Publicaciones

@article{nokey,

title = {Genetic structure, phylogeography and potential distribution modeling suggest a population expansion in the mesquite Prosopis laevigata since the last interglacial},

author = {Gonzalo Contreras-Negrete and Luis Letelier and Javier Piña-Torres and Antonio González-Rodríguez},

doi = {10.1007/s00606-021-01744-5},

issn = {16156110},

year  = {2021},

date = {2021-01-01},

journal = {Plant Systematics and Evolution},

volume = {307},

issue = {2},

publisher = {Springer},

abstract = {Patterns of genetic and phylogeographic structure and recent population history of plant species in the Mexican arid zones have been scarcely investigated. Prosopis laevigata is the most widely spread species of mesquite in Mexico, with extensive populations in the arid and semiarid zones of the central and northern plateaus and scattered presence in southern Mexico. We evaluated the genetic and phylogeographic structure of this species to infer its recent demographic history. We genotyped six nuclear microsatellite loci and sequenced the psbA3´-trnH chloroplast DNA (cpDNA) region in individuals from 21 populations covering the whole distribution of the species. Nuclear genetic diversity was moderately high (HE = 0.527), and genetic differentiation was moderate (FST = 0.16). A positive correlation between genetic diversity and latitude was observed. The cpDNA analyses indicated a lack of phylogeographic structure in P. laevigata (GST = 0.090},

keywords = {arid zones, Phylogeography, Population expansion, Population genetics, Prosopis},

pubstate = {published},

tppubtype = {article}

}

@article{nokey,

title = {The DNA history of a lonely oak: Quercus humboldtii phylogeography in the Colombian Andes},

author = {Sofía Zorrilla-Azcué and Antonio González-Rodríguez and Ken Oyama and Mailyn A. González and Hernando Rodríguez-Correa},

doi = {10.1002/ece3.7529},

issn = {20457758},

year  = {2021},

date = {2021-01-01},

journal = {Ecology and Evolution},

volume = {11},

issue = {11},

pages = {6814-6828},

publisher = {John Wiley and Sons Ltd},

abstract = {The climatic and geological changes that occurred during the Quaternary, particularly the fluctuations during the glacial and interglacial periods of the Pleistocene, shaped the population demography and geographic distribution of many species. These processes have been studied in several groups of organisms in the Northern Hemisphere, but their influence on the evolution of Neotropical montane species and ecosystems remains unclear. This study contributes to the understanding of the effect of climatic fluctuations during the late Pleistocene on the evolution of Andean mountain forests. First, we describe the nuclear and plastidic DNA patterns of genetic diversity, structure, historical demography, and landscape connectivity of Quercus humboldtii, which is a typical species in northern Andean montane forests. Then, these patterns were compared with the palynological and evolutionary hypotheses postulated for montane forests of the Colombian Andes under climatic fluctuation scenarios during the Quaternary. Our results indicated that populations of Q. humboldtii have high genetic diversity and a lack of genetic structure and that they have experienced a historical increase in connectivity from the last glacial maximum (LGM) to the present. Furthermore, our results showed a dramatic reduction in the effective population size followed by an expansion before the LGM, which is consistent with the results found by palynological studies, suggesting a change in dominance in Andean forests that may be related to ecological factors rather than climate change.},

keywords = {genetic diversity and structure, historical connectivity, historical demography, Neotropical trees, Oaks, Phylogeography, Pleistocene, Quercus},

pubstate = {published},

tppubtype = {article}

}

@article{nokey,

title = {Genetic structure, phylogeography and potential distribution modeling suggest a population expansion in the mesquite Prosopis laevigata since the last interglacial},

author = {Gonzalo Contreras-Negrete and Luis Letelier and Javier Piña-Torres and Antonio González-Rodríguez},

doi = {10.1007/s00606-021-01744-5},

issn = {16156110},

year  = {2021},

date = {2021-01-01},

journal = {Plant Systematics and Evolution},

volume = {307},

issue = {2},

publisher = {Springer},

abstract = {Patterns of genetic and phylogeographic structure and recent population history of plant species in the Mexican arid zones have been scarcely investigated. Prosopis laevigata is the most widely spread species of mesquite in Mexico, with extensive populations in the arid and semiarid zones of the central and northern plateaus and scattered presence in southern Mexico. We evaluated the genetic and phylogeographic structure of this species to infer its recent demographic history. We genotyped six nuclear microsatellite loci and sequenced the psbA3´-trnH chloroplast DNA (cpDNA) region in individuals from 21 populations covering the whole distribution of the species. Nuclear genetic diversity was moderately high (HE = 0.527), and genetic differentiation was moderate (FST = 0.16). A positive correlation between genetic diversity and latitude was observed. The cpDNA analyses indicated a lack of phylogeographic structure in P. laevigata (GST = 0.090},

