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Dellinger AS, Lagomarsino L, Michelangeli F, Dullinger S, Smith SD. The Sequential Direct and Indirect Effects of Mountain Uplift, Climatic Niche, and Floral Trait Evolution on Diversification Dynamics in an Andean Plant Clade. Syst Biol 2024; 73:594-612. [PMID: 38554255 PMCID: PMC11377192 DOI: 10.1093/sysbio/syae011] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2023] [Revised: 02/28/2024] [Accepted: 04/11/2024] [Indexed: 04/01/2024] Open
Abstract
Why and how organismal lineages radiate is commonly studied through either assessing abiotic factors (biogeography, geomorphological processes, and climate) or biotic factors (traits and interactions). Despite increasing awareness that both abiotic and biotic processes may have important joint effects on diversification dynamics, few attempts have been made to quantify the relative importance and timing of these factors, and their potentially interlinked direct and indirect effects, on lineage diversification. We here combine assessments of historical biogeography, geomorphology, climatic niche, vegetative, and floral trait evolution to test whether these factors jointly, or in isolation, explain diversification dynamics of a Neotropical plant clade (Merianieae, Melastomataceae). After estimating ancestral areas and the changes in niche and trait disparity over time, we employ Phylogenetic Path Analyses as a synthesis tool to test eleven hypotheses on the individual direct and indirect effects of these factors on diversification rates. We find strongest support for interlinked effects of colonization of the uplifting Andes during the mid-Miocene and rapid abiotic climatic niche evolution in explaining a burst in diversification rate in Merianieae. Within Andean habitats, later increases in floral disparity allowed for the exploitation of wider pollination niches (i.e., shifts from bee to vertebrate pollinators), but did not affect diversification rates. Our approach of including both vegetative and floral trait evolution, rare in assessments of plant diversification in general, highlights that the evolution of woody habit and larger flowers preceded the colonization of the Andes, but was likely critical in enabling the rapid radiation in montane environments. Overall, and in concert with the idea that ecological opportunity is a key element of evolutionary radiations, our results suggest that a combination of rapid niche evolution and trait shifts was critical for the exploitation of newly available niche space in the Andes in the mid-Miocene. Further, our results emphasize the importance of incorporating both abiotic and biotic factors into the same analytical framework if we aim to quantify the relative and interlinked effects of these processes on diversification.
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Affiliation(s)
- Agnes S Dellinger
- Department of Botany and Biodiversity Research, University of Vienna, Rennweg 14, 1030 Vienna, Austria
- Ecology and Evolutionary Biology, University of Colorado Boulder, 1800 Colorado Ave., Boulder, CO 80309-0334, USA
| | - Laura Lagomarsino
- Shirley C. Tucker Herbarium, Louisiana State University, 202 Life Sciences Building, Baton Rouge, LA 70803, USA
| | - Fabián Michelangeli
- Institute of Systematic Botany, The New York Botanical Garden, 2900 Southern Blvd, Bronx, NY 10458, USA
| | - Stefan Dullinger
- Department of Botany and Biodiversity Research, University of Vienna, Rennweg 14, 1030 Vienna, Austria
| | - Stacey D Smith
- Ecology and Evolutionary Biology, University of Colorado Boulder, 1800 Colorado Ave., Boulder, CO 80309-0334, USA
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Liu JX, Guo C, Ma PF, Zhou MY, Luo YH, Zhu GF, Xu ZC, Milne RI, Vorontsova MS, Li DZ. The origin and morphological character evolution of the paleotropical woody bamboos. JOURNAL OF INTEGRATIVE PLANT BIOLOGY 2024. [PMID: 39166548 DOI: 10.1111/jipb.13751] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/04/2024] [Revised: 07/01/2024] [Accepted: 07/03/2024] [Indexed: 08/23/2024]
Abstract
The woody bamboos (Bambusoideae) exhibit distinctive biological traits within Poaceae, such as highly lignified culms, rapid shoot growth, monocarpic mass flowering and nutlike or fleshy caryopses. Much of the remarkable morphological diversity across the subfamily exists within a single hexaploid clade, the paleotropical woody bamboos (PWB), making it ideal to investigate the factors underlying morphological evolution in woody bamboos. However, the origin and biogeographical history of PWB remain elusive, as does the effect of environmental factors on the evolution of their morphological characters. We generated a robust and time-calibrated phylogeny of PWB using single nucleotide polymorphisms retrieved from optimized double digest restriction site associated DNA sequencing, and explored the evolutionary trends of habit, inflorescence, and caryopsis type in relation to environmental factors including climate, soil, and topography. We inferred that the PWB started to diversify across the Oligocene-Miocene boundary and formed four major clades, that is, Melocanninae, Racemobambosinae s.l. (comprising Dinochloinae, Greslanlinae, Racemobambosinae s.str. and Temburongiinae), Hickeliinae and Bambusinae s.l. (comprising Bambusinae s.str. plus Holttumochloinae). The ancestor of PWB was reconstructed as having erect habit, indeterminate inflorescence and basic caryopsis. The characters including climbing/scrambling habit, determinate inflorescence, and nucoid/bacoid caryopsis have since undergone multiple changes and reversals during the diversification of PWB. The evolution of all three traits was correlated with, and hence likely influenced by, aspects of climate, topography, and soil, with climate factors most strongly correlated with morphological traits, and soil factors least so. However, topography had more influence than climate or soil on the evolution of erect habit, whereas both factors had greater effect on the evolution of bacoid caryopsis than did soil. Our results provide novel insights into morphological diversity and adaptive evolution in bamboos for future ecological and evolutionary research.
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Affiliation(s)
- Jing-Xia Liu
- Germplasm Bank of Wild Species & Yunnan Key Laboratory of Crop Wild Relatives Omics, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China
| | - Cen Guo
- Center for Integrative Conservation & Yunnan Key Laboratory for the Conservation of Tropical Rainforests and Asian Elephants, Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences, Menglun, 666303, China
| | - Peng-Fei Ma
- Germplasm Bank of Wild Species & Yunnan Key Laboratory of Crop Wild Relatives Omics, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China
- State Key Laboratory of Plant Diversity and Specialty Crops, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China
| | - Meng-Yuan Zhou
- Germplasm Bank of Wild Species & Yunnan Key Laboratory of Crop Wild Relatives Omics, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China
| | - Ya-Huang Luo
- State Key Laboratory of Plant Diversity and Specialty Crops, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China
| | - Guang-Fu Zhu
- Germplasm Bank of Wild Species & Yunnan Key Laboratory of Crop Wild Relatives Omics, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China
| | - Zu-Chang Xu
- Germplasm Bank of Wild Species & Yunnan Key Laboratory of Crop Wild Relatives Omics, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China
| | - Richard I Milne
- Institute of Molecular Plant Sciences, School of Biological Sciences, University of Edinburgh, Edinburgh, EH9 3JH, UK
| | | | - De-Zhu Li
- Germplasm Bank of Wild Species & Yunnan Key Laboratory of Crop Wild Relatives Omics, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China
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da Motta Portillo JT, Azevedo JAR, Barbo FE, Sawaya RJ. Opposite latitudinal gradients for species richness and phylogenetic diversity of endemic snakes in the Atlantic Forest. Curr Zool 2024; 70:522-530. [PMID: 39176063 PMCID: PMC11336678 DOI: 10.1093/cz/zoad032] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2023] [Accepted: 07/17/2023] [Indexed: 08/24/2024] Open
Abstract
The decrease in species richness toward higher latitudes is an expected biogeographical pattern. This pattern could be related to particular environmental constraints and the evolutionary history of clades. However, species richness does not fully represent the evolutionary history of the clades behind their distributions. Phylogenetic diversity better clarifies the role of historical factors in biogeographical patterns. We analyzed environmental and historical drivers related to latitudinal variation in species richness and phylogenetic diversity of Atlantic Forest endemic snakes. We implemented species distribution models, from voucher-based locality points, to map the snake ranges and diversity. We used generalized additive mixed models to evaluate the relationships among the diversity metrics and area, topographical roughness, and past climate change velocity since the Last Maximum Glacial in the Atlantic Forest latitudinal gradient. Contrary to the expected general pattern, species richness was higher toward higher latitudes, being positively related to past climatic stability. Species richness also increased with total area and higher topographical roughness. Phylogenetic diversity, on the other hand, showed opposite relationships related to the same factors. Phylogenetic diversity increased with lower climatic stability in lower latitudes. Thus, dimensions of diversity were affected in different ways by historical and environmental constraints in this unique and threatened biodiversity hotspot.
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Affiliation(s)
- José Thales da Motta Portillo
- Programa de Pós-Graduação em Biologia Animal, Instituto de Biociências, Letras e Ciências Exatas, Universidade Estadual Paulista “Júlio de Mesquita Filho,”Rua Cristóvão Colombo, 2265, São José do Rio Preto, São Paulo 15054-000, Brazil
| | - Josué Anderson Rêgo Azevedo
- Programa de Coleções Científicas Biológicas, Coordenação de Biodiversidade, Instituto Nacional de Pesquisas da Amazônia, Avenida André Araújo, 2936, Manaus, Amazonas 69067-375, Brazil
- Gothenburg Global Biodiversity Centre, University of Gothenburg, Box 461, Gothenburg, Västra Götaland SE-405 30, Sweden
| | - Fausto Erritto Barbo
- Instituto Federal de Educação, Ciência e Tecnologia de Minas Gerais, Rodovia Machado – Paraguaçu, km 3, Machado, Minas Gerais 37750-000, Brazil
| | - Ricardo J Sawaya
- Centro de Ciências Naturais e Humanas, Universidade Federal do ABC, Rua Arcturus, 03, São Bernardo do Campo, São Paulo 09606-070, Brazil
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Nzei JM, Martínez-Médez N, Mwanzia VM, Kurauka JK, Wang QF, Li ZZ, Chen JM. Climatic niche evolution and niche conservatism of Nymphaea species in Africa, South America, and Australia. BMC PLANT BIOLOGY 2024; 24:476. [PMID: 38816799 PMCID: PMC11137912 DOI: 10.1186/s12870-024-05141-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/23/2024] [Accepted: 05/13/2024] [Indexed: 06/01/2024]
Abstract
BACKGROUND Interest in the evolution of climatic niches, particularly in understanding the potential adaptive responses of species under climate change, has increased both theoretically and within macroecological studies. These studies have provided valuable insights into how climatic traits of species influence their niche evolution. In this study, we aim to investigate whether niche conservatism plays a role in the species diversification of Nymphaea, a group of aquatic plants with a cosmopolitan distribution that is facing severe habitat loss. We will use climatic models and phylogenetic data for 23 species to reconstruct Nymphaea's niche evolution, measure niche overlap, and assess disparity through time while testing for evolutionary models. RESULTS There was a lot of overlap in niches both within and between groups, especially for species that can be found in many places. The breadth and peaks of the niche profile varied depending on the bioclimatic variables, which suggested that the species evolved differently to cope with changes in climate. The analysis also showed that evolutionary changes happened across the phylogeny, with weak to moderate signals. The morphological disparity index (MDI) values indicated that there were disparities within subclades over time but not between or among them. Niche reconstruction and evolution analysis revealed both convergent and divergent evolution among various variables. For example, N. immutabilis, N. atrans, N. violancea, and N. nouchali evolved towards intermediate temperatures for bio2 and bio3 (isothermity) while moving towards extreme temperatures for bio8 and bio9 (wettest and driest average quarterly temperatures). CONCLUSION Our study will improve our understanding of how changes in climatic niches are potentially driving the evolution of Nymphaea. It has significant scientific implications for the limits, assemblages, evolution, and diversification of species. This information is crucial for the ongoing efforts of conservation and management, particularly considering the inevitable effects of climate change.
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Affiliation(s)
- John M Nzei
- Aquatic Plant Research Center, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Norberto Martínez-Médez
- Departamento de Zoología, Escuela Nacional de Ciencias Biológicas del Instituto Politécnico Nacional, Ciudad de México, México
| | - Virginia M Mwanzia
- School of Agriculture Technical Studies and Natural Sciences, Lukenya University, P.O Box 90-90128, Mtito Andei, Kenya
| | - Joseph K Kurauka
- School of Agriculture and Environmental Sciences, Kenyatta University, P.O. Box 43844-00100, Nairobi, Kenya
| | - Qing-Feng Wang
- Hubei Key Laboratory of Wetland Evolution & Ecological Restoration, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China
| | - Zhi-Zhong Li
- Aquatic Plant Research Center, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China.
- Hubei Key Laboratory of Wetland Evolution & Ecological Restoration, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China.
| | - Jin-Ming Chen
- Aquatic Plant Research Center, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China.
- Hubei Key Laboratory of Wetland Evolution & Ecological Restoration, Wuhan Botanical Garden, Chinese Academy of Sciences, Wuhan, 430074, China.
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Carvalho APS, Owens HL, St Laurent RA, Earl C, Dexter KM, Messcher RL, Willmott KR, Aduse-Poku K, Collins SC, Homziak NT, Hoshizaki S, Hsu YF, Kizhakke AG, Kunte K, Martins DJ, Mega NO, Morinaka S, Peggie D, Romanowski HP, Sáfián S, Vila R, Wang H, Braby MF, Espeland M, Breinholt JW, Pierce NE, Kawahara AY, Lohman DJ. Comprehensive phylogeny of Pieridae butterflies reveals strong correlation between diversification and temperature. iScience 2024; 27:109336. [PMID: 38500827 PMCID: PMC10945170 DOI: 10.1016/j.isci.2024.109336] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2023] [Revised: 10/28/2023] [Accepted: 02/21/2024] [Indexed: 03/20/2024] Open
Abstract
Temperature is thought to be a key factor influencing global species richness patterns. We investigate the link between temperature and diversification in the butterfly family Pieridae by combining next generation DNA sequences and published molecular data with fine-grained distribution data. We sampled nearly 600 pierid butterfly species to infer the most comprehensive molecular phylogeny of the family and curated a distribution dataset of more than 800,000 occurrences. We found strong evidence that species in environments with more stable daily temperatures or cooler maximum temperatures in the warm seasons have higher speciation rates. Furthermore, speciation and extinction rates decreased in tandem with global temperatures through geological time, resulting in a constant net diversification.
