Publicaciones

@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}

}

@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}

}

@article{Albarran-Lara2010,

title = {Leaf fluctuating asymmetry increases with hybridization and introgression between quercus magnoliifolia and quercus resinosa (fagaceae) through an altitudinal gradient in Mexico},

author = {Ana Luisa Albarrán-Lara and Luis Mendoza-Cuenca and Susana Valencia-Avalos and Antonio González-Rodríguez and Ken Oyama},

doi = {10.1086/650317},

issn = {10585893},

year  = {2010},

date = {2010-01-01},

journal = {International Journal of Plant Sciences},

volume = {171},

issue = {3},

pages = {310-322},

abstract = {We tested the effects of hybridization and introgression on the levels of leaf fluctuating asymmetry (FA) in a hybrid zone between Quercus magnoliifolia and Quercus resinosa at the Tequila volcano, Jalisco state, Mexico, in which the species are distributed along an altitudinal gradient ranging from 1400 to 2100 m. Bayesian clustering analysis was performed with STRUCTURE on data for eight nuclear microsatellite loci to assign individuals from reference populations and from the hybrid zone to pure or hybrid genotypic classes. To test the performance of the assignment procedure and to determine optimal thresholds for genetic assignment pure, hybrid and backcrossed genotypes were simulated (from the allelic frequencies found in real pure populations of the two species) and reanalyzed with STRUCTURE. Leaf FA and morphological identification of parental and hybrid individuals were obtained using geometric morphometric techniques. We found genetic and morphological evidence of a hybrid zone by secondary contact at the Tequila volcano. The genotypes and phenotypes were significantly correlated with altitude along the mountain, but no correlation between them was found. FA was higher in F1 hybrids and backcrossed genotypes than in pure species. Levels of FA were more correlated with the proportion of genetic ancestry of each individual than with leaf morphology or altitude, supporting the hypothesis that hybridization is associated with development instability potentially caused by disruption of coadapted gene complexes characteristic of each species. © 2010 by The University of Chicago. All rights reserved.},

keywords = {Genetic assignment, Hybridization, introgression, Leaf fluctuating asymmetry, Quercus.},

pubstate = {published},

tppubtype = {article}

}

@article{Penaloza-Ramirez2010,

title = {Interspecific gene flow in a multispecies oak hybrid zone in the Sierra Tarahumara of Mexico.},

author = {Juan Manuel Peñaloza-Ramírez and Antonio González-Rodríguez and Luis Mendoza-Cuenca and Henri Caron and Antoine Kremer and Ken Oyama},

doi = {10.1093/aob/mcp301},

issn = {10958290},

year  = {2010},

date = {2010-01-01},

journal = {Annals of botany},

volume = {105},

issue = {3},

pages = {389-399},

abstract = {BACKGROUND AND AIMS: Interspecific gene flow can occur in many combinations among species within the genus Quercus, but simultaneous hybridization among more than two species has been rarely analysed. The present study addresses the genetic structure and morphological variation in a triple hybrid zone formed by Q. hypoleucoides, Q. scytophylla and Q. sideroxyla in north-western Mexico. METHODS: A total of 247 trees from ten reference and 13 presumed intermediate populations were characterized using leaf shape variation and geometric morphometrics, and seven nuclear microsatellites as genetic markers. Discriminant function analysis was performed for leaf shape variation, and estimates of genetic diversity and structure, and individual Bayesian genetic assignments were obtained. KEY RESULTS: Reference populations formed three completely distinct groups according to discriminant function analysis based on the morphological data, and showed low, but significant, genetic differentiation. Populations from the zone of contact contained individuals morphologically intermediate between pairs of species in different combinations, or even among the three species. The Bayesian admixture analysis found that three main genetic clusters best fitted the data, with good correspondence of reference populations of each species to one of the genetic clusters, but various degrees of admixture evidenced in populations from the contact area. CONCLUSIONS: The three oak species have formed a complex hybrid zone that is geographically structured as a mosaic, and comprising a wide range of genotypes, including hybrids between different species pairs, backcrosses and probable triple hybrids.},