keywords = {arid zones, Phylogeography, Population expansion, Population genetics, Prosopis},

pubstate = {published},

tppubtype = {article}

}

@article{nokey,

title = {High genetic diversity and stable Pleistocene distributional ranges in the widespread Mexican red oak Quercus castanea Née (1801) (Fagaceae)},

author = {Juan Manuel Peñaloza-Ramírez and Hernando Rodríguez-Correa and Antonio González-Rodríguez and Víctor Rocha-Ramírez and Ken Oyama},

doi = {10.1002/ece3.6189},

issn = {20457758},

year  = {2020},

date = {2020-01-01},

journal = {Ecology and Evolution},

volume = {10},

issue = {10},

pages = {4204-4219},

publisher = {John Wiley and Sons Ltd},

abstract = {The Mexican highlands are areas of high biological complexity where taxa of Nearctic and Neotropical origin and different population histories are found. To gain a more detailed view of the evolution of the biota in these regions, it is necessary to evaluate the effects of historical tectonic and climate events on species. Here, we analyzed the phylogeographic structure, historical demographic processes, and the contemporary period, Last Glacial Maximum (LGM) and Last Interglacial (LIG) ecological niche models of Quercus castanea, to infer the historical population dynamics of this oak distributed in the Mexican highlands. A total of 36 populations of Q. castanea were genotyped with seven chloroplast microsatellite loci in four recognized biogeographic provinces of Mexico: the Sierra Madre Occidental (western mountain range), the Central Plateau, the Trans-Mexican Volcanic Belt (TMVB, mountain range crossing central Mexico from west to east) and the Sierra Madre del Sur (SMS, southern mountain range). We obtained standard statistics of genetic diversity and structure and tested for signals of historical demographic expansions. A total of 90 haplotypes were identified, and 29 of these haplotypes were restricted to single populations. The within-population genetic diversity was high (mean hS = 0.72), and among-population genetic differentiation showed a strong phylogeographic structure (NST = 0.630 > GST = 0.266; p <.001). Signals of demographic expansion were identified in the TMVB and the SMS. The ecological niche models suggested a considerable percentage of stable distribution area for the species during the LGM and connectivity between the TMVB and the SMS. High genetic diversity, strong phylogeographic structure, and ecological niche models suggest in situ permanence of Q. castanea populations with large effective population sizes. The complex geological and climatic histories of the TMVB help to explain the origin and maintenance of a large proportion of the genetic diversity in this oak species.},

keywords = {genetic variation, historical demography, Mexican Highlands, Neotropical trees, Oaks, Phylogeography},

pubstate = {published},

tppubtype = {article}

}

@article{Rodriguez-Correa2018,

title = {Contrasting Patterns of Population History and Seed-mediated Gene Flow in Two Endemic Costa Rican Oak Species},

author = {Hernando Rodríguez-Correa and Ken Oyama and Mauricio Quesada and Eric J. Fuchs and Antonio González-Rodríguez},

doi = {10.1093/jhered/esy011},

issn = {14657333},

year  = {2018},

date = {2018-01-01},

journal = {Journal of Heredity},

volume = {109},

issue = {5},

pages = {530-542},

abstract = {Lower Central America is an important area to study recent population history and diversification of Neotropical species due to its complex and dynamic geology and climate. Phylogeographic studies in this region are few in comparison with other regions and even less for tree species. The aim of the present study was to characterize the phylogeographic structure in 2 partially co-distributed endemic oak species (Quercus costaricensis and Q. bumelioides) of the Costa Rican mountains using chloroplast short sequence repeats (cpSSRs), and to test for the effect of geological and palaeoclimatic processes on their population history. Genetic diversity and structure, haplotype networks, patterns of seed-mediated gene flow and historical demography were estimated for both species. Results suggested contrasting patterns. Quercus costaricensis exhibited high values of genetic diversity, a marked phylogeographic structure, a north-to-south genetic diversity gradient and evidence of a demographic expansion during the Quaternary. Quercus bumelioides did not show significant genetic structure and the haplotype network and historical demography estimates suggested a recent population expansion probably during the Pleistocene-Holocene transition. The phylogeographic structure of Q. costaricensis seems to be related to Pleistocene altitudinal migration due to its higher altitudinal distribution. Meanwhile, historical seed-mediated gene flow through the lower altitudinal distribution of Q. bumelioides may have promoted the homogenization of genetic variation. Population expansion and stable availability of suitable climatic areas in both species probably indicate that palaeoclimatic changes promoted downwards altitudinal migration and formation of continuous forests allowing oak species to expand their distribution into the Panamanian mountains during glacial stages.},