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Affiliation(s)
- Ana Paula S. Carvalho
- McGuire Center for Lepidoptera and Biodiversity, Florida Museum of Natural History, Gainesville, FL, USA
| | - Hannah L. Owens
- Center for Global Mountain Biodiversity, Globe Institute, University of Copenhagen, Copenhagen, Denmark
- Center for Macroecology, Evolution, and Climate, Globe Institute, University of Copenhagen, Copenhagen, Denmark
- Florida Museum of Natural History, University of Florida, Gainesville, FL, USA
| | - Ryan A. St Laurent
- McGuire Center for Lepidoptera and Biodiversity, Florida Museum of Natural History, Gainesville, FL, USA
- Department of Entomology, Smithsonian Institution, National Museum of Natural History, Washington, DC, USA
| | - Chandra Earl
- Department of Natural Sciences, Bernice Pauahi Bishop Museum, Honolulu, HI, USA
| | - Kelly M. Dexter
- McGuire Center for Lepidoptera and Biodiversity, Florida Museum of Natural History, Gainesville, FL, USA
| | - Rebeccah L. Messcher
- McGuire Center for Lepidoptera and Biodiversity, Florida Museum of Natural History, Gainesville, FL, USA
| | - Keith R. Willmott
- McGuire Center for Lepidoptera and Biodiversity, Florida Museum of Natural History, Gainesville, FL, USA
| | | | | | - Nicholas T. Homziak
- McGuire Center for Lepidoptera and Biodiversity, Florida Museum of Natural History, Gainesville, FL, USA
- Department of Entomology and Nematology, University of Florida, Gainesville, FL, USA
| | - Sugihiko Hoshizaki
- Department of Agricultural and Environmental Biology, Graduate School of Agricultural and Life Sciences, The University of Tokyo, Bunkyo-ku, Tokyo, Japan
| | - Yu-Feng Hsu
- Department of Life Science, National Taiwan Normal University, Taipei, Taiwan, R.O.C
| | - Athulya G. Kizhakke
- National Centre for Biological Sciences, Tata Institute of Fundamental Research, GKVK Campus, Bengaluru, India
| | - Krushnamegh Kunte
- National Centre for Biological Sciences, Tata Institute of Fundamental Research, GKVK Campus, Bengaluru, India
| | - Dino J. Martins
- Turkana Basin Institute, Stony Brook University, Stony Brook, NY, USA
- Insect Committee of Nature Kenya, The East Africa Natural History Society, Nairobi, Kenya
| | - Nicolás O. Mega
- Programa de Pós-Graduação em Biologia Animal, Universidade Federal do Rio Grande do Sul, Porto Alegre, RS, Brazil
| | - Sadaharu Morinaka
- Saitama Study Center, The Open University of Japan, Omiya-ku, Saitama City, Japan
| | - Djunijanti Peggie
- Museum Zoologi Bogor, Research Center for Biosystematics and Evolution, Research Organization for Life Sciences and Environment, National Research and Innovation Agency, Cibinong, Bogor, Indonesia
| | - Helena P. Romanowski
- Laboratório de Ecologia de Insetos, Departamento de Zoologia, Instituto de Biociências, Universidade Federal do Rio Grande do Sul, Porto Alegre, RS, Brazil
| | - Szabolcs Sáfián
- African Butterfly Research Institute, Karen, Nairobi, Kenya
- Institute of Silviculture and Forest Protection, University of Sopron, Sopron, Hungary
| | - Roger Vila
- Institut de Biologia Evolutiva (CSIC-Univ. Pompeu Fabra), Barcelona, Spain
| | - Houshuai Wang
- Department of Entomology, College of Plant Protection, South China Agricultural University, Guangzhou, China
| | - Michael F. Braby
- Division of Ecology and Evolution, Research School of Biology, The Australian National University, Acton, ACT, Australia
- Australian National Insect Collection, National Research Collections Australia, Canberra, ACT, Australia
| | - Marianne Espeland
- Leibniz Institute for the Analysis of Biodiversity Change, Museum Koenig, Bonn, Germany
| | - Jesse W. Breinholt
- McGuire Center for Lepidoptera and Biodiversity, Florida Museum of Natural History, Gainesville, FL, USA
- Intermountain Healthcare, Intermountain Precision Genomics, St. George, UT, USA
| | - Naomi E. Pierce
- Department of Organismic and Evolutionary Biology, Museum of Comparative Zoology, Harvard University, Cambridge, MA, USA
| | - Akito Y. Kawahara
- McGuire Center for Lepidoptera and Biodiversity, Florida Museum of Natural History, Gainesville, FL, USA
- Department of Entomology and Nematology, University of Florida, Gainesville, FL, USA
- Department of Biology, University of Florida, Gainesville, FL, USA
| | - David J. Lohman
- Department of Biology, City University of New York, New York, NY, USA
- PhD Program in Biology, Graduate Center, City University of New York, New York, NY, USA
- Entomology Section, National Museum of Natural History, Manila, Philippines
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Qiao H, Peterson AT, Myers CE, Yang Q, Saupe EE. Ecological niche conservatism spurs diversification in response to climate change. Nat Ecol Evol 2024; 8:729-738. [PMID: 38374186 PMCID: PMC11009114 DOI: 10.1038/s41559-024-02344-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2023] [Accepted: 01/24/2024] [Indexed: 02/21/2024]
Abstract
Lengthy debate has surrounded the theoretical and empirical science of whether climatic niche evolution is related to increased or decreased rates of biological diversification. Because species can persist for thousands to millions of years, these questions cross broad scales of time and space. Thus, short-term experiments may not provide comprehensive understanding of the system, leading to the emergence of contrasting opinions: niche evolution may increase diversity by allowing species to explore and colonize new geographic areas across which they could speciate; or, niche conservatism might augment biodiversity by supporting isolation of populations that may then undergo allopatric speciation. Here, we use a simulation approach to test how biological diversification responds to different rates and modes of niche evolution. We find that niche conservatism promotes biological diversification, whereas labile niches-whether adapting to the conditions available or changing randomly-generally led to slower diversification rates. These novel results provide a framework for understanding how Earth-life interactions produced such a diverse biota.
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Affiliation(s)
- Huijie Qiao
- Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences, Beijing, China.
| | | | - Corinne E Myers
- Department of Earth and Planetary Sciences, University of New Mexico, Albuquerque, NM, USA
| | - Qinmin Yang
- State Key Laboratory of Industrial Control Technology, College of Control Science and Engineering, Zhejiang University, Hangzhou, China
| | - Erin E Saupe
- Department of Earth Sciences, University of Oxford, Oxford, UK.
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Payne ARD, Mannion PD, Lloyd GT, Davis KE. Decoupling speciation and extinction reveals both abiotic and biotic drivers shaped 250 million years of diversity in crocodile-line archosaurs. Nat Ecol Evol 2024; 8:121-132. [PMID: 38049481 PMCID: PMC10781641 DOI: 10.1038/s41559-023-02244-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2022] [Accepted: 09/26/2023] [Indexed: 12/06/2023]
Abstract
Whereas living representatives of Pseudosuchia, crocodylians, number fewer than 30 species, more than 700 pseudosuchian species are known from their 250-million-year fossil record, displaying far greater ecomorphological diversity than their extant counterparts. With a new time-calibrated tree of >500 species, we use a phylogenetic framework to reveal that pseudosuchian evolutionary history and diversification dynamics were directly shaped by the interplay of abiotic and biotic processes over hundreds of millions of years, supported by information theory analyses. Speciation, but not extinction, is correlated with higher temperatures in terrestrial and marine lineages, with high sea level associated with heightened extinction in non-marine taxa. Low lineage diversity and increased speciation in non-marine species is consistent with opportunities for niche-filling, whereas increased competition may have led to elevated extinction rates. In marine lineages, competition via increased lineage diversity appears to have driven both speciation and extinction. Decoupling speciation and extinction, in combination with ecological partitioning, reveals a more complex picture of pseudosuchian evolution than previously understood. As the number of species threatened with extinction by anthropogenic climate change continues to rise, the fossil record provides a unique window into the drivers that led to clade success and those that may ultimately lead to extinction.
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Affiliation(s)
- Alexander R D Payne
- Department of Biology, University of York, York, UK
- Leverhulme Centre for Anthropocene Biodiversity, University of York, York, UK
| | - Philip D Mannion
- Department of Earth Sciences, University College London, London, UK
| | | | - Katie E Davis
- Department of Biology, University of York, York, UK.
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Díaz-Sánchez S, Hernández-Triana LM, Labruna MB, Merino O, Mosqueda J, Nava S, Szabó M, Tarragona E, Venzal JM, de la Fuente J, Estrada-Peña A. Low Genetic Diversity of the Only Clade of the Tick Rhipicephalus microplus in the Neotropics. Pathogens 2023; 12:1344. [PMID: 38003808 PMCID: PMC10675012 DOI: 10.3390/pathogens12111344] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2023] [Revised: 10/10/2023] [Accepted: 11/08/2023] [Indexed: 11/26/2023] Open
Abstract
This study addresses the variability of the mitochondrial cytochrome oxidase subunit I (COI) and 16S rDNA (16S), and nuclear internal transcriber spacer ITS2 (ITS2) genes in a set of field-collected samples of the cattle tick, Rhipicephalus microplus (Canestrini, 1888), and in geo-referenced sequences obtained from GenBank. Since the tick is currently considered to be a complex of cryptic taxa in several regions of the world, the main aims of the study are (i) to provide evidence of the clades of the tick present in the Neotropics, (ii) to explore if there is an effect of climate traits on the divergence rates of the target genes, and (iii) to check for a relationship between geographical and genetic distance among populations (the closest, the most similar, meaning for slow spread). We included published sequences of Rhipicephalus annulatus (Nearctic, Afrotropical, and Mediterranean) and R. microplus (Afrotropical, Indomalayan) to fully characterize the Neotropical populations (total: 74 16S, 44 COI, and 49 ITS2 sequences included in the analysis). Only the clade A of R. microplus spread in the Nearctic-Neotropics. Both the K and Lambda's statistics, two measures of phylogenetic signal, support low divergence rates of the tested genes in populations of R. microplus in the Neotropics. These tests demonstrate that genetic diversity of the continental populations does not correlate either with the geographic distance among samples or with environmental variables. The low variability of these genes may be due to a combination of factors like (i) the recent introduction of the tick in the Neotropics, (ii) a large, effective, and fast exchange of populations, and (iii) a low effect of climate on the evolution rates of the target genes. These results have implications for the ecological studies and control of cattle tick infestations.
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Affiliation(s)
- Sandra Díaz-Sánchez
- SaBio, Instituto de Investigación en Recursos Cinegéticos IREC-CSIC-UCLM-JCCM, Ronda de Toledo s/n, 13005 Ciudad Real, Spain; (S.D.-S.); (J.d.l.F.)
| | | | | | - Octavio Merino
- Faculty of Veterinary Medicine, Universidad Autónoma de Tamaulipas, Tamaulipas 87000, Mexico;
| | - Juan Mosqueda
- Laboratory for Research on Immunology and Vaccines, Facultad de Veterinaria, Querétaro 76230, Mexico;
| | - Santiago Nava
- IDICAL (INTA-CONICET), Instituto Nacional de Tecnología Agropecuaria (INTA), E.E.A. Rafaela, Rafaela 2300, Santa Fe, Argentina; (S.N.); (E.T.)
| | - Matias Szabó
- Hospital Veterinário, Universidade Federal de Uberlândia, Uberlândia 38405-314, MG, Brazil;
| | - Evelina Tarragona
- IDICAL (INTA-CONICET), Instituto Nacional de Tecnología Agropecuaria (INTA), E.E.A. Rafaela, Rafaela 2300, Santa Fe, Argentina; (S.N.); (E.T.)
| | - José M. Venzal
- Departamento de Ciencias Biológicas, CENUR Litoral Norte, Universidad de la República, Salto 50000, Uruguay;
| | - José de la Fuente
- SaBio, Instituto de Investigación en Recursos Cinegéticos IREC-CSIC-UCLM-JCCM, Ronda de Toledo s/n, 13005 Ciudad Real, Spain; (S.D.-S.); (J.d.l.F.)
- Department of Veterinary Pathobiology, Center for Veterinary Health Sciences, Oklahoma State University, Stillwater, OK 74078, USA
| | - Agustín Estrada-Peña
- Department of Animal Health, Faculty of Veterinary Medicine, 50009 Zaragoza, Spain
- Group of Research on Emerging Zoonoses, Instituto Agroalimentario de Aragón (IA2), 50013 Zaragoza, Spain
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9
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Spaulding F, McLaughlin JF, Cheek RG, McCracken KG, Glenn TC, Winker K. Population genomics indicate three different modes of divergence and speciation with gene flow in the green-winged teal duck complex. Mol Phylogenet Evol 2023; 182:107733. [PMID: 36801373 PMCID: PMC10092703 DOI: 10.1016/j.ympev.2023.107733] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2021] [Revised: 01/31/2023] [Accepted: 02/09/2023] [Indexed: 02/18/2023]
Abstract
The processes leading to divergence and speciation can differ broadly among taxa with different life histories. We examine these processes in a small clade of ducks with historically uncertain relationships and species limits. The green-winged teal (Anas crecca) complex is a Holarctic species of dabbling duck currently categorized as three subspecies (Anas crecca crecca, A. c. nimia, and A. c. carolinensis) with a close relative, the yellow-billed teal (Anas flavirostris) from South America. A. c. crecca and A. c. carolinensis are seasonal migrants, while the other taxa are sedentary. We examined divergence and speciation patterns in this group, determining their phylogenetic relationships and the presence and levels of gene flow among lineages using both mitochondrial and genome-wide nuclear DNA obtained from 1,393 ultraconserved element (UCE) loci. Phylogenetic relationships using nuclear DNA among these taxa showed A. c. crecca, A. c. nimia, and A. c. carolinensis clustering together to form one polytomous clade, with A. flavirostris sister to this clade. This relationship can be summarized as (crecca, nimia, carolinensis)(flavirostris). However, whole mitogenomes revealed a different phylogeny: (crecca, nimia)(carolinensis, flavirostris). The best demographic model for key pairwise comparisons supported divergence with gene flow as the probable speciation mechanism in all three contrasts (crecca-nimia, crecca-carolinensis, and carolinensis-flavirostris). Given prior work, gene flow was expected among the Holarctic taxa, but gene flow between North American carolinensis and South American flavirostris (M ∼0.1-0.4 individuals/generation), albeit low, was not expected. Three geographically oriented modes of divergence are likely involved in the diversification of this complex: heteropatric (crecca-nimia), parapatric (crecca-carolinensis), and (mostly) allopatric (carolinensis-flavirostris). Our study shows that ultraconserved elements are a powerful tool for simultaneously studying systematics and population genomics in systems with historically uncertain relationships and species limits.