keywords = {altitudinal cline, Hybridization, introgression, leaf shape variation, Mexico, nuclear microsatellites, quercus hypoleucoides, quercus scytophylla, quercus sideroxyla, red oak},

pubstate = {published},

tppubtype = {article}

}

@article{Scareli-Santos2007,

title = {Comparative analysis of micromorphological characters in two distantly related Mexican oaks, Quercus conzattii and Q. eduardii (Fagaceae), and their hybrids},

author = {Claudia Scareli-Santos and María Luisa Herrera-Arroyo and María L. Sánchez-Mondragón and Antonio González-Rodríguez and Jeffrey Bacon and Ken Oyama},

doi = {10.1663/0007-196X(2007)59[37:CAOMCI]2.0.CO;2},

issn = {0007196X},

year  = {2007},

date = {2007-01-01},

journal = {Brittonia},

volume = {59},

issue = {1},

pages = {37-48},

abstract = {Interspecific hybridization occurs with high frequency in the genus Quercus, but few studies have analyzed and compared micromorphological characters in putative parental species and their hybrids, Quercus eduardii and Q. conzattii are two Mexican black oak species that, although distantly related, have formed at least one population of hybrid origin, where individuals with intermediate macromorphology are present. The purpose of this investigation was to analyze the degree of differentiation in micromorphological characters between the two species and to assess the expression of these characters in individuals with intermediate macromorphology. Foliar trichomes, epicuticular waxes, stomata, and pollen grains, were examined using scanning electron microscopy (SEM) in the three types of individuals (Q. conzattii, Q. eduardii, and intermediates). Trichome density was quantified with light microscopy. Types of trichomes present, length of trichome arms, types of epicuticular wax on the leaf surfaces, and the position of stomata with respect to the foliar surface were characters useful to differentiate between Q. conzattii and Q. eduardii. Plants with intermediate macromorphology displayed a pattern of micromorphological characters that were identical to one parental species (Q. conzattii), or extreme or novel relative to both species. © 2007, by The New York Botanical Garden Press.},

keywords = {Epicuticular wax, Hybridization, Micromorphology, Pollen, Quercus, SEM, Trichomes},

pubstate = {published},

tppubtype = {article}

}

@article{Gonzalez-Rodriguez2005,

title = {Genetic variation and differentiation of populations within the Quercus affinis - Quercus laurina (Fagaceae) complex analyzed with RAPD markers},

author = {Antonio González-Rodríguez and Dulce M. Arias and Ken Oyama},

doi = {10.1139/B04-162},

issn = {00084026},

year  = {2005},

date = {2005-01-01},

journal = {Canadian Journal of Botany},

volume = {83},

issue = {2},

pages = {155-162},

abstract = {The population genetics of two hybridizing Mexican red oaks, Quercus affinis Schweid. and Quercus laurina Humb. & Bonpl., was investigated with 54 randomly amplified polymorphic DNA (RAPD) markers scored in 415 individuals from 16 populations representing the distribution area of the two species and a probable secondary hybrid zone. Genetic relationships among populations, depicted in a unweighted pair group method with arithmetic averaging (UPGMA) dendrogram, were largely incongruent with the morphological classification of populations as Q. affinis-like or Q. laurina-like that was obtained in previous studies. In contrast, the two main population clusters in the UPGMA dendrogram corresponded to the location of populations in two distinct geographical areas: southwestern and northeastern. A Mantel test confirmed a significant association between geographic and genetic distances among populations. Analyses of molecular variance (AMOVA) indicated that most genetic variation is contained within populations (84%), while 10.5% (P < 0.0001) is among populations, and 5.1% (P = 0.007) is between the two morphological groups. Differentiation between the southwestern and northeastern geographical groups (as recognized by the UPGMA), was 7.8% (P < 0.0001). The incongruence between genetic and phenotypic patterns suggests that introgression of neutral markers has been considerable between the two species in the hybrid zone, while morphological differentiation has remained comparatively stable. © 2005 NRC.},