keywords = {chloroplast microsatellites, Fagaceae, gene flow, Middle America, Phylogeography, Quercus},

pubstate = {published},

tppubtype = {article}

}

@article{Rodriguez-Correa2017,

title = {Complex phylogeographic patterns indicate Central American origin of two widespread Mesoamerican Quercus (Fagaceae) species},

author = {Hernando Rodríguez-Correa and Ken Oyama and Mauricio Quesada and Eric J. Fuchs and Maura Quezada and Lilian Ferrufino and Susana Valencia-Ávalos and Alfredo Cascante-Marín and Antonio González-Rodríguez},

doi = {10.1007/s11295-017-1147-7},

issn = {16142950},

year  = {2017},

date = {2017-01-01},

journal = {Tree Genetics and Genomes},

volume = {13},

issue = {3},

publisher = {Tree Genetics & Genomes},

abstract = {The northern Neotropical region is characterized by a heterogeneous geological and climatic history. Recent studies have shown contrasting patterns regarding the role of geographic elements as barriers that could have determined phylogeographic structure in various species. Recently, the phylogeography and biogeography of Quercus species have been studied intensively, and the patterns observed so far suggest contrasting evolutionary histories for Neotropical species in comparison with their Holarctic relatives. The goal of this study was to describe the phylogeographic structure of two Neotropical oak species (Quercus insignis and Quercus sapotifolia) in the context of the geological and palaeoclimatic history of the northern Neotropics. Populations through the distribution range of both species were collected and characterized using nine chloroplast DNA microsatellite loci. Both oak species showed high levels of genetic diversity and strong phylogeographic structure. The distribution of genetic variation in Q. insignis suggested an influence of two major barriers, the Isthmus of Tehuantepec and the Nicaraguan Depression, while Q. sapotifolia exhibited a genetic structure defined by the heterogeneity of the Chortis highlands. The haplotype networks of both species indicated complex histories, suggesting that colonization from the Sierra Madre de Chiapas to central Mexico and from the north of the Nicaraguan Depression to the Costa Rican mountains may have occurred during different stages, and apparently more than one time. In conclusion, the phylogeographic structure of Neotropical oak species seems to be defined by a combination of geological and climatic events.},

keywords = {historical demography, Middle America, Neotropical trees, Palaeodistribution, Phylogeography},

pubstate = {published},

tppubtype = {article}

}

@article{nokey,

title = {Perspectivas de la Ecología Molecular en un país megadiverso},

author = {Hernando Rodríguez-Correa and Antonio González-Rodríguez and Ken Oyama},

doi = {10.1016/j.rmb.2017.10.002},

issn = {18703453},

year  = {2017},

date = {2017-01-01},

journal = {Revista Mexicana de Biodiversidad},

volume = {88},

pages = {3-13},

publisher = {Universidad Nacional Autonoma de Mexico},

abstract = {A review of studies on Molecular Ecology in Mexico is presented. Between 1990 and 2016, we identified 656 published studies on Molecular Ecology. The best represented subject areas were population genetics (35.3% of the studies) and phylogeography (30.3%), while emergent fields in molecular ecology, such as landscape genomics, DNA-based trophic ecology, and kinship, parentage and behavior were scarcely represented. Most frequently studied systems were animals (58.5%) and plants (32.5%), while other organisms such as fungi, protozoa and bacteria have received much less attention. In general, a considerable development of Molecular Ecology is observable in our country. However, for this tendency to continue it will be necessary to incorporate more extensively technological advances such as next generation sequencing and bioinformatics, as well as to venture into the emergent areas of the discipline.},

keywords = {Conservation biology, gene flow, Genomics, Molecular markers, Next generation sequencing, Phylogeography, Population genetics},

pubstate = {published},

tppubtype = {article}

}

@article{nokey,

title = {Phylogeography and population differentiation in the Psittacanthus calyculatus (Loranthaceae) mistletoe: a complex scenario of climate–volcanism interaction along the Trans-Mexican Volcanic Belt},