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Affiliation(s)
- Fern Spaulding
- University of Alaska Museum, University of Alaska Fairbanks, Fairbanks, AK, USA; Department of Biology and Wildlife, University of Alaska Fairbanks, Fairbanks, AK, USA.
| | - Jessica F McLaughlin
- Department of Environmental Science, Policy, and Management, University of California Berkeley, Berkeley, CA, USA
| | - Rebecca G Cheek
- Graduate Degree Program in Ecology, Department of Biology, Colorado State University, Fort Collins, CO, USA
| | - Kevin G McCracken
- University of Alaska Museum, University of Alaska Fairbanks, Fairbanks, AK, USA; Department of Biology, University of Miami, Coral Gables, FL, USA
| | - Travis C Glenn
- Department of Environmental Health Science, University of Georgia, Athens, GA, USA
| | - Kevin Winker
- University of Alaska Museum, University of Alaska Fairbanks, Fairbanks, AK, USA; Department of Biology and Wildlife, University of Alaska Fairbanks, Fairbanks, AK, USA
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10
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Barreto E, Lim MCW, Rojas D, Dávalos LM, Wüest RO, Machac A, Graham CH. Morphology and niche evolution influence hummingbird speciation rates. Proc Biol Sci 2023; 290:20221793. [PMID: 37072043 PMCID: PMC10113027 DOI: 10.1098/rspb.2022.1793] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2022] [Accepted: 03/21/2023] [Indexed: 04/20/2023] Open
Abstract
How traits affect speciation is a long-standing question in evolution. We investigate whether speciation rates are affected by the traits themselves or by the rates of their evolution, in hummingbirds, a clade with great variation in speciation rates, morphology and ecological niches. Further, we test two opposing hypotheses, postulating that speciation rates are promoted by trait conservatism or, alternatively, by trait divergence. To address these questions, we analyse morphological (body mass and bill length) and niche traits (temperature and precipitation position and breadth, and mid-elevation), using a variety of methods to estimate speciation rates and correlate them with traits and their evolutionary rates. When it comes to the traits, we find faster speciation in smaller hummingbirds with shorter bills, living at higher elevations and experiencing greater temperature ranges. As for the trait evolutionary rates, we find that speciation increases with rates of divergence in the niche traits, but not in the morphological traits. Together, these results reveal the interplay of mechanisms through which different traits and their evolutionary rates (conservatism or divergence) influence the origination of hummingbird diversity.
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Affiliation(s)
- Elisa Barreto
- Swiss Federal Institute for Forest, Snow and Landscape Research WSL, Zürcherstrasse 111, 8903 Birmensdorf, Switzerland
- Departamento de Ecologia, Universidade Federal de Goiás, Campus Samambaia, Goiânia, Goiás, Brazil
| | - Marisa C. W. Lim
- Department of Ecology and Evolution, Stony Brook University, 650 Life Sciences Building, Stony Brook, NY 11794, USA
| | - Danny Rojas
- Department of Natural Sciences and Mathematics, Pontificia Universidad Javeriana Cali, Cl. 18 #118-250, Cali, Valle del Cauca, Colombia
| | - Liliana M. Dávalos
- Department of Ecology and Evolution, Stony Brook University, 650 Life Sciences Building, Stony Brook, NY 11794, USA
- Consortium for Inter-Disciplinary Environmental Research, Stony Brook University, 129 Dana Hall, Stony Brook, NY 11794, USA
| | - Rafael O. Wüest
- Swiss Federal Institute for Forest, Snow and Landscape Research WSL, Zürcherstrasse 111, 8903 Birmensdorf, Switzerland
| | - Antonin Machac
- Villum Center for Global Mountain Biodiversity and Center for Macroecology, Evolution and Climate, GLOBE Institute, University of Copenhagen, Universitetsparken 15, 2100 Copenhagen, Denmark
- Center for Theoretical Study, Charles University and the Czech Academy of Science, Jilska 1, 11000 Prague, Czechia
- Department of Ecology, Charles University, Vinicna 7, 12844 Prague, Czechia
| | - Catherine H. Graham
- Swiss Federal Institute for Forest, Snow and Landscape Research WSL, Zürcherstrasse 111, 8903 Birmensdorf, Switzerland
- Department of Ecology and Evolution, Stony Brook University, 650 Life Sciences Building, Stony Brook, NY 11794, USA
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11
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Doré M, Willmott K, Lavergne S, Chazot N, Freitas AVL, Fontaine C, Elias M. Mutualistic interactions shape global spatial congruence and climatic niche evolution in Neotropical mimetic butterflies. Ecol Lett 2023; 26:843-857. [PMID: 36929564 DOI: 10.1111/ele.14198] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2022] [Revised: 01/16/2023] [Accepted: 02/13/2023] [Indexed: 03/18/2023]
Abstract
Understanding the mechanisms underlying species distributions and coexistence is both a priority and a challenge for biodiversity hotspots such as the Neotropics. Here, we highlight that Müllerian mimicry, where defended prey species display similar warning signals, is key to the maintenance of biodiversity in the c. 400 species of the Neotropical butterfly tribe Ithomiini (Nymphalidae: Danainae). We show that mimicry drives large-scale spatial association among phenotypically similar species, providing new empirical evidence for the validity of Müller's model at a macroecological scale. Additionally, we show that mimetic interactions drive the evolutionary convergence of species climatic niche, thereby strengthening the co-occurrence of co-mimetic species. This study provides new insights into the importance of mutualistic interactions in shaping both niche evolution and species assemblages at large spatial scales. Critically, in the context of climate change, our results highlight the vulnerability to extinction cascades of such adaptively assembled communities tied by positive interactions.
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Affiliation(s)
- Maël Doré
- Institut de Systématique, Evolution, Biodiversité, MNHN-CNRS-Sorbonne Université-EPHE-Université des Antilles, Muséum national d'Histoire naturelle, Paris, France.,Centre d'Ecologie et des Sciences de la Conservation, UMR 7204 MNHN-CNRS-Sorbonne Université, Muséum national d'Histoire naturelle, Paris, France
| | - Keith Willmott
- McGuire Center for Lepidoptera and Biodiversity, Florida Museum of Natural History, University of Florida, Gainesville, Florida, USA
| | - Sebastien Lavergne
- Laboratoire d'Ecologie Alpine, Université Grenoble Alpes, Université Savoie Mont Blanc, CNRS, Grenoble, France
| | - Nicolas Chazot
- Swedish University of Agricultural Sciences, Uppsala, Sweden
| | - André V L Freitas
- Departamento de Biologia Animal and Museu de Diversidade Biológica, Instituto de Biologia, Universidade Estadual de Campinas, Campinas, Brazil
| | - Colin Fontaine
- Centre d'Ecologie et des Sciences de la Conservation, UMR 7204 MNHN-CNRS-Sorbonne Université, Muséum national d'Histoire naturelle, Paris, France
| | - Marianne Elias
- Institut de Systématique, Evolution, Biodiversité, MNHN-CNRS-Sorbonne Université-EPHE-Université des Antilles, Muséum national d'Histoire naturelle, Paris, France.,Smithsonian Tropical Research Institute, Panama, Panama
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12
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Galvis-Martinez CA, Moo-Llanes DA, Altamiranda-Saavedra M. Similarity but not equivalence: Ecological niche comparison between sandflies from the Pleistocene and future scenarios in Central and South America. MEDICAL AND VETERINARY ENTOMOLOGY 2023; 37:111-123. [PMID: 36315035 DOI: 10.1111/mve.12615] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/07/2022] [Accepted: 09/13/2022] [Indexed: 06/16/2023]
Abstract
Sandfly species (Diptera: Psychodidae) are suspected or proven vectors of Leishmania spp. in the American region. Understanding niche conservatism (NC) in insect vectors allows an understanding of constraints on adaptive responses, and thus implications for disease ecology. Therefore, in this study, the authors evaluated NC in three vector species of leishmaniasis (Lutzomyia gomezi, Psathyromyia shannoni and Pintomyia ovallesi) in Central and South America. For this, the authors performed niche identity and similarity testing through paired comparisons in ENMTools and niche overlap in Niche Analyst. The authors found that species niches were more similar to each other than if the points had been randomly extracted, and they also found extensive similarity between Pa. shannoni and Lu. gomezi niches and in Pa. shannoni niches over different timescales. The authors suggest Pa. shannoni as a priority species due to fundamental niche similarity with phylogenetically related species and also its extensive evolutionary history and ecological plasticity that could affect the emergence and resurgence of leishmaniasis in areas endemic by this vector.
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Affiliation(s)
- Carlos A Galvis-Martinez
- Programa de Biología, Universidad de Pamplona, Grupo de investigación en Ecología y Biogeografía (GIEB), Pamplona, Norte de Santander, Colombia
| | - David A Moo-Llanes
- Centro Regional de Investigación en Salud Pública, Instituto Nacional de Salud Pública, Tapachula, Chiapas, Mexico
| | - Mariano Altamiranda-Saavedra
- Grupo de Investigación Bioforense, Tecnológico de Antioquia Institución Universitaria, Medellín, Antioquia, Colombia
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13
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Friedman ST, Muñoz MM. A latitudinal gradient of deep-sea invasions for marine fishes. Nat Commun 2023; 14:773. [PMID: 36774385 PMCID: PMC9922314 DOI: 10.1038/s41467-023-36501-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/07/2021] [Accepted: 02/03/2023] [Indexed: 02/13/2023] Open
Abstract
Although the tropics harbor the greatest species richness globally, recent work has demonstrated that, for many taxa, speciation rates are faster at higher latitudes. Here, we explore lability in oceanic depth as a potential mechanism for this pattern in the most biodiverse vertebrates - fishes. We demonstrate that clades with the highest speciation rates also diversify more rapidly along the depth gradient, drawing a fundamental link between evolutionary and ecological processes on a global scale. Crucially, these same clades also inhabit higher latitudes, creating a prevailing latitudinal gradient of deep-sea invasions concentrated in poleward regions. We interpret these findings in the light of classic ecological theory, unifying the latitudinal variation of oceanic features and the physiological tolerances of the species living there. This work advances the understanding of how niche lability sculpts global patterns of species distributions and underscores the vulnerability of polar ecosystems to changing environmental conditions.
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Affiliation(s)
- Sarah T Friedman
- Department of Ecology and Evolutionary Biology, Yale University, New Haven, CT, 06511, USA. .,Yale Institute for Biospheric Studies, Yale University, New Haven, CT, 06511, USA.
| | - Martha M Muñoz
- Department of Ecology and Evolutionary Biology, Yale University, New Haven, CT, 06511, USA
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14
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Dar AA, Parthasarathy N. Understory diversity and floristic differentiation of Kashmir Himalayan coniferous forests: implications for conservation. Trop Ecol 2022. [DOI: 10.1007/s42965-022-00252-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
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15
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The evolution of reproductive modes and life cycles in amphibians. Nat Commun 2022; 13:7039. [PMID: 36396632 PMCID: PMC9672123 DOI: 10.1038/s41467-022-34474-4] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2021] [Accepted: 10/26/2022] [Indexed: 11/18/2022] Open
Abstract
Amphibians have undergone important evolutionary transitions in reproductive modes and life-cycles. We compare large-scale macroevolutionary patterns in these transitions across the three major amphibian clades: frogs, salamanders, and caecilians. We analyse matching reproductive and phylogenetic data for 4025 species. We find that having aquatic larvae is ancestral for all three groups and is retained by many extant species (33-44%). The most frequent transitions in each group are to relatively uncommon states: live-bearing in caecilians, paedomorphosis in salamanders, and semi-terrestriality in frogs. All three groups show transitions to more terrestrial reproductive modes, but only in caecilians have these evolved sequentially from most-to-least aquatic. Diversification rates are largely independent of reproductive modes. However, in salamanders direct development accelerates diversification whereas paedomorphosis decreases it. Overall, we find a widespread retention of ancestral modes, decoupling of trait transition rates from patterns of species richness, and the general independence of reproductive modes and diversification.
