineages from those that falsely appear admixed. Six of seven species show evidence of admixture, often with multiple other species, but which is explained by introgression among a few related lineages occurring in close proximity. We identify the Cuban oak as the most admixed lineage and test alternative scenarios for its origin. The live oaks form a continuous ring-like distribution around the Gulf of Mexico, connected in Cuba, across which they could effectively exchange alleles. However, introgression appears highly localized, suggesting that oak species boundaries and their geographic ranges have remained relatively stable over evolutionary time.
2013
Petit, Rémy J.; Carlson, John; Curtu, Alexandru L.; Loustau, Marie Laure; Plomion, Christophe; González-Rodríguez, Antonio; Sork, Victoria; Ducousso, Alexis
Fagaceae trees as models to integrate ecology, evolution and genomics Artículo de revista
En: New Phytologist, vol. 197, iss. 2, pp. 369-371, 2013, ISSN: 0028646X.
Enlaces | Etiquetas: Biotic interactions, Bud burst, Hybridization, Modelling, phenology, phylogeny, speciation, Whole genome sequencing
@article{Petit2013,
title = {Fagaceae trees as models to integrate ecology, evolution and genomics},
author = {Rémy J. Petit and John Carlson and Alexandru L. Curtu and Marie Laure Loustau and Christophe Plomion and Antonio González-Rodríguez and Victoria Sork and Alexis Ducousso},
doi = {10.1111/nph.12089},
issn = {0028646X},
year = {2013},
date = {2013-01-01},
journal = {New Phytologist},
volume = {197},
issue = {2},
pages = {369-371},
keywords = {Biotic interactions, Bud burst, Hybridization, Modelling, phenology, phylogeny, speciation, Whole genome sequencing},
pubstate = {published},
tppubtype = {article}
}