author = {María José Pérez-Crespo and Juan Francisco Ornelas and Antonio González-Rodríguez and Eduardo Ruiz-Sanchez and Antonio Acini Vásquez-Aguilar and Santiago Ramírez-Barahona},

doi = {10.1111/jbi.13070},

issn = {13652699},

year  = {2017},

date = {2017-01-01},

journal = {Journal of Biogeography},

volume = {44},

issue = {11},

pages = {2501-2514},

publisher = {Blackwell Publishing Ltd},

abstract = {Aim: The formation of the Trans-Mexican Volcanic Belt (TMVB) played an important role in driving inter- and intraspecific diversification at high elevations. However, Pleistocene climate changes and ecological factors might also contribute to plant genetic structuring along the volcanic belt. Here, we analysed phylogeographical patterns of the parrot-mistletoe Psittacanthus calyculatus to determine the relative contribution of these different factors. Location: Trans-Mexican Volcanic Belt. Methods: Using nuclear and chloroplast DNA sequence data for 370 individuals, we investigate the genetic differentiation of 35 populations across the species range. We conducted phylogenetic, population and spatial genetic analyses of P. calyculatus sequences along with ecological niche modelling and Bayesian inference methods to gain insight into the structuring of genetic variation of these populations. Results: Our analyses revealed population structure with three genetic groups corresponding to individuals from Oaxaca and those from the central-eastern and western TMVB regions. A significant genetic signal of demographic expansion, an east-to-west expansion predicted by species distribution modelling, and approximate Bayesian computation analyses strongly supported a scenario of habitat isolation and invasion of TMVB by P. calyculatus during the late-Pleistocene. Main conclusions: The genetic differentiation of P. calyculatus may be explained by the combined effects of (1) geographical isolation linked to the effects of the glacial/interglacial cycles and environmental factors, driving genetic differentiation from congeners into more xeric vegetation and (2) the invasion of TMVB from east to west, suggesting a role for both colonization and glacial/interglacial cycles models.},

keywords = {Loranthaceae, Mesoamerica, Mexico, Mistletoes, Phylogeography, Pleistocene, Psittacanthus, Trans-Mexican Volcanic Belt},

pubstate = {published},

tppubtype = {article}

}

@article{Cavender-Bares2015,

title = {Phylogeny and biogeography of the american live oaks (Quercus subsection Virentes): A genomic and population genetics approach},

author = {Jeannine Cavender-Bares and Antonio González-Rodríguez and Deren A. R. Eaton and Andrew A. L. Hipp and Anne Beulke and Paul S. Manos},

doi = {10.1111/mec.13269},

issn = {1365294X},

year  = {2015},

date = {2015-01-01},

journal = {Molecular Ecology},

volume = {24},

issue = {14},

pages = {3668-3687},

abstract = {The nature and timing of evolution of niche differentiation among closely related species remains an important question in ecology and evolution. The American live oak clade, Virentes, which spans the unglaciated temperate and tropical regions of North America and Mesoamerica, provides an instructive system in which to examine speciation and niche evolution. We generated a fossil-calibrated phylogeny of Virentes using RADseq data to estimate divergence times and used nuclear microsatellites, chloroplast sequences and an intron region of nitrate reductase (NIA-i3) to examine genetic diversity within species, rates of gene flow among species and ancestral population size of disjunct sister species. Transitions in functional and morphological traits associated with ecological and climatic niche axes were examined across the phylogeny. We found the Virentes to be monophyletic with three subclades, including a southwest clade, a southeastern US clade and a Central American/Cuban clade. Despite high leaf morphological variation within species and transpecific chloroplast haplotypes, RADseq and nuclear SSR data showed genetic coherence of species. We estimated a crown date for Virentes of 11 Ma and implicated the formation of the Sea of Cortes in a speciation event ~5 Ma. Tree height at maturity, associated with fire tolerance, differs among the sympatric species, while freezing tolerance appears to have diverged repeatedly across the tropical-temperate divide. Sympatric species thus show evidence of ecological niche differentiation but share climatic niches, while allopatric and parapatric species conserve ecological niches, but diverge in climatic niches. The mode of speciation and/or degree of co-occurrence may thus influence which niche axis plants diverge along.},

keywords = {Conservation, Ecological and climatic niches, Fossil calibration, Genomic data, introgression, Phylogeography, RADseq, Sea of Cortés, Virentes},