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16
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Global ecological niche conservatism and evolution in Olea species. Saudi J Biol Sci 2022; 30:103500. [DOI: 10.1016/j.sjbs.2022.103500] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/06/2021] [Revised: 10/25/2022] [Accepted: 11/07/2022] [Indexed: 11/13/2022] Open
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17
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Portillo JTDM, Barbo FE, Sawaya RJ. Climatic niche breadths of the Atlantic Forest snakes do not increase with increasing latitude. Curr Zool 2022; 68:535-540. [PMID: 36324542 PMCID: PMC9616062 DOI: 10.1093/cz/zoab091] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2021] [Accepted: 10/30/2021] [Indexed: 09/06/2024] Open
Abstract
The climatic niche is a central concept for understanding species distribution, with current and past climate interpreted as strong drivers of present and historical-geographical ranges. Our aim is to understand whether Atlantic Forest snakes follow the general geographical pattern of increasing species climatic niche breadths with increasing latitude. We also tested if there is a tradeoff between temperature and precipitation niche breadths of species in order to understand if species with larger breadths of one niche dimension have stronger dispersal constraints by the other due to narrower niche breadths. Niche breadths were calculated by the subtraction of maximal and minimal values of temperature and precipitation across species ranges. We implemented Phylogenetic Generalized Least Squares to measure the relationship between temperature and precipitation niche breadths and latitude. We also tested phylogenetic signals by Lambda statistics to analyze the degree of phylogenetic niche conservatism to both niche dimensions. Temperature niche breadths were not related to latitude. Precipitation niche breadths decreased with increasing latitude and presented a high phylogenetic signal, that is, significant phylogenetic niche conservatism. We rejected the tradeoff hypotheses of temperature and precipitation niche breadths. Our results also indicate that precipitation should be an important ecological constraint affecting the geographical distribution of snake lineages across the South American Atlantic Forest. We then provide a general view of how phylogenetic niche conservatism could impact the patterns of latitudinal variation of climatic niches across this biodiversity hotspot.
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Affiliation(s)
- José Thales da Motta Portillo
- Programa de Pós-Graduação em Biologia Animal, Instituto de Biociências, Letras e Ciências Exatas, Universidade Estadual Paulista “Júlio de Mesquita Filho”, Rua Cristóvão Colombo, 2265, São José do Rio Preto, São Paulo 15054-000, Brazil
| | - Fausto Erritto Barbo
- Laboratório de Coleções Zoológicas, Instituto Butantan, Avenida Vital Brazil, 1500, São Paulo 05503-900, Brazil
| | - Ricardo J Sawaya
- Centro de Ciências Naturais e Humanas, Universidade Federal do ABC, Rua Arcturus, 03, São Bernardo do Campo, São Paulo 09606-070, Brazil
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18
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Gamboa S, Condamine FL, Cantalapiedra JL, Varela S, Pelegrín JS, Menéndez I, Blanco F, Hernández Fernández M. A phylogenetic study to assess the link between biome specialization and diversification in swallowtail butterflies. GLOBAL CHANGE BIOLOGY 2022; 28:5901-5913. [PMID: 35838418 PMCID: PMC9543414 DOI: 10.1111/gcb.16344] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/01/2022] [Accepted: 06/10/2022] [Indexed: 06/15/2023]
Abstract
The resource-use hypothesis, proposed by E.S. Vrba, states that habitat fragmentation caused by climatic oscillations would affect particularly biome specialists (species inhabiting only one biome), which might show higher speciation and extinction rates than biome generalists. If true, lineages would accumulate biome-specialist species. This effect would be particularly exacerbated for biomes located at the periphery of the global climatic conditions, namely, biomes that have high/low precipitation and high/low temperature such as rainforest (warm-humid), desert (warm-dry), steppe (cold-dry) and tundra (cold-humid). Here, we test these hypotheses in swallowtail butterflies, a clade with more than 570 species, covering all the continents but Antarctica, and all climatic conditions. Swallowtail butterflies are among the most studied insects, and they are a model group for evolutionary biology and ecology studies. Continental macroecological rules are normally tested using vertebrates, this means that there are fewer examples exploring terrestrial invertebrate patterns at global scale. Here, we compiled a large Geographic Information System database on swallowtail butterflies' distribution maps and used the most complete time-calibrated phylogeny to quantify diversification rates (DRs). In this paper, we aim to answer the following questions: (1) Are there more biome-specialist swallowtail butterflies than biome generalists? (2) Is DR related to biome specialization? (3) If so, do swallowtail butterflies inhabiting extreme biomes show higher DRs? (4) What is the effect of species distribution area? Our results showed that swallowtail family presents a great number of biome specialists which showed substantially higher DRs compared to generalists. We also found that biome specialists are unevenly distributed across biomes. Overall, our results are consistent with the resource-use hypothesis, species climatic niche and biome fragmentation as key factors promoting isolation.
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Affiliation(s)
- Sara Gamboa
- Centro de Investigación Mariña (CIM)Universidade de Vigo, Grupo de Ecoloxía Animal (GEA), MAPAS LabVigoPontevedraSpain
- Departamento de Geodinámica, Estratigrafía y Paleontología, Facultad de Ciencias GeológicasUniversidad Complutense de MadridMadridSpain
- Departamento de Cambio MedioambientalInstituto de Geociencias (UCM, CSIC)MadridSpain
- CNRSUMR 5554 Institut des Sciences de l'Evolution de Montpellier (Université de Montpellier)MontpellierFrance
| | - Fabien L. Condamine
- CNRSUMR 5554 Institut des Sciences de l'Evolution de Montpellier (Université de Montpellier)MontpellierFrance
| | - Juan L. Cantalapiedra
- Departamento de Ciencias de la Vida, Edificio de Ciencias Campus Científico‐TecnológicoUniversidad de AlcaláAlcalá de HenaresSpain
| | - Sara Varela
- Centro de Investigación Mariña (CIM)Universidade de Vigo, Grupo de Ecoloxía Animal (GEA), MAPAS LabVigoPontevedraSpain
| | - Jonathan S. Pelegrín
- Área de Biología y Ciencias Ambientales Facultades de Ciencias Básicas y EducaciónUniversidad Santiago de CaliSantiago de CaliValle del CaucaColombia
- Departamento de Biología, Facultad de Ciencias Naturales y ExactasUniversidad del Valle, Campus MeléndezSantiago de CaliValle del CaucaColombia
| | - Iris Menéndez
- Departamento de Geodinámica, Estratigrafía y Paleontología, Facultad de Ciencias GeológicasUniversidad Complutense de MadridMadridSpain
- Departamento de Cambio MedioambientalInstituto de Geociencias (UCM, CSIC)MadridSpain
| | - Fernando Blanco
- Museum für Naturkunde, Leibniz‐Institut für Evolutions und BiodiversitätsforschungBerlinGermany
| | - Manuel Hernández Fernández
- Departamento de Geodinámica, Estratigrafía y Paleontología, Facultad de Ciencias GeológicasUniversidad Complutense de MadridMadridSpain
- Departamento de Cambio MedioambientalInstituto de Geociencias (UCM, CSIC)MadridSpain
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19
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Castiglione S, Mondanaro A, Di Febbraro M, Melchionna M, Serio C, Girardi G, Belfiore AM, Raia P. Testing for changes in rate of evolution and position of the climatic niche of clades. Mamm Rev 2022. [DOI: 10.1111/mam.12303] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
Affiliation(s)
- Silvia Castiglione
- Department of Earth Sciences, Environment and Resources University of Naples Federico II 80138 Naples Italy
| | | | - Mirko Di Febbraro
- Department of Biosciences and Territory University of Molise C. da Fonte Lappone, 15 86090 Pesche IS Italy
| | - Marina Melchionna
- Department of Earth Sciences, Environment and Resources University of Naples Federico II 80138 Naples Italy
| | - Carmela Serio
- Research Centre in Evolutionary Anthropology and Palaeoecology, School of Biological and Environmental Sciences Liverpool John Moores University Liverpool UK
| | - Giorgia Girardi
- Department of Earth Sciences, Environment and Resources University of Naples Federico II 80138 Naples Italy
| | - Arianna Morena Belfiore
- Department of Earth Sciences, Environment and Resources University of Naples Federico II 80138 Naples Italy
| | - Pasquale Raia
- Department of Earth Sciences, Environment and Resources University of Naples Federico II 80138 Naples Italy
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20
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Imfeld TS, Barker FK. Songbirds of the Americas show uniform morphological evolution despite heterogeneous diversification. J Evol Biol 2022; 35:1335-1351. [PMID: 36057939 DOI: 10.1111/jeb.14084] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2021] [Revised: 06/17/2022] [Accepted: 07/19/2022] [Indexed: 11/30/2022]
Abstract
Studying the relationship between diversification and functional trait evolution among broadly co-occurring clades can shed light on interactions between ecology and evolutionary history. However, evidence from many studies is compromised because of their focus on overly broad geographic or narrow phylogenetic scales. We addressed these limitations by studying 46 independent, biogeographically delimited clades of songbirds that dispersed from the Eastern Hemisphere into the Americas and assessed (1) whether diversification has varied through time and/or among clades within this assemblage, (2) the extent of heterogeneity in clade-specific morphological trait disparity and (3) whether morphological disparity among these clades is consistent with a uniform diversification model. We found equivalent support for constant rates birth-death and density-dependent speciation processes, with notable outliers having significantly fewer or more species than expected given their age. We also found substantial variation in morphological disparity among these clades, but that variation was broadly consistent with uniform evolutionary rates, despite the existence of diversification outliers. These findings indicate relatively continuous, ongoing morphological diversification, arguing against conceptual models of adaptive radiation in these continental clades. Additionally, they suggest surprisingly consistent diversification among the majority of these clades, despite tremendous variance in colonization history, habitat valences and trophic specializations that exist among continental clades of birds.
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Affiliation(s)
- Tyler S Imfeld
- Department of Biology, Regis University, Denver, Colorado, USA
| | - F Keith Barker
- Department of Ecology, Evolution and Behavior, University of Minnesota, St. Paul, Minnesota, USA.,Bell Museum, University of Minnesota, St. Paul, Minnesota, USA
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21
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Iglesias‐Carrasco M, Tobias JA, Duchêne DA. Bird lineages colonizing urban habitats have diversified at high rates across deep time. GLOBAL ECOLOGY AND BIOGEOGRAPHY : A JOURNAL OF MACROECOLOGY 2022; 31:1784-1793. [PMID: 36246452 PMCID: PMC9540638 DOI: 10.1111/geb.13558] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/06/2021] [Revised: 05/27/2022] [Accepted: 05/31/2022] [Indexed: 06/16/2023]
Abstract
Aim Urbanization exposes species to novel ecological conditions. Some species thrive in urban areas, whereas many others are excluded from these human-made environments. Previous analyses suggest that the ability to cope with rapid environmental change is associated with long-term patterns of diversification, but whether the suite of traits associated with the ability to colonize urban environments is linked to this process remains poorly understood. Location World. Time period Current. Major taxa studied Passerine birds. Methods We applied macroevolutionary models to a large dataset of passerine birds to compare the evolutionary history of urban-tolerant species with that of urban-avoidant species. Specifically, we examined models of state-dependent speciation and extinction to assess the macroevolution of urban tolerance as a binary trait, in addition to models of quantitative trait-dependent diversification based on relative urban abundance. We also ran simulation-based model assessments to explore potential sources of bias. Results We provide evidence that historically, species with traits promoting urban colonization have undergone faster diversification than urban-avoidant species, indicating that urbanization favours clades with a historical tendency towards rapid speciation or reduced extinction. In addition, we find that past transitions towards states that currently impede urban colonization by passerines have been more frequent than in the opposite direction. Furthermore, we find a portion of urban-avoidant passerines to be recent and to undergo fast diversification. All highly supported models give this result consistently. Main conclusions Urbanization is mainly associated with the loss of lineages that are inherently more vulnerable to extinction over deep time, whereas cities tend to be colonized by less vulnerable lineages, for which urbanization might be neutral or positive in terms of longer-term diversification. Urban avoidance is associated with high rates of recent diversification for some clades occurring in regions with relatively intact natural ecosystems and low current levels of urbanization.
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Affiliation(s)
| | | | - David A. Duchêne
- Centre for Evolutionary HologenomicsUniversity of CopenhagenCopenhagenDenmark
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22
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Friedman ST, Muñoz MM. The Effect of Thermally Robust Ballistic Mechanisms on Climatic Niche in Salamanders. Integr Org Biol 2022; 4:obac020. [PMID: 35975191 PMCID: PMC9375770 DOI: 10.1093/iob/obac020] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/14/2022] [Revised: 05/04/2022] [Accepted: 05/18/2022] [Indexed: 11/12/2022] Open
Abstract
Many organismal functions are temperature-dependent due to the contractile properties of muscle. Spring-based mechanisms offer a thermally robust alternative to temperature-sensitive muscular movements and may correspondingly expand a species' climatic niche by partially decoupling the relationship between temperature and performance. Using the ballistic tongues of salamanders as a case study, we explore whether the thermal robustness of elastic feeding mechanisms increases climatic niche breadth, expands geographic range size, and alters the dynamics of niche evolution. Combining phylogenetic comparative methods with global climate data, we find that the feeding mechanism imparts no discernable signal on either climatic niche properties or the evolutionary dynamics of most climatic niche parameters. Although biomechanical innovation in feeding influences many features of whole-organism performance, it does not appear to drive macro-climatic niche evolution in salamanders. We recommend that future work incorporate micro-scale environmental data to better capture the conditions that salamanders experience, and we discuss a few outstanding questions in this regard. Overall, this study lays the groundwork for an investigation into the evolutionary relationships between climatic niche and biomechanical traits in ectotherms.
