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In and out of refugia: historical patterns of diversity and demography in the North American Caesar's mushroom species complex.
Mol Ecol. 2015 12; 24(23):5938-56.ME

Abstract

Some of the effects of past climate dynamics on plant and animal diversity make-up have been relatively well studied, but to less extent in fungi. Pleistocene refugia are thought to harbour high biological diversity (i.e. phylogenetic lineages and genetic diversity), mainly as a product of increased reproductive isolation and allele conservation. In addition, high extinction rates and genetic erosion are expected in previously glaciated regions. Some of the consequences of past climate dynamics might involve changes in range and population size that can result in divergence and incipient or cryptic speciation. Many of these dynamic processes and patterns can be inferred through phylogenetic and coalescent methods. In this study, we first delimit species within a group of closely related edible ectomycorrhizal Amanita from North America (the American Caesar's mushrooms species complex) using multilocus coalescent-based approaches; and then address questions related to effects of Pleistocene climate change on the diversity and genetics of the group. Our study includes extensive geographical sampling throughout the distribution range, and DNA sequences from three nuclear protein-coding genes. Results reveal cryptic diversity and high speciation rates in refugia. Population sizes and expansions seem to be larger at midrange latitudes (Mexican highlands and SE USA). Range shifts are proportional to population size expansions, which were overall more common during the Pleistocene. This study documents responses to past climate change in fungi and also highlights the applicability of the multispecies coalescent in comparative phylogeographical analyses and diversity assessments that include ancestral species.

Authors+Show Affiliations

Department of Natural History, Royal Ontario Museum, 100 Queen's Park, Toronto, ON, M5S 2C6, Canada. Department of Ecology and Evolutionary Biology, University of Toronto, 25 Willcocks, Toronto, ON, M5S 3B2, Canada.P. O. Box 57, Roosevelt, NJ, 08555-0057, USA.Departamento de Botánica y Zoología, Universidad de Guadalajara, Zapopan, 45101, México.Facultad de Ciencias, Departamento de Biología Comparada, UNAM, Ciudad Universitaria, México City, 04510, México.Escuela Nacional de Ciencias Biólogicas, Instituto Politécnico Nacional, México City, 11340, México.Centro de Investigación en Ciencias Biológicas, Universidad Autónoma de Tlaxcala, Tlaxcala, 90122, México.Facultad de Ciencias Biológicas, Universidad de Ciencias y Artes de Chiapas, Tuxtla Gutiérrez, 29039, Mexico.Instituto de Silvicultura e Industria de la Madera, Universidad Juárez del Estado de Durango, Durango, 34120, México.Laboratorio de Etnobiología, Centro de Investigaciones Biológicas, Universidad Autónoma del Estado de Hidalgo, Pachuca, México.Centro de Investigaciones en Ecosistemas CIEco, Antigua carretera a Pátzcuaro # 8701, Col. Ex-Hacienda de San José de La Huerta, Morelia, 58190, México.Coleccion Etnomicológica "Dr. Teófilo Herrera Suárez", Instituto Tecnológico del Valle de Oaxaca, Xoxocotlán, 71230, México.Department of Natural History, Royal Ontario Museum, 100 Queen's Park, Toronto, ON, M5S 2C6, Canada. Department of Ecology and Evolutionary Biology, University of Toronto, 25 Willcocks, Toronto, ON, M5S 3B2, Canada.

Pub Type(s)

Journal Article
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

26465233

Citation

Sánchez-Ramírez, Santiago, et al. "In and Out of Refugia: Historical Patterns of Diversity and Demography in the North American Caesar's Mushroom Species Complex." Molecular Ecology, vol. 24, no. 23, 2015, pp. 5938-56.
Sánchez-Ramírez S, Tulloss RE, Guzmán-Dávalos L, et al. In and out of refugia: historical patterns of diversity and demography in the North American Caesar's mushroom species complex. Mol Ecol. 2015;24(23):5938-56.
Sánchez-Ramírez, S., Tulloss, R. E., Guzmán-Dávalos, L., Cifuentes-Blanco, J., Valenzuela, R., Estrada-Torres, A., Ruán-Soto, F., Díaz-Moreno, R., Hernández-Rico, N., Torres-Gómez, M., León, H., & Moncalvo, J. M. (2015). In and out of refugia: historical patterns of diversity and demography in the North American Caesar's mushroom species complex. Molecular Ecology, 24(23), 5938-56. https://doi.org/10.1111/mec.13413
Sánchez-Ramírez S, et al. In and Out of Refugia: Historical Patterns of Diversity and Demography in the North American Caesar's Mushroom Species Complex. Mol Ecol. 2015;24(23):5938-56. PubMed PMID: 26465233.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - In and out of refugia: historical patterns of diversity and demography in the North American Caesar's mushroom species complex. AU - Sánchez-Ramírez,Santiago, AU - Tulloss,Rodham E, AU - Guzmán-Dávalos,Laura, AU - Cifuentes-Blanco,Joaquín, AU - Valenzuela,Ricardo, AU - Estrada-Torres,Arturo, AU - Ruán-Soto,Felipe, AU - Díaz-Moreno,Raúl, AU - Hernández-Rico,Nallely, AU - Torres-Gómez,Mariano, AU - León,Hugo, AU - Moncalvo,Jean-Marc, Y1 - 2015/11/20/ PY - 2015/04/28/received PY - 2015/10/05/revised PY - 2015/10/06/accepted PY - 2015/10/15/entrez PY - 2015/10/16/pubmed PY - 2016/4/8/medline KW - *BEAST KW - BP&P KW - Plio-Pleistocene KW - ancestral area reconstruction KW - cryptic diversity KW - diversification KW - edible ectomycorrhizal fungi KW - species delimitation SP - 5938 EP - 56 JF - Molecular ecology JO - Mol. Ecol. VL - 24 IS - 23 N2 - Some of the effects of past climate dynamics on plant and animal diversity make-up have been relatively well studied, but to less extent in fungi. Pleistocene refugia are thought to harbour high biological diversity (i.e. phylogenetic lineages and genetic diversity), mainly as a product of increased reproductive isolation and allele conservation. In addition, high extinction rates and genetic erosion are expected in previously glaciated regions. Some of the consequences of past climate dynamics might involve changes in range and population size that can result in divergence and incipient or cryptic speciation. Many of these dynamic processes and patterns can be inferred through phylogenetic and coalescent methods. In this study, we first delimit species within a group of closely related edible ectomycorrhizal Amanita from North America (the American Caesar's mushrooms species complex) using multilocus coalescent-based approaches; and then address questions related to effects of Pleistocene climate change on the diversity and genetics of the group. Our study includes extensive geographical sampling throughout the distribution range, and DNA sequences from three nuclear protein-coding genes. Results reveal cryptic diversity and high speciation rates in refugia. Population sizes and expansions seem to be larger at midrange latitudes (Mexican highlands and SE USA). Range shifts are proportional to population size expansions, which were overall more common during the Pleistocene. This study documents responses to past climate change in fungi and also highlights the applicability of the multispecies coalescent in comparative phylogeographical analyses and diversity assessments that include ancestral species. SN - 1365-294X UR - https://www.unboundmedicine.com/medline/citation/26465233/In_and_out_of_refugia:_historical_patterns_of_diversity_and_demography_in_the_North_American_Caesar's_mushroom_species_complex_ L2 - https://doi.org/10.1111/mec.13413 DB - PRIME DP - Unbound Medicine ER -