keywords = {Hybridization, Population genetics, Quercus, RAPD markers},

pubstate = {published},

tppubtype = {article}

}

@article{Gonzalez-Rodriguez2004,

title = {Chloroplast DNA variation in the Quercus affinis-Q. laurina complex in Mexico: Geographical structure and associations with nuclear and morphological variation},

author = {A. González-Rodríguez and J. F. Bain and J. L. Golden and K. Oyama},

doi = {10.1111/j.1365-294X.2004.02344.x},

issn = {09621083},

year  = {2004},

date = {2004-01-01},

journal = {Molecular Ecology},

volume = {13},

issue = {11},

pages = {3467-3476},

abstract = {The geographical distribution of chloroplast DNA (cpDNA) variation in 39 populations of two hybridizing Mexican red oaks, Quercus affinis and Q. laurina, was investigated using polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP). Six haplotypes were identified. Of these, two (H1 and H4), separated by four mutations, had high frequencies (58 and 23% of the individuals, respectively) and were present across the whole geographical range of both species, often co occurring in the same populations. The other four haplotypes were rare, geographically restricted, and are probably derived from the two frequent haplotypes. Latitudinal or other clinal patterns in diversity levels or haplotype composition of populations were not apparent. The pattern of haplotype distribution was characterized by some mosaicism, with contrasting populations often situated in proximity. Average within-population diversity (hS = 0.299) and population differentiation (GST = 0.499) were, respectively, higher and lower than values reported in previous studies of oak species. There was evidence for phylogeographical structure, as indicated by NST (0.566) being significantly higher than GST. Haplotypic variation was largely species-independent, although some very weak associations were detected between haplotypes H1 and H4 and morphological and nuclear molecular variation correspondingly characterizing Q. affinis and Q. laurina. These oaks probably did not experience a marked restriction to one or a few particular subregions of their present range during the last glacial cycle. It is more likely that substantial populations persisted throughout several episodes of climatic change, but experienced recurrent latitudinal and altitudinal migrations which may have caused the widespread distribution of haplotypes H1 and H4 and frequent intermixing of populations.},

keywords = {Chloroplast dna, Geographical structure, Hybridization, Mexico, Population history, Quercus},

pubstate = {published},

tppubtype = {article}

}

@article{Gonzalez-Rodriguez2004a,

title = {Morphological and RAPD analysis of hybridization between Quercus affinis and Q. laurina (Fagaceae), two Mexican red oaks},

author = {Antonio González-Rodríguez and Dulce M. Arias and Susana Valencia and Ken Oyama},

doi = {10.3732/ajb.91.3.401},

issn = {00029122},

year  = {2004},

date = {2004-01-01},

journal = {American Journal of Botany},

volume = {91},

issue = {3},

pages = {401-409},

abstract = {Quercus affinis and Q. laurina are two closely related Mexican red oaks with partially overlapping distributions. Within the area of overlap, there are localities where morphological intergradation occurs. A previous hypothesis explained this pattern as a result of secondary contact between the two species, followed by hybridization and introgression. This possibility was analyzed here by examining foliar and genetic variation in 16 localities situated along a macrogeographic gradient, which included morphologically representative populations of both species and populations from within the area of overlap. Maximum-likelihood hybrid index scores calculated from nine semi-diagnostic RAPD markers indicated a shift in the genetic composition of populations from one species to the other along the macrogeographic gradient, with genetically intermediate populations situated in the area of overlap. Foliar variation followed a partially congruent pattern, but Q. laurina-like morphology predominated in some of the genetically intermediate populations. There were several instances of correlated frequency changeovers of single RAPD markers and morphological characters along the macrogeographic gradient and a few cases of markedly parallel patterns between markers. The results were interpreted as consistent with a hypothesis of secondary contact between the two oak species that has resulted in some differential introgression among markers.},

keywords = {Hybrid zones, Hybridization, Quercus affinis, Quercus laurina, RAPD markers},

pubstate = {published},

tppubtype = {article}

}