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Affiliation(s)
- Sarah T Friedman
- Department of Ecology and Evolutionary Biology, Yale University, New Haven, CT 06511,USA
| | - Martha M Muñoz
- Department of Ecology and Evolutionary Biology, Yale University, New Haven, CT 06511,USA
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Weaver S, McGaugh SE, Kono TJY, Macip-Rios R, Gluesenkamp AG. Assessing genomic and ecological differentiation among subspecies of the Rough-footed Mud Turtle, Kinosternon hirtipes. J Hered 2022; 113:538-551. [PMID: 35922036 DOI: 10.1093/jhered/esac036] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2022] [Accepted: 08/02/2022] [Indexed: 11/13/2022] Open
Abstract
Combining genetic and ecological measures of differentiation can provide compelling evidence for ecological and genetic divergence among lineages. The Rough-footed Mud Turtle, Kinosternon hirtipes, is distributed from the Trans-Pecos region of Texas to the highlands of Central Mexico and contains six described subspecies, five of which are extant. We use ddRAD sequencing and species distribution models to assess levels of ecological and genetic differentiation among these subspecies. We also predict changes in climatically suitable habitat under different climate change scenarios and assess levels of genetic diversity and inbreeding within each lineage. Our results show that there is strong genetic and ecological differentiation among multiple lineages within K. hirtipes, and that this differentiation appears to be the result of vicariance associated with the Trans-Mexican Volcanic Belt. We propose changes to subspecies designations to more accurately reflect the evolutionary relationships among populations and assess threats to each subspecies.
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Affiliation(s)
- Sam Weaver
- Ecology, Evolution, and Behavior, University of Minnesota, 140 Gortner Lab, Saint Paul, MN 55108, USA
| | - Suzanne E McGaugh
- Ecology, Evolution, and Behavior, University of Minnesota, 140 Gortner Lab, Saint Paul, MN 55108, USA
| | - Thomas J Y Kono
- Ecology, Evolution, and Behavior, University of Minnesota, 140 Gortner Lab, Saint Paul, MN 55108, USA
| | - Rodrigo Macip-Rios
- Escuela Nacional de Estudios Superiores, Unidad Morelia, Universidad Nacional Autónoma de México, Antigua Carretera a Pátzcuaro No.8701, Col. Ex Hacienda de San José de la Huerta, CP 58190 Morelia, Michoacán, México.,Laboratorio Nacional de Síntesis Ecológica, Unidad Morelia, Universidad Nacional Autónoma de México, Antigua Carretera a Pátzcuaro No.8701, Col. Ex Hacienda de San José de la Huerta, CP 58190 Morelia, Michoacán, México
| | - Andrew G Gluesenkamp
- Center for Conservation and Research, San Antonio Zoo, 3903 N. St. Mary's Street, San Antonio, Texas 78212 USA
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Assessing the genetic consequences of habitat fragmentation on the federally threatened cheat mountain salamander (Plethodon nettingi): a comparative, multi-locus approach. CONSERV GENET 2022. [DOI: 10.1007/s10592-022-01449-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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25
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The role of climatic niche divergence in the speciation of the genus Neurergus: An inter-and intraspecific survey. Evol Ecol 2022. [DOI: 10.1007/s10682-022-10172-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022]
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26
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Yu H, Sui X, Sun M, Yin X, Deane DC. Relative Importance of Ecological, Evolutionary and Anthropogenic Pressures on Extinction Risk in Chinese Angiosperm Genera. Front Ecol Evol 2022. [DOI: 10.3389/fevo.2022.844509] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
China has many threatened plant species, which are exposed to environmental degradation and other anthropogenic pressures. We assessed support for potential extinction pathways in Chinese angiosperm genera and quantified possible threats to phylogenetic diversity. We compiled a database and phylogeny for 27,409 Chinese angiosperm species in 2,453 genera. For each genus, we used the International Union for Conservation of Nature (IUCN) Red List classifications to quantify extinction risk and calculated predictors corresponding to their ecological, evolutionary characteristics and exposure to human pressures. We first tested for phylogenetic clustering in extinction risk among genera and then tested support for direct and indirect causal pathways involving our predictors using piecewise structural equation models. Finally, we quantified the potential loss of phylogenetic diversity under different extinction scenarios. We found that extinction risk is non-randomly distributed among Chinese angiosperm genera, with the proportion of threatened species higher in range-limited and species-rich taxa. Habitat loss had a significant positive effect on threatened species richness. Phylogenetic diversity loss under scenarios: the decreasing habitat loss and relative extinction rate were high. Thus, genera would suffer from high extinction risk, if species in these genera occupy similar niches and overlapping ranges. While diversification or speciation via niche divergence might increase range-limited species vulnerable to stochastic extinction, this could reduce extinction risk of the whole clade by expanding its range and climatic niche tolerance. Endemic genera with higher extinction rates, less climatic niche divergence, and lower range segregation are especially vulnerable to anthropogenic disturbances.
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Mejía O, Martínez-Méndez N, Pérez-Miranda F, Matamoros WA. Climatic niche evolution of a widely distributed Neotropical freshwater fish clade. Biol J Linn Soc Lond 2022. [DOI: 10.1093/biolinnean/blab153] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Abstract
Abstract
The role of climate in the speciation process has been documented widely in ectotherms but poorly in freshwater fishes, which represent the richest clade among vertebrates. In this study, we have evaluated the occurrence of phylogenetic niche evolution as a promoter of diversification in the herichthyines (Cichliformes: Cichlidae) clade. We used distributional and bioclimatic data, niche modelling algorithms and phylogenetic comparative methods to study patterns of climatic niche evolution in the herichthyines clade. Our results suggested that herichthyines display signals of phylogenetic niche conservatism, but also signals of niche evolution in the last 14 Myr associated with the availability of new habitats promoting ecological opportunity within the clade. We also concluded that niche conservatism is equally strong in the fundamental and realized niches, which indicates a need to evaluate the potential role of biotic interactions in the evolution of the niche in future studies.
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Affiliation(s)
- Omar Mejía
- Departamento de Zoología, Escuela Nacional de Ciencias Biológicas del Instituto Politécnico Nacional, Ciudad de México, México
| | - Norberto Martínez-Méndez
- Departamento de Zoología, Escuela Nacional de Ciencias Biológicas del Instituto Politécnico Nacional, Ciudad de México, México
| | - Fabian Pérez-Miranda
- Departamento de Zoología, Escuela Nacional de Ciencias Biológicas del Instituto Politécnico Nacional, Ciudad de México, México
- Instituto de Ciencias Biológicas, Universidad de Ciencias y Artes de Chiapas, Chiapas, México
| | - Wilfredo A Matamoros
- Instituto de Ciencias Biológicas, Universidad de Ciencias y Artes de Chiapas, Chiapas, México
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Zhang Q, Ree RH, Salamin N, Xing Y, Silvestro D. Fossil-Informed Models Reveal a Boreotropical Origin and Divergent Evolutionary Trajectories in the Walnut Family (Juglandaceae). Syst Biol 2021; 71:242-258. [PMID: 33964165 PMCID: PMC8677545 DOI: 10.1093/sysbio/syab030] [Citation(s) in RCA: 26] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/15/2020] [Revised: 05/03/2021] [Accepted: 05/03/2021] [Indexed: 12/12/2022] Open
Abstract
Temperate woody plants in the Northern Hemisphere have long been known to exhibit high species richness in East Asia and North America and significantly lower diversity in Europe, but the causes of this pattern remain debated. Here, we quantify the roles of dispersal, niche evolution, and extinction in shaping the geographic diversity of the temperate woody plant family Juglandaceae (walnuts and their relatives). Integrating evidence from molecular, morphological, fossil, and (paleo)environmental data, we find strong support for a Boreotropical origin of the family with contrasting evolutionary trajectories between the temperate subfamily Juglandoideae and the tropical subfamily Engelhardioideae. Juglandoideae rapidly evolved frost tolerance when the global climate shifted to ice-house conditions from the Oligocene, with diversification at high latitudes especially in Europe and Asia during the Miocene. Subsequent range contraction at high latitudes and high levels of extinction in Europe driven by global cooling led to the current regional disparity in species diversity. Engelhardioideae showed temperature conservatism while adapting to increased humidity, tracking tropical climates to low latitudes since the middle Eocene with comparatively little diversification, perhaps due to high competition in the tropical zone. The biogeographic history of Juglandaceae shows that the North Atlantic land bridge and Europe played more critical roles than previously thought in linking the floras of East Asia and North America, and showcases the complex interplay among climate change, niche evolution, dispersal, and extinction that shaped the modern disjunct pattern of species richness in temperate woody plants. [Boreotropical origin; climatic niche evolution; disjunct distribution; dispersal; diversity anomaly; extinction; Juglandaceae.].
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Affiliation(s)
- Qiuyue Zhang
- Key Laboratory of Tropical Forest Ecology, Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences, 666303 Mengla, China
- Department of Biology, University of Fribourg, 1700 Fribourg, Switzerland
- Department of Computational Biology, University of Lausanne, 1015 Lausanne, Switzerland
- College of Resources and Environment, University of Chinese Academy of Sciences, 100049 Beijing, China
| | - Richard H Ree
- Life Sciences Section, Negaunee Integrative Research Center, Field Museum, Chicago, IL, 60605, USA
| | - Nicolas Salamin
- Department of Computational Biology, University of Lausanne, 1015 Lausanne, Switzerland
| | - Yaowu Xing
- Key Laboratory of Tropical Forest Ecology, Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences, 666303 Mengla, China
- Center of Plant Ecology, Core Botanical Gardens, Chinese Academy of Sciences, 666303 Mengla, China
| | - Daniele Silvestro
- Department of Biology, University of Fribourg, 1700 Fribourg, Switzerland
- Swiss Institute of Bioinformatics, Quartier Sorge, 1015 Lausanne, Switzerland
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Lim JY, Patiño J, Noriyuki S, Cayetano L, Gillespie RG, Krehenwinkel H. Semi-quantitative metabarcoding reveals how climate shapes arthropod community assembly along elevation gradients on Hawaii Island. Mol Ecol 2021; 31:1416-1429. [PMID: 34882855 DOI: 10.1111/mec.16323] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/24/2021] [Revised: 11/29/2021] [Accepted: 12/03/2021] [Indexed: 11/28/2022]
Abstract
Spatial variation in climatic conditions along elevation gradients provides an important backdrop by which communities assemble and diversify. Lowland habitats tend to be connected through time, whereas highlands can be continuously or periodically isolated, conditions that have been hypothesized to promote high levels of species endemism. This tendency is expected to be accentuated among taxa that show niche conservatism within a given climatic envelope. While species distribution modeling approaches have allowed extensive exploration of niche conservatism among target taxa, a broad understanding of the phenomenon requires sampling of entire communities. Species-rich groups such as arthropods are ideal case studies for understanding ecological and biodiversity dynamics along elevational gradients given their important functional role in many ecosystems, but community-level studies have been limited due to their tremendous diversity. Here, we develop a novel semi-quantitative metabarcoding approach that combines specimen counts and size-sorting to characterize arthropod community-level diversity patterns along elevational transects on two different volcanoes of the island of Hawai'i. We found that arthropod communities between the two transects became increasingly distinct compositionally at higher elevations. Resistance surface approaches suggest that climatic differences between sampling localities are an important driver in shaping beta-diversity patterns, though the relative importance of climate varies across taxonomic groups. Nevertheless, the climatic niche position of OTUs between transects was highly correlated, suggesting that climatic filters shape the colonization between adjacent volcanoes. Taken together, our results highlight climatic niche conservatism as an important factor shaping ecological assembly along elevational gradients and suggest topographic complexity as an important driver of diversification.
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Affiliation(s)
- Jun Ying Lim
- Department of Biological Sciences, National University of Singapore, Singapore, Singapore
| | - Jairo Patiño
- Island Ecology and Evolution Research Group, Institute of Natural Products and Agrobiology (IPNA-CSIC), La Laguna, Spain.,Department of Botany, Ecology and Plant Physiology, University of La Laguna, La Laguna, Spain
| | - Suzuki Noriyuki
- Faculty of Agriculture and Marine Science, Kochi University, Kochi, Japan
| | - Luis Cayetano
- Biology Department, Merced College, Merced, California, USA
| | - Rosemary G Gillespie
- Department of Environmental Science, Policy and Management, University of California, Berkeley, Berkeley, California, USA
| | - Henrik Krehenwinkel
- Department of Biogeography, Faculty of Regional and Environmental Sciences, Trier University, Trier, Germany
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30
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Russell VL, Stevens MHH, Zeisler AA, Jezkova T. Identifying regional environmental factors driving differences in climatic niche overlap in Peromyscus mice. J Mammal 2021. [DOI: 10.1093/jmammal/gyab126] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Abstract
Different groups of taxa exhibit varying degree of climatic niche conservatism or divergence due to evolutionary constraints imposed on taxa and distributional relationships among them. Herein, we explore to what extent regional environmental conditions that taxa occupy affect climatic niche overlap between pairs of congeneric species of Peromyscus mice exhibiting allopatric, parapatric, or sympatric distributions. We used Bayesian generalized linear mixed models to identify environmental variables that best explain differences in climatic niche overlap between species. Our results suggest that regional environmental conditions explain 13–44% of variation in climatic niche overlap. Specifically, allopatric and parapatric species pairs are more likely to occupy similar climatic niches in areas that are topographically less complex but with more complex habitats. Sympatric species are more likely to occupy similar climatic niches in areas that promote local niche partitioning (topographically less complex, warmer winter temperatures, higher precipitation, and higher habitat complexity on a local scale). By understanding the relationship between regional environmental conditions and niche overlap, we highlight how differences in geography can contribute to shaping niches of congeneric species.