pubstate = {published},

tppubtype = {article}

}

@article{Gugger2011,

title = {Southward Pleistocene migration of Douglas-fir into Mexico: Phylogeography, ecological niche modeling, and conservation of 'rear edge' populations},

author = {Paul F. Gugger and Antonio Gonzalez-Rodriguez and Hernando Rodriguez-Correa and Shinya Sugita and Jeannine Cavender-Bares},

doi = {10.1111/j.1469-8137.2010.03559.x},

issn = {0028646X},

year  = {2011},

date = {2011-01-01},

journal = {New Phytologist},

volume = {189},

issue = {4},

pages = {1185-1199},

abstract = {Poleward Pleistocene plant migration has been an important process structuring modern temperate and boreal plant communities, but the contribution of equatorward migration remains poorly understood. Paleobotanical evidence suggests Miocene or Pleistocene origin for temperate 'sky island' plant taxa in Mexico. These 'rear edge' populations situated in a biodiversity hotspot may be an important reserve of genetic diversity in changing climates. We used mtDNA sequences, cpDNA sequences and chloroplast microsatellites to test hypotheses of Miocene vs Pleistocene colonization of temperate Douglas-fir in Mexico, explore geographic patterns of molecular variation in relation to Pleistocene climate history using ecological niche models, and assess the taxonomic and conservation implications. We found strong evidence for Pleistocene divergence of Douglas-fir in Mexico (958 thousand yr before present (ka) with the 90% highest posterior density interval ranging from 1.6 million yr before present (Ma) to 491ka), consistent with the southward Pleistocene migration hypothesis. Genetic diversity was high and strongly partitioned among populations. Spatial patterns of molecular variation and ecological niche models suggest a complex late Pleistocene history involving periods of isolation and expansion along mountain corridors. These results highlight the importance of southward Pleistocene migration in establishing modern high-diversity plant communities and provide critical insights into proposals to conserve the unique biodiversity of Mexican Douglas-fir and associated taxa. © 2010 The Authors. New Phytologist © 2010 New Phytologist Trust.},

keywords = {CpDNA, CpSSR, ecological niche modeling, Mexico, MtDNA, Phylogeography, Pseudotsuga menziesii, Rear edge},

pubstate = {published},

tppubtype = {article}

}

@article{Gugger2011b,

title = {Southward Pleistocene migration of Douglas-fir into Mexico: Phylogeography, ecological niche modeling, and conservation of 'rear edge' populations},

author = {Paul F. Gugger and Antonio Gonzalez-Rodriguez and Hernando Rodriguez-Correa and Shinya Sugita and Jeannine Cavender-Bares},

doi = {10.1111/j.1469-8137.2010.03559.x},

issn = {0028646X},

year  = {2011},

date = {2011-01-01},

journal = {New Phytologist},

volume = {189},

issue = {4},

pages = {1185-1199},

abstract = {Poleward Pleistocene plant migration has been an important process structuring modern temperate and boreal plant communities, but the contribution of equatorward migration remains poorly understood. Paleobotanical evidence suggests Miocene or Pleistocene origin for temperate 'sky island' plant taxa in Mexico. These 'rear edge' populations situated in a biodiversity hotspot may be an important reserve of genetic diversity in changing climates. We used mtDNA sequences, cpDNA sequences and chloroplast microsatellites to test hypotheses of Miocene vs Pleistocene colonization of temperate Douglas-fir in Mexico, explore geographic patterns of molecular variation in relation to Pleistocene climate history using ecological niche models, and assess the taxonomic and conservation implications. We found strong evidence for Pleistocene divergence of Douglas-fir in Mexico (958 thousand yr before present (ka) with the 90% highest posterior density interval ranging from 1.6 million yr before present (Ma) to 491ka), consistent with the southward Pleistocene migration hypothesis. Genetic diversity was high and strongly partitioned among populations. Spatial patterns of molecular variation and ecological niche models suggest a complex late Pleistocene history involving periods of isolation and expansion along mountain corridors. These results highlight the importance of southward Pleistocene migration in establishing modern high-diversity plant communities and provide critical insights into proposals to conserve the unique biodiversity of Mexican Douglas-fir and associated taxa. © 2010 The Authors. New Phytologist © 2010 New Phytologist Trust.},

keywords = {CpDNA, CpSSR, ecological niche modeling, Mexico, MtDNA, Phylogeography, Pseudotsuga menziesii, Rear edge},

pubstate = {published},

tppubtype = {article}

}