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Affiliation(s)
- Vanessa L Russell
- Department of Biology, Miami University, 501 East High St, Oxford, OH 45056, USA
| | - M Henry H Stevens
- Department of Biology, Miami University, 501 East High St, Oxford, OH 45056, USA
| | - Addison A Zeisler
- Department of Biology, Miami University, 501 East High St, Oxford, OH 45056, USA
| | - Tereza Jezkova
- Department of Biology, Miami University, 501 East High St, Oxford, OH 45056, USA
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33
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Baken EK, Mellenthin LE, Adams DC. Is salamander arboreality limited by broad-scale climatic conditions? PLoS One 2021; 16:e0255393. [PMID: 34407101 PMCID: PMC8372966 DOI: 10.1371/journal.pone.0255393] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2020] [Accepted: 07/15/2021] [Indexed: 11/18/2022] Open
Abstract
Identifying the historical processes that drive microhabitat transitions across deep time is of great interest to evolutionary biologists. Morphological variation can often reveal such mechanisms, but in clades with high microhabitat diversity and no concomitant morphological specialization, the factors influencing animal transitions across microhabitats are more difficult to identify. Lungless salamanders (family: Plethodontidae) have transitioned into and out of the arboreal microhabitat many times throughout their evolutionary history without substantial morphological specialization. In this study, we explore the relationship between microhabitat use and broad-scale climatic patterns across species' ranges to test the role of climate in determining the availability of the arboreal microhabitat. Using phylogenetic comparative methods, we reveal that arboreal species live in warmer, lower elevation regions than terrestrial species. We also employ ecological niche modeling as a complementary approach, quantifying species-level pairwise comparisons of niche overlap. The results of this approach demonstrate that arboreal species on average display more niche overlap with other arboreal species than with terrestrial species after accounting for non-independence of niche model pairs caused by geographic and phylogenetic distances. Our results suggest that occupation of the arboreal microhabitat by salamanders may only be possible in sufficiently warm, low elevation conditions. More broadly, this study indicates that the impact of micro-environmental conditions on temporary microhabitat use, as demonstrated by small-scale ecological studies, may scale up dramatically to shape macroevolutionary patterns.
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Affiliation(s)
- Erica K. Baken
- Department of Science, Chatham University, Pittsburgh, Pennsylvania, United States of America
| | - Lauren E. Mellenthin
- Department of Ecology and Evolutionary Biology, Yale University, New Haven, Connecticut, United States of America
| | - Dean C. Adams
- Department of Ecology, Evolution, and Organismal Biology, Iowa State University, Ames, Iowa, United States of America
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34
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Lin X, Shih C, Hou Y, Shu X, Zhang M, Hu J, Jiang J, Xie F. Climatic-niche evolution with key morphological innovations across clades within Scutiger boulengeri (Anura: Megophryidae). Ecol Evol 2021; 11:10353-10368. [PMID: 34367580 PMCID: PMC8328447 DOI: 10.1002/ece3.7838] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/07/2021] [Revised: 05/23/2021] [Accepted: 06/02/2021] [Indexed: 11/24/2022] Open
Abstract
The studies of climatic-niche shifts over evolutionary time accompanied by key morphological innovations have attracted the interest of many researchers recently. We applied ecological niche models (ENMs), ordination method (environment principal component analyses; PCA-env), combined phylogenetic comparative methods (PCMs), and phylogenetic generalized least squares (PGLS) regression methods to analyze the realized niche dynamics and correspondingly key morphological innovations across clades within Scutiger boulengeri throughout their distributions in Qinghai-Tibet Plateau (QTP) margins of China. Our results show there are six clades in S. boulengeri and obvious niche divergences caused by niche expansion in three clades. Moreover, in our system, niche expansion is more popular than niche unfilling into novel environmental conditions. Annual mean temperature, annual precipitation, and precipitation of driest month may contribute to such a shift. In addition, we identified several key climatic factors and morphological traits that tend to be associated with niche expansion in S. boulengeri clades correspondingly. We found phenotypic plasticity [i.e., length of lower arm and hand (LAHL), hind-limb length (HLL), and foot length (FL)] and evolutionary changes [i.e., snout-vent length (SVL)] may together contribute to niche expansion toward adapting novel niche, which provides us a potential pattern of how a colonizing toad might seed a novel habitat to begin the process of speciation and finally adaptive radiation. For these reasons, persistent phylogeographic divisions and accompanying divergences in niche occupancy and morphological adaption suggest that for future studies, distinct genetic structure and morphological changes corresponding to each genetic clade should be included in modeling niche evolution dynamics, but not just constructed at the species level.
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Affiliation(s)
- Xiuqin Lin
- CAS Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization and Ecological Restoration Biodiversity Conservation Key Laboratory of Sichuan ProvinceChengdu Institute of BiologyChinese Academy of SciencesChengduChina
- University of Chinese Academy of SciencesBeijingChina
| | - Chungkun Shih
- College of Life Sciences and Academy for Multidisciplinary StudiesCapital Normal UniversityBeijingChina
- Department of PaleobiologyNational Museum of Natural HistorySmithsonian InstitutionWashingtonDCUSA
| | - Yinmeng Hou
- CAS Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization and Ecological Restoration Biodiversity Conservation Key Laboratory of Sichuan ProvinceChengdu Institute of BiologyChinese Academy of SciencesChengduChina
- University of Chinese Academy of SciencesBeijingChina
| | - Xiaoxiao Shu
- CAS Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization and Ecological Restoration Biodiversity Conservation Key Laboratory of Sichuan ProvinceChengdu Institute of BiologyChinese Academy of SciencesChengduChina
- University of Chinese Academy of SciencesBeijingChina
| | - Meihua Zhang
- University of Chinese Academy of SciencesBeijingChina
| | - Junhua Hu
- CAS Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization and Ecological Restoration Biodiversity Conservation Key Laboratory of Sichuan ProvinceChengdu Institute of BiologyChinese Academy of SciencesChengduChina
- University of Chinese Academy of SciencesBeijingChina
| | - Jianping Jiang
- CAS Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization and Ecological Restoration Biodiversity Conservation Key Laboratory of Sichuan ProvinceChengdu Institute of BiologyChinese Academy of SciencesChengduChina
- University of Chinese Academy of SciencesBeijingChina
- Mangkang Ecological StationTibet Ecological Safety Monitor NetworkChangduChina
| | - Feng Xie
- CAS Key Laboratory of Mountain Ecological Restoration and Bioresource Utilization and Ecological Restoration Biodiversity Conservation Key Laboratory of Sichuan ProvinceChengdu Institute of BiologyChinese Academy of SciencesChengduChina
- University of Chinese Academy of SciencesBeijingChina
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Bakkes DK, Ropiquet A, Chitimia-Dobler L, Matloa DE, Apanaskevich DA, Horak IG, Mans BJ, Matthee CA. Adaptive radiation and speciation in Rhipicephalus ticks: A medley of novel hosts, nested predator-prey food webs, off-host periods and dispersal along temperature variation gradients. Mol Phylogenet Evol 2021; 162:107178. [PMID: 33892098 DOI: 10.1016/j.ympev.2021.107178] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2020] [Revised: 03/18/2021] [Accepted: 04/13/2021] [Indexed: 01/22/2023]
Abstract
Rhipicephalus are a species-diverse genus of ticks, mainly distributed in the Afrotropics with some species in the Palearctic and Oriental regions. Current taxonomic consensus comprise nine informal species groups/lineages based on immature morphology. This work integrates biogeographic, ecological and molecular lines of evidence to better understand Rhipicephalus evolution. Phylogenetic analysis based on four genes (12S, 16S, 28S-D2 and COI) recovered five distinct clades with nine descendant clades that are generally congruent with current taxonomy, with some exceptions. Historical biogeography is inferred from molecular divergence times, ancestral distribution areas, host-use and climate niches of four phylogenetically significant bioclimatic variables (isothermality, annual, seasonal and diurnal temperature range). Novel hosts enabled host-linked dispersal events into new environments, and ticks exploited new hosts through nested predator-prey connections in food webs. Diversification was further induced by climate niche partitioning along gradients in temperature range during off-host periods. Ancestral climate niche estimates corroborated dispersal events by indicating hypothetical ancestors moved into environments with different annual and seasonal temperature ranges along latitudinal gradients. Host size for immature and adult life stages was important for dispersal and subsequent diversification rates. Clades that utilise large, mobile hosts (ungulates and carnivores) early in development have wider geographic ranges but slower diversification rates, and those utilising small, less mobile hosts (rodents, lagomorphs and afroinsectivores) early in development have smaller ranges but higher diversification rates. These findings suggest diversification is driven by a complex set of factors linked to both host-associations (host size, ranges and mobility) and climate niche partitioning along annual and seasonal temperature range gradients that vary with latitude. Moreover, competitive interactions can reinforce these processes and drive speciation. Off-host periods facilitate adaptive radiation by enabling host switches along nested predator-prey connections in food webs, but at the cost of environmental exposure that partitions niches among dispersing progenitors, disrupting geneflow and driving diversification. As such, the evolution and ecological niches of Rhipicephalus are characterised by trade-offs between on- and off-host periods, and these trade-offs interact with nested predator-prey connections in food webs, host-use at different life stages, as well as gradients in annual and seasonal temperature ranges to drive adaptive radiation and speciation.
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Affiliation(s)
- Deon K Bakkes
- Gertrud Theiler Tick Museum - Epidemiology, Parasites and Vectors, Agricultural Research Council - Onderstepoort Veterinary Research, Pretoria 0110, South Africa; Evolutionary Genomics Group, Department of Botany and Zoology, Stellenbosch University, Private Bag X1, Matieland 7602, South Africa.
| | - Anne Ropiquet
- Evolutionary Genomics Group, Department of Botany and Zoology, Stellenbosch University, Private Bag X1, Matieland 7602, South Africa; Middlesex University, Department of Natural Sciences- Faculty of Science and Technology, London NW4 4BT, United Kingdom
| | | | - Dikeledi E Matloa
- Gertrud Theiler Tick Museum - Epidemiology, Parasites and Vectors, Agricultural Research Council - Onderstepoort Veterinary Research, Pretoria 0110, South Africa
| | - Dmitry A Apanaskevich
- United States National Tick Collection, the James H. Oliver, Jr. Institute for Coastal Plain Science, Georgia Southern University, Statesboro, GA 30460-8042, USA; Biology Department, Georgia Southern University, Statesboro, GA 30460, USA; Zoological Institute, Russian Academy of Sciences, St. Petersburg 199034, Russia
| | - Ivan G Horak
- Department of Veterinary Tropical Diseases, University of Pretoria, Pretoria, South Africa
| | - Ben J Mans
- Gertrud Theiler Tick Museum - Epidemiology, Parasites and Vectors, Agricultural Research Council - Onderstepoort Veterinary Research, Pretoria 0110, South Africa; Department of Veterinary Tropical Diseases, University of Pretoria, Pretoria, South Africa; Department of Life and Consumer Sciences, University of South Africa, South Africa
| | - Conrad A Matthee
- Evolutionary Genomics Group, Department of Botany and Zoology, Stellenbosch University, Private Bag X1, Matieland 7602, South Africa
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Abstract
AbstractMany organisms are specialized, and these narrow niches are often explained with trade-offs-the inability for one organism to express maximal performance in two or more environments. However, evidence is lacking that trade-offs are sufficient to explain specialists. Several lines of theoretical inquiry suggest that populations can specialize without explicit trade-offs, as a result of relaxed selection in generalists for their performance in rare environments. Here, I synthesize and extend these approaches, showing that emergent asymmetries in evolvability can push a population toward specialization in the absence of trade-offs and in the presence of substantial ecological costs of specialism. Simulations are used to demonstrate how adaptation to a more common environment interferes with adaptation to a less common but otherwise equal alternative environment and that this interference is greatly exacerbated at low recombination rates. This adaptive process of specialization can effectively trap populations in a suboptimal niche. These modeling results predict that transient differences in evolvability across traits during a single episode of adaptation could have long-term consequences for a population's niche.
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Montero-Mendieta S, De la Riva I, Irisarri I, Leonard JA, Webster MT, Vilà C. Phylogenomics and evolutionary history of Oreobates (Anura: Craugastoridae) Neotropical frogs along elevational gradients. Mol Phylogenet Evol 2021; 161:107167. [PMID: 33798672 DOI: 10.1016/j.ympev.2021.107167] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2020] [Revised: 03/11/2021] [Accepted: 03/25/2021] [Indexed: 10/21/2022]
Abstract
Mountain ranges offer opportunities for understanding how species evolved and diversified across different environmental conditions. Neotropical frogs of the genus Oreobates (Anura: Craugastoridae) are adapted to highland and lowland habitats along the Andes, but many aspects of their evolution remain unknown. We studied their evolutionary history using ~18,000 exons enriched by targeted sequence-capture. Since capture success was very variable across samples, we evaluated to what degree differing data filtering produced robust inferences. The inferred evolutionary framework evidenced phylogenetic discordances among lowland species that can be explained by taxonomic misidentification or admixture of ancestral lineages. Highland species showed smaller effective populations than lowland frogs, probably due to greater habitat fragmentation in montane environments. Stronger genetic drift likely decreased the power of purifying selection and led to an increased proportion of nonsynonymous mutations in highland populations that could play an important role in their adaptation. Overall, our work sheds light on the evolutionary history and diversification of this group of Neotropical frogs along elevational gradients in the Andes as well as on their patterns of intraspecific diversity.
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Affiliation(s)
- Santiago Montero-Mendieta
- Conservation and Evolutionary Genetics Group, Estación Biológica de Doñana (EBD-CSIC), Seville, Spain
| | - Ignacio De la Riva
- Department of Biodiversity and Evolutionary Biology, Museo Nacional de Ciencias Naturales (MNCN-CSIC), Madrid, Spain
| | - Iker Irisarri
- Department of Biodiversity and Evolutionary Biology, Museo Nacional de Ciencias Naturales (MNCN-CSIC), Madrid, Spain
| | - Jennifer A Leonard
- Conservation and Evolutionary Genetics Group, Estación Biológica de Doñana (EBD-CSIC), Seville, Spain
| | - Matthew T Webster
- Department of Medical Biochemistry and Microbiology, Science for Life Laboratory, Uppsala University, Uppsala, Sweden
| | - Carles Vilà
- Conservation and Evolutionary Genetics Group, Estación Biológica de Doñana (EBD-CSIC), Seville, Spain.
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38
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Hernández-Hernández T, Miller EC, Román-Palacios C, Wiens JJ. Speciation across the Tree of Life. Biol Rev Camb Philos Soc 2021; 96:1205-1242. [PMID: 33768723 DOI: 10.1111/brv.12698] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2019] [Revised: 02/13/2021] [Accepted: 02/16/2021] [Indexed: 01/04/2023]
Abstract
Much of what we know about speciation comes from detailed studies of well-known model systems. Although there have been several important syntheses on speciation, few (if any) have explicitly compared speciation among major groups across the Tree of Life. Here, we synthesize and compare what is known about key aspects of speciation across taxa, including bacteria, protists, fungi, plants, and major animal groups. We focus on three main questions. Is allopatric speciation predominant across groups? How common is ecological divergence of sister species (a requirement for ecological speciation), and on what niche axes do species diverge in each group? What are the reproductive isolating barriers in each group? Our review suggests the following patterns. (i) Based on our survey and projected species numbers, the most frequent speciation process across the Tree of Life may be co-speciation between endosymbiotic bacteria and their insect hosts. (ii) Allopatric speciation appears to be present in all major groups, and may be the most common mode in both animals and plants, based on non-overlapping ranges of sister species. (iii) Full sympatry of sister species is also widespread, and may be more common in fungi than allopatry. (iv) Full sympatry of sister species is more common in some marine animals than in terrestrial and freshwater ones. (v) Ecological divergence of sister species is widespread in all groups, including ~70% of surveyed species pairs of plants and insects. (vi) Major axes of ecological divergence involve species interactions (e.g. host-switching) and habitat divergence. (vii) Prezygotic isolation appears to be generally more widespread and important than postzygotic isolation. (viii) Rates of diversification (and presumably speciation) are strikingly different across groups, with the fastest rates in plants, and successively slower rates in animals, fungi, and protists, with the slowest rates in prokaryotes. Overall, our study represents an initial step towards understanding general patterns in speciation across all organisms.
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Affiliation(s)
- Tania Hernández-Hernández
- Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ, 85721-0088, U.S.A.,Catedrática CONACYT asignada a LANGEBIO-UGA Cinvestav, Libramiento Norte Carretera León Km 9.6, 36821, Irapuato, Guanajuato, Mexico
| | - Elizabeth C Miller
- Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ, 85721-0088, U.S.A
| | - Cristian Román-Palacios
- Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ, 85721-0088, U.S.A
| | - John J Wiens
- Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ, 85721-0088, U.S.A
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39
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Bandeira LN, Villalobos F, Werneck FP, Peterson AT, Anciães M. Different elevational environments dictate contrasting patterns of niche evolution in Neotropical
Pithecopus
treefrog species. Biotropica 2021. [DOI: 10.1111/btp.12929] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
| | - Fabricio Villalobos
- Red de Biología Evolutiva Instituto de Ecología Veracruz Mexico
- Departamento de Ecologia Instituto de Ciências Biológicas Universidade Federal de Goiás ‐ UFG CP 131 Goiânia Goiás Brasil
| | - Fernanda P. Werneck
- PPG‐Ecologia Instituto Nacional de Pesquisa da Amazônia ‐ INPA Manaus Amazonas Brasil
- Coordenação de Pesquisa em Biodiversidade e Programa de Coleções Científicas Biológicas Instituto Nacional de Pesquisa da Amazônia ‐ INPA Manaus Amazonas Brasil
| | | | - Marina Anciães
- PPG‐Ecologia Instituto Nacional de Pesquisa da Amazônia ‐ INPA Manaus Amazonas Brasil
- Coordenação de Pesquisa em Biodiversidade e Programa de Coleções Científicas Biológicas Instituto Nacional de Pesquisa da Amazônia ‐ INPA Manaus Amazonas Brasil
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40
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Xu Y, Shen Z, Zhang J, Zang R, Jiang Y. The Effects of Multi-Scale Climate Variability on Biodiversity Patterns of Chinese Evergreen Broad-Leaved Woody Plants: Growth Form Matters. Front Ecol Evol 2021. [DOI: 10.3389/fevo.2020.540948] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
Large-scale patterns of species diversity are thought to be linked to contemporary climate variability and Quaternary glacial–interglacial climate change. For plants, growth forms integrate traits related to competition or migration capacity, which determine their abilities to deal with the climate variability they face. Evergreen broad-leaved woody plants (EBWPs) are major components of numerous biomes in the subtropical and tropical regions. Hence, incorporating phylogenetic (temporal) and biogeographic (spatial) approaches, we assessed the relative importance of short- and long-term climate variability for biodiversity patterns of different growth forms (i.e., tree, shrub, liana, and bamboo) in EBWPs. We used a dated phylogeny and the distribution records for 6,265 EBWP species which are naturally occurred in China, and computed the corrected weighted endemism, standardized phylogenetic diversity and net relatedness index for the four growth forms, respectively. Ordinary least squares linear regressions, spatial error simultaneous autoregressive models, partial regression and hierarchical variation partitioning were employed to estimate the explanatory power of contemporary climate variability and climate-change velocity from the Last Glacial Maximum to the present. Our results showed that short- and long-term climate variability play complementary role in the biogeographic patterns of Chinese EBWPs. The former had larger effects, but the legacy effects of past climate changes were also remarkable. There were also differences in the effects of historical and current climate among the four growth forms, which support growth forms as a critical plant trait in predicting vegetation response to climate change. Compared to the glacial-interglacial climate fluctuation, seasonality as a unique feature of mid-latitude monsoon climate played a dominant role in the diversification and distribution of EBWP species at the macroscale. The results indicated that the relative importance of climate variability at different temporal scales may relate to distinct mechanisms. To understand effects of future climate change on species distribution more thoroughly, climate conditions in different time scales should be incorporated.
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Abstract
Spiders (Araneae) make up a remarkably diverse lineage of predators that have successfully colonized most terrestrial ecosystems. All spiders produce silk, and many species use it to build capture webs with an extraordinary diversity of forms. Spider diversity is distributed in a highly uneven fashion across lineages. This strong imbalance in species richness has led to several causal hypotheses, such as codiversification with insects, key innovations in silk structure and web architecture, and loss of foraging webs. Recent advances in spider phylogenetics have allowed testing of some of these hypotheses, but results are often contradictory, highlighting the need to consider additional drivers of spider diversification. The spatial and historical patterns of diversity and diversification remain contentious. Comparative analyses of spider diversification will advance only if we continue to make progress with studies of species diversity, distribution, and phenotypic traits, together with finer-scale phylogenies and genomic data.
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Affiliation(s)
- Dimitar Dimitrov
- Department of Natural History, University Museum of Bergen, University of Bergen, 5020 Bergen, Norway;
| | - Gustavo Hormiga
- Department of Biological Sciences, The George Washington University, Washington, DC 20052, USA;
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42
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Namyatova AA. Climatic niche comparison between closely related trans-Palearctic species of the genus Orthocephalus (Insecta: Heteroptera: Miridae: Orthotylinae). PeerJ 2020; 8:e10517. [PMID: 33362973 PMCID: PMC7747689 DOI: 10.7717/peerj.10517] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2020] [Accepted: 11/17/2020] [Indexed: 11/29/2022] Open
Abstract
Previously climatic niche modelling had been studied for only a few trans-Palearctic species. It is unclear whether and to what extent those niches are different, and which climatic variables influence such a wide distribution. Here, environmental niche modelling is performed based on the Worldclim variables using Maxent for eight species of the genus Orthocephalus (Insecta: Heteroptera: Miridae: Orthotylinae). This group belongs to one of the largest insect families and it is distributed across Palearctic. Orthocephalus bivittatus, O. brevis, O. saltator and O. vittipennis are distributed across Europe and Asia; O. coriaceus, O. fulvipes, O. funestus, O. proserpinae have more limited distribution. Niche comparison using ENMTools was also undertaken to compare the niches of these species, and to test whether the niches of closely related species with trans-Palearctic distributions are more similar to each other, than to other congeners. It has been found that climatic niche models of all trans-Palearctic species under study are similar but are not identical to each other. This has been supported by niche geographic projections, climatic variables contributing to the models and variable ranges. Climatic niche models of all the trans-Palearctic Orthocephalus species are also very similar to two species having more restricted distribution (O. coriaceus, O. funestus). Results of this study suggest that trans-Palearctic distributions can have different geographic ranges and be shaped by different climatic factors.
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Affiliation(s)
- Anna A Namyatova
- Laboratory of Phytosanitary Diagnostics and Forecasts, All-Russian Institute of Plant Protection, St Petersburg, Russia.,Laboratory of Insect Taxonomy, Zoological Institute, Russian Academy of Sciences, St Petersburg, Russia
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43
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Melander SL, Mueller RL. Comprehensive Analysis of Salamander Hybridization Suggests a Consistent Relationship between Genetic Distance and Reproductive Isolation across Tetrapods. COPEIA 2020. [DOI: 10.1643/ch-19-319] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
Affiliation(s)
- Scott Lucas Melander
- Department of Biology, Colorado State University, 251 W Pitkin Street, Fort Collins, Colorado 80523; (SLM) ; and (RLM) . Send reprint requests to SLM
| | - Rachel Lockridge Mueller
- Department of Biology, Colorado State University, 251 W Pitkin Street, Fort Collins, Colorado 80523; (SLM) ; and (RLM) . Send reprint requests to SLM
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44
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De La Harpe M, Paris M, Hess J, Barfuss MHJ, Serrano-Serrano ML, Ghatak A, Chaturvedi P, Weckwerth W, Till W, Salamin N, Wai CM, Ming R, Lexer C. Genomic footprints of repeated evolution of CAM photosynthesis in a Neotropical species radiation. PLANT, CELL & ENVIRONMENT 2020; 43:2987-3001. [PMID: 32677061 DOI: 10.1111/pce.13847] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/21/2020] [Revised: 06/28/2020] [Accepted: 07/05/2020] [Indexed: 05/24/2023]
Abstract
The adaptive radiation of Bromeliaceae (pineapple family) is one of the most diverse among Neotropical flowering plants. Diversification in this group was facilitated by shifts in several adaptive traits or "key innovations" including the transition from C3 to CAM photosynthesis associated with xeric (heat/drought) adaptation. We used phylogenomic approaches, complemented by differential gene expression (RNA-seq) and targeted metabolite profiling, to address the mechanisms of C3 /CAM evolution in the extremely species-rich bromeliad genus, Tillandsia, and related taxa. Evolutionary analyses of whole-genome sequencing and RNA-seq data suggest that evolution of CAM is associated with coincident changes to different pathways mediating xeric adaptation in this group. At the molecular level, C3 /CAM shifts were accompanied by gene expansion of XAP5 CIRCADIAN TIMEKEEPER homologs, a regulator involved in sugar- and light-dependent regulation of growth and development. Our analyses also support the re-programming of abscisic acid-related gene expression via differential expression of ABF2/ABF3 transcription factor homologs, and adaptive sequence evolution of an ENO2/LOS2 enolase homolog, effectively tying carbohydrate flux to abscisic acid-mediated abiotic stress response. By pinpointing different regulators of overlapping molecular responses, our results suggest plausible mechanistic explanations for the repeated evolution of correlated adaptive traits seen in a textbook example of an adaptive radiation.
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Affiliation(s)
- Marylaure De La Harpe
- Department of Botany and Biodiversity Research, Division of Systematic and Evolutionary Botany, Faculty of Life Sciences, University of Vienna, Vienna, Austria
- Department of Biology, Unit of Ecology & Evolution, University of Fribourg, Fribourg, Switzerland
| | - Margot Paris
- Department of Botany and Biodiversity Research, Division of Systematic and Evolutionary Botany, Faculty of Life Sciences, University of Vienna, Vienna, Austria
- Department of Biology, Unit of Ecology & Evolution, University of Fribourg, Fribourg, Switzerland
| | - Jaqueline Hess
- Department of Botany and Biodiversity Research, Division of Systematic and Evolutionary Botany, Faculty of Life Sciences, University of Vienna, Vienna, Austria
| | - Michael Harald Johannes Barfuss
- Department of Botany and Biodiversity Research, Division of Systematic and Evolutionary Botany, Faculty of Life Sciences, University of Vienna, Vienna, Austria
| | | | - Arindam Ghatak
- Department of Functional and Evolutionary Ecology, Division of Molecular Systems Biology (MOSYS), Faculty of Life Sciences, University of Vienna, Vienna, Austria
- Vienna Metabolomics Center (VIME), University of Vienna, Vienna, Austria
| | - Palak Chaturvedi
- Department of Functional and Evolutionary Ecology, Division of Molecular Systems Biology (MOSYS), Faculty of Life Sciences, University of Vienna, Vienna, Austria
- Vienna Metabolomics Center (VIME), University of Vienna, Vienna, Austria
| | - Wolfram Weckwerth
- Department of Functional and Evolutionary Ecology, Division of Molecular Systems Biology (MOSYS), Faculty of Life Sciences, University of Vienna, Vienna, Austria
- Vienna Metabolomics Center (VIME), University of Vienna, Vienna, Austria
| | - Walter Till
- Department of Botany and Biodiversity Research, Division of Systematic and Evolutionary Botany, Faculty of Life Sciences, University of Vienna, Vienna, Austria
| | - Nicolas Salamin
- Department of Computational Biology, Faculty of Biology and Medicine, University of Lausanne, Lausanne, Switzerland
| | - Ching Man Wai
- Department of Horticulture, College of Agriculture and Natural Resources, Michigan State University, East Lansing, Michigan, USA
| | - Ray Ming
- Department of Plant Biology, School of Integrative Biology, University of Illinois at Urbana-Champaign, Urbana, Illinois, USA
| | - Christian Lexer
- Department of Botany and Biodiversity Research, Division of Systematic and Evolutionary Botany, Faculty of Life Sciences, University of Vienna, Vienna, Austria
- Department of Biology, Unit of Ecology & Evolution, University of Fribourg, Fribourg, Switzerland
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45
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Machine learning approaches identify male body size as the most accurate predictor of species richness. BMC Biol 2020; 18:105. [PMID: 32854698 PMCID: PMC7453550 DOI: 10.1186/s12915-020-00835-y] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2020] [Accepted: 07/22/2020] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND A major challenge in biodiversity science is to understand the factors contributing to the variability of species richness -the number of different species in a community or region - among comparable taxonomic lineages. Multiple biotic and abiotic factors have been hypothesized to have an effect on species richness and have been used as its predictors, but identifying accurate predictors is not straightforward. Spiders are a highly diverse group, with some 48,000 species in 120 families; yet nearly 75% of all species are found within just the ten most speciose families. Here we use a Random Forest machine learning algorithm to test the predictive power of different variables hypothesized to affect species richness of spider genera. RESULTS We test the predictive power of 22 variables from spiders' morphological, genetic, geographic, ecological and behavioral landscapes on species richness of 45 genera selected to represent the phylogenetic and biological breath of Araneae. Among the variables, Random Forest analyses find body size (specifically, minimum male body size) to best predict species richness. Multiple Correspondence analysis confirms this outcome through a negative relationship between male body size and species richness. Multiple Correspondence analyses furthermore establish that geographic distribution of congeneric species is positively associated with genus diversity, and that genera from phylogenetically older lineages are species poorer. Of the spider-specific traits, neither the presence of ballooning behavior, nor sexual size dimorphism, can predict species richness. CONCLUSIONS We show that machine learning analyses can be used in deciphering the factors associated with diversity patterns. Since no spider-specific biology could predict species richness, but the biologically universal body size did, we believe these conclusions are worthy of broader biological testing. Future work on other groups of organisms will establish whether the detected associations of species richness with small body size and wide geographic ranges hold more broadly.
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46
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Lu W. Digest: Developmental life history and adaptive radiation in salamanders*. Evolution 2020; 74:1879-1880. [DOI: 10.1111/evo.14060] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2020] [Accepted: 06/27/2020] [Indexed: 11/30/2022]
Affiliation(s)
- Wei Lu
- Department of Ecology & Evolution University of Chicago Chicago Illinois 60637
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47
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Sun M, Folk RA, Gitzendanner MA, Soltis PS, Chen Z, Soltis DE, Guralnick RP. Recent accelerated diversification in rosids occurred outside the tropics. Nat Commun 2020; 11:3333. [PMID: 32620894 PMCID: PMC7335165 DOI: 10.1038/s41467-020-17116-5] [Citation(s) in RCA: 23] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2019] [Accepted: 06/05/2020] [Indexed: 01/28/2023] Open
Abstract
Conflicting relationships have been found between diversification rate and temperature across disparate clades of life. Here, we use a supermatrix comprising nearly 20,000 species of rosids-a clade of ~25% of all angiosperm species-to understand global patterns of diversification and its climatic association. Our approach incorporates historical global temperature, assessment of species' temperature niche, and two broad-scale characterizations of tropical versus non-tropical niche occupancy. We find the diversification rates of most subclades dramatically increased over the last 15 million years (Myr) during cooling associated with global expansion of temperate habitats. Climatic niche is negatively associated with diversification rates, with tropical rosids forming older communities and experiencing speciation rates ~2-fold below rosids in cooler climates. Our results suggest long-term cooling had a disproportionate effect on non-tropical diversification rates, leading to dynamic young communities outside of the tropics, while relative stability in tropical climes led to older, slower-evolving but still species-rich communities.
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Affiliation(s)
- Miao Sun
- Florida Museum of Natural History, University of Florida, Gainesville, FL, 32611, USA. .,Department of Bioscience, Aarhus University, Aarhus, 8000C, Denmark. .,State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, The Chinese Academy of Sciences, Beijing, 100093, China.
| | - Ryan A Folk
- Department of Biological Sciences, Mississippi State University, Starkville, MS, 39762, USA.
| | - Matthew A Gitzendanner
- Department of Biology, University of Florida, Gainesville, FL, 32611, USA.,Biodiversity Institute, University of Florida, Gainesville, FL, 32611, USA
| | - Pamela S Soltis
- Florida Museum of Natural History, University of Florida, Gainesville, FL, 32611, USA.,Biodiversity Institute, University of Florida, Gainesville, FL, 32611, USA.,Genetics Institute, University of Florida, Gainesville, FL, 32608, USA
| | - Zhiduan Chen
- State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, The Chinese Academy of Sciences, Beijing, 100093, China
| | - Douglas E Soltis
- Florida Museum of Natural History, University of Florida, Gainesville, FL, 32611, USA.,Department of Biology, University of Florida, Gainesville, FL, 32611, USA.,Biodiversity Institute, University of Florida, Gainesville, FL, 32611, USA.,Genetics Institute, University of Florida, Gainesville, FL, 32608, USA
| | - Robert P Guralnick
- Florida Museum of Natural History, University of Florida, Gainesville, FL, 32611, USA. .,Biodiversity Institute, University of Florida, Gainesville, FL, 32611, USA.
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48
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Owens HL, Ribeiro V, Saupe EE, Cobos ME, Hosner PA, Cooper JC, Samy AM, Barve V, Barve N, Muñoz‐R. CJ, Peterson AT. Acknowledging uncertainty in evolutionary reconstructions of ecological niches. Ecol Evol 2020; 10:6967-6977. [PMID: 32760505 PMCID: PMC7391559 DOI: 10.1002/ece3.6359] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2020] [Revised: 04/07/2020] [Accepted: 04/22/2020] [Indexed: 01/05/2023] Open
Abstract
Reconstructing ecological niche evolution can provide insight into the biogeography and diversification of evolving lineages. However, comparative phylogenetic methods may infer the history of ecological niche evolution inaccurately because (a) species' niches are often poorly characterized; and (b) phylogenetic comparative methods rely on niche summary statistics rather than full estimates of species' environmental tolerances. Here, we propose a new framework for coding ecological niches and reconstructing their evolution that explicitly acknowledges and incorporates the uncertainty introduced by incomplete niche characterization. Then, we modify existing ancestral state inference methods to leverage full estimates of environmental tolerances. We provide a worked empirical example of our method, investigating ecological niche evolution in the New World orioles (Aves: Passeriformes: Icterus spp.). Temperature and precipitation tolerances were generally broad and conserved among orioles, with niche reduction and specialization limited to a few terminal branches. Tools for performing these reconstructions are available in a new R package called nichevol.
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Affiliation(s)
- Hannah L. Owens
- Center for Macroecology, Evolution, and ClimateGLOBE InstituteUniversity of CopenhagenCopenhagenDenmark
- Florida Museum of Natural HistoryUniversity of FloridaGainesvilleFLUSA
| | | | - Erin E. Saupe
- Department of Earth SciencesUniversity of OxfordOxfordUK
| | | | - Peter A. Hosner
- Center for Macroecology, Evolution, and ClimateGLOBE InstituteUniversity of CopenhagenCopenhagenDenmark
| | - Jacob C. Cooper
- Committee on Evolutionary BiologyThe University of ChicagoChicagoILUSA
| | - Abdallah M. Samy
- Entomology DepartmentFaculty of ScienceAin Shams UniversityCairoEgypt
| | - Vijay Barve
- Florida Museum of Natural HistoryUniversity of FloridaGainesvilleFLUSA
| | - Narayani Barve
- Florida Museum of Natural HistoryUniversity of FloridaGainesvilleFLUSA
| | - Carlos J. Muñoz‐R.
- Laboratorio de Análisis EspacialesInstituto de BiologíaUniversidad Nacional Autónoma de MéxicoCiudad de MéxicoMexico
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49
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Nürk NM, Linder HP, Onstein RE, Larcombe MJ, Hughes CE, Piñeiro Fernández L, Schlüter PM, Valente L, Beierkuhnlein C, Cutts V, Donoghue MJ, Edwards EJ, Field R, Flantua SGA, Higgins SI, Jentsch A, Liede‐Schumann S, Pirie MD. Diversification in evolutionary arenas-Assessment and synthesis. Ecol Evol 2020; 10:6163-6182. [PMID: 32607221 PMCID: PMC7319112 DOI: 10.1002/ece3.6313] [Citation(s) in RCA: 20] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/13/2019] [Revised: 03/30/2020] [Accepted: 04/06/2020] [Indexed: 12/23/2022] Open
Abstract
Understanding how and why rates of evolutionary diversification vary is a key issue in evolutionary biology, ecology, and biogeography. Evolutionary rates are the net result of interacting processes summarized under concepts such as adaptive radiation and evolutionary stasis. Here, we review the central concepts in the evolutionary diversification literature and synthesize these into a simple, general framework for studying rates of diversification and quantifying their underlying dynamics, which can be applied across clades and regions, and across spatial and temporal scales. Our framework describes the diversification rate (d) as a function of the abiotic environment (a), the biotic environment (b), and clade-specific phenotypes or traits (c); thus, d ~ a,b,c. We refer to the four components (a-d) and their interactions collectively as the "Evolutionary Arena." We outline analytical approaches to this framework and present a case study on conifers, for which we parameterize the general model. We also discuss three conceptual examples: the Lupinus radiation in the Andes in the context of emerging ecological opportunity and fluctuating connectivity due to climatic oscillations; oceanic island radiations in the context of island formation and erosion; and biotically driven radiations of the Mediterranean orchid genus Ophrys. The results of the conifer case study are consistent with the long-standing scenario that low competition and high rates of niche evolution promote diversification. The conceptual examples illustrate how using the synthetic Evolutionary Arena framework helps to identify and structure future directions for research on evolutionary radiations. In this way, the Evolutionary Arena framework promotes a more general understanding of variation in evolutionary rates by making quantitative results comparable between case studies, thereby allowing new syntheses of evolutionary and ecological processes to emerge.
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Affiliation(s)
- Nicolai M. Nürk
- Department of Plant SystematicsBayreuth Center of Ecology and Environmental Research (BayCEER)University of BayreuthBayreuthGermany
| | - H. Peter Linder
- Department of Systematic & Evolutionary BotanyUniversity of ZurichZurichSwitzerland
| | - Renske E. Onstein
- German Centre for Integrative Biodiversity Research (iDiv) Halle‐Jena‐LeipzigLeipzigGermany
| | | | - Colin E. Hughes
- Department of Systematic & Evolutionary BotanyUniversity of ZurichZurichSwitzerland
| | - Laura Piñeiro Fernández
- Department of Systematic & Evolutionary BotanyUniversity of ZurichZurichSwitzerland
- Department of BotanyUniversity of HohenheimStuttgartGermany
| | | | - Luis Valente
- Naturalis Biodiversity CenterUnderstanding Evolution GroupLeidenThe Netherlands
- Groningen Institute for Evolutionary Life SciencesUniversity of GroningenGroningenThe Netherlands
| | - Carl Beierkuhnlein
- Department of BiogeographyBayreuth Center of Ecology and Environmental Research (BayCEER)University of BayreuthBayreuthGermany
| | - Vanessa Cutts
- School of GeographyUniversity of NottinghamNottinghamUK
| | - Michael J. Donoghue
- Department of Ecology and Evolutionary BiologyYale UniversityNew HavenConnecticut
| | - Erika J. Edwards
- Department of Ecology and Evolutionary BiologyYale UniversityNew HavenConnecticut
| | - Richard Field
- School of GeographyUniversity of NottinghamNottinghamUK
| | | | | | - Anke Jentsch
- Department of Disturbance EcologyBayreuth Center of Ecology and Environmental Research (BayCEER)University of BayreuthBayreuthGermany
| | - Sigrid Liede‐Schumann
- Department of Plant SystematicsBayreuth Center of Ecology and Environmental Research (BayCEER)University of BayreuthBayreuthGermany
| | - Michael D. Pirie
- Johannes Gutenberg‐UniversitätMainzGermany
- University MuseumUniversity of BergenBergenNorway
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Weaver S, Shepard DB, Kozak KH. Developmental life history is associated with variation in rates of climatic niche evolution in a salamander adaptive radiation. Evolution 2020; 74:1804-1814. [PMID: 32323308 DOI: 10.1111/evo.13949] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/12/2019] [Revised: 02/28/2020] [Accepted: 03/12/2020] [Indexed: 11/26/2022]
Abstract
Rates of climatic niche evolution vary widely across the tree of life and are strongly associated with rates of diversification among clades. However, why the climatic niche evolves more rapidly in some clades than others remains unclear. Variation in life history traits often plays a key role in determining the environmental conditions under which species can survive, and therefore, could impact the rate at which lineages can expand in available climatic niche space. Here, we explore the relationships among life-history variation, climatic niche breadth, and rates of climatic niche evolution. We reconstruct a phylogeny for the genus Desmognathus, an adaptive radiation of salamanders distributed across eastern North America, based on nuclear and mitochondrial genes. Using this phylogeny, we estimate rates of climatic niche evolution for species with long, short, and no aquatic larval stage. Rates of climatic niche evolution are unrelated to the mean climatic niche breadth of species with different life histories. Instead, we find that the evolution of a short larval period promotes greater exploration of climatic space, leading to increased rates of climatic niche evolution across species having this trait. We propose that morphological and physiological differences associated with variation in larval stage length underlie the heterogeneous ability of lineages to explore climatic niche space. Rapid rates of climatic niche evolution among species with short larval periods were an important dimension of the clade's adaptive radiation and likely contributed to the rapid rate of lineage accumulation following the evolution of an aquatic life history in this clade. Our results show how variation in a key life-history trait can constrain or promote divergence of the climatic niche, leading to variation in rates of climatic niche evolution among species.
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Affiliation(s)
- Sam Weaver
- Ecology, Evolution, and Behavior Graduate Program, 140 Gortner Lab, University of Minnesota, Saint Paul, Minnesota, 55108
| | - Donald B Shepard
- School of Biological Sciences, Louisiana Tech University, Ruston, Louisiana, 71272
| | - Kenneth H Kozak
- Bell Museum and Department of Fisheries, Wildlife, and Conservation Biology, University of Minnesota, Saint Paul, Minnesota, 55108
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