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Nevado B, Atchison GW, Bridges EL, Orzell S, Filatov D, Hughes CE. Pleistocene diversification of unifoliolate-leaved Lupinus (Leguminosae: Papilionoideae) in Florida. Mol Ecol 2024; 33:e17232. [PMID: 38205900 DOI: 10.1111/mec.17232] [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: 08/02/2023] [Revised: 11/16/2023] [Accepted: 11/21/2023] [Indexed: 01/12/2024]
Abstract
The importance and prevalence of recent ice-age and post-glacial speciation and species diversification during the Pleistocene across many organismal groups and physiographic settings are well established. However, the extent to which Pleistocene diversification can be attributed to climatic oscillations and their effects on distribution ranges and population structure remains debatable. In this study, we use morphologic, geographic and genetic (RADseq) data to document Pleistocene speciation and intra-specific diversification of the unifoliolate-leaved clade of Florida Lupinus, a small group of species largely restricted to inland and coastal sand ridges across the Florida peninsula and panhandle. Phylogenetic and demographic analyses alongside morphological and geographic evidence suggest that recent speciation and intra-specific divergence within this clade were driven by a combination of non-adaptive allopatric divergence caused by edaphic niche conservatism and opportunities presented by the emergence of new post-glacial sand ridge habitats. These results highlight the central importance of even modest geographic isolation and short periods of allopatric divergence following range expansion in the emergence of new taxa and add to the growing evidence that Pleistocene climatic oscillations may contribute to rapid diversification in a myriad of physiographic settings. Furthermore, our results shed new light on long-standing taxonomic debate surrounding the number of species in the Florida unifoliate Lupinus clade providing support for recognition of five species and a set of intra-specific variants. The important conservation implications for the narrowly restricted, highly endangered species Lupinus aridorum, which we show to be genetically distinct from its sister species Lupinus westianus, are discussed.
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Affiliation(s)
- Bruno Nevado
- Faculty of Sciences, cE3c - Centre for Ecology, Evolution and Environmental Changes & CHANGE - Global Change and Sustainability Institute, University of Lisbon, Lisbon, Portugal
- Department of Animal Biology, Faculty of Sciences, University of Lisbon, Lisbon, Portugal
| | - Guy W Atchison
- Department of Systematic and Evolutionary Botany, University of Zurich, Zurich, Switzerland
| | - Edwin L Bridges
- Botanical and Ecological Consultant, Gig Harbor, Washington, USA
| | - Steve Orzell
- Avon Park Air Force Range, Avon Park, Florida, USA
| | | | - Colin E Hughes
- Department of Systematic and Evolutionary Botany, University of Zurich, Zurich, Switzerland
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Jian J, Yuan Y, Vilatersana R, Li L, Wang Y, Zhang W, Song Z, Kong H, Peter Comes H, Yang J. Phylogenomic and population genomic analyses reveal the spatial-temporal dynamics of diversification of the Nigella arvensis complex (Ranunculaceae) in the Aegean archipelago. Mol Phylogenet Evol 2023; 188:107908. [PMID: 37598984 DOI: 10.1016/j.ympev.2023.107908] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2023] [Revised: 07/13/2023] [Accepted: 08/17/2023] [Indexed: 08/22/2023]
Abstract
The continental-shelf islands of the Aegean Sea provide an ideal geographical setting for evolutionary-biogeographical studies but disentangling the relationships between palaeogeographical history and the times, orders of modes of taxon divergence is not straightforward. Here, we used phylogenomic and population genomic approaches, based on orthologous gene sequences and transcriptome-derived SNP data, to reconstruct the spatial-temporal evolution of the Aegean Nigella arvensis complex (Ranunculaceae; 11 out of 12 taxa). The group's early diversification in the Early/Mid-Pliocene (c. 3.77 Mya) resulted in three main lineages (Greek mainland vs. central Aegean + Turkish mainland/eastern Aegean islands), while all extant taxa are of Late Plio-/Early Pleistocene origin (c. 3.30-1.59 Mya). Demographic modelling of the outcrossing taxa uncovered disparate modes of (sub)speciation, including divergence with gene flow on the Greek mainland, para- or peripatric diversification across eastern Aegean islands, and a 'mixing-isolation-mixing (MIM)' mode of subspeciation in the Cyclades. The two selfing species (N. stricta, N. doerfleri) evolved independently from the outcrossers. Present-day island configurations are clearly insufficient to explain the spatial-temporal history of lineage diversification and modes of (sub)speciation in Aegean Nigella. Moreover, our identification of positively selected genes in almost all taxa calls into question that this plant group represents a case of 'non-adaptive' radiation. Our study revealed an episodic diversification history of the N. arvensis complex, giving new insight into the modes and drivers of island speciation and adaption across multiple spatiotemporal scales.
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Affiliation(s)
- Jinjing Jian
- Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, Center for Evolutionary Biology, Fudan University, Shanghai 200438, China.
| | - Yi Yuan
- State Key Laboratory of Systematic and Evolutionary Botany, CAS Center for Excellence in Molecular Plant Sciences, Institute of Botany, Chinese Academy of Sciences, Beijing 100093, China; University of Chinese Academy of Sciences, Beijing 100049, China.
| | - Roser Vilatersana
- Botanic Institute of Barcelona (IBB, CSIC-ICUB), Barcelona 08038, Spain.
| | - Linfeng Li
- Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, Center for Evolutionary Biology, Fudan University, Shanghai 200438, China.
| | - Yuguo Wang
- Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, Center for Evolutionary Biology, Fudan University, Shanghai 200438, China.
| | - Wenju Zhang
- Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, Center for Evolutionary Biology, Fudan University, Shanghai 200438, China.
| | - Zhiping Song
- Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, Center for Evolutionary Biology, Fudan University, Shanghai 200438, China.
| | - Hongzhi Kong
- State Key Laboratory of Systematic and Evolutionary Botany, CAS Center for Excellence in Molecular Plant Sciences, Institute of Botany, Chinese Academy of Sciences, Beijing 100093, China; University of Chinese Academy of Sciences, Beijing 100049, China.
| | - Hans Peter Comes
- Department of Ecology and Evolution, University of Salzburg, Salzburg A5020, Austria.
| | - Ji Yang
- Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, Center for Evolutionary Biology, Fudan University, Shanghai 200438, China; Shanghai Key Laboratory of Plant Functional Genomics and Resources, Shanghai Chenshan Botanical Garden, Shanghai 201602, China.
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Tiburtini M, Bacchetta G, Sarigu M, Cambria S, Caputo P, De Luca D, Domina G, Turini A, Peruzzi L. Integrative Taxonomy of Armeria Taxa (Plumbaginaceae) Endemic to Sardinia and Corsica. PLANTS (BASEL, SWITZERLAND) 2023; 12:plants12112229. [PMID: 37299208 DOI: 10.3390/plants12112229] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/03/2023] [Revised: 05/24/2023] [Accepted: 06/02/2023] [Indexed: 06/12/2023]
Abstract
Sardinia and Corsica are two Mediterranean islands where the genus Armeria is represented by 11 taxa, 10 out of which are endemic. An integrative approach, using molecular phylogeny, karyology, and seed and plant morphometry was used to resolve the complex taxonomy and systematics in this group. We found that several taxa are no longer supported by newly produced data. Accordingly, we describe a new taxonomic hypothesis that only considers five species: Armeria leucocephala and A. soleirolii, endemic to Corsica, and A. morisii, A. sardoa, and A. sulcitana, endemic to Sardinia.
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Affiliation(s)
- Manuel Tiburtini
- PLANTSEED Lab, Department of Biology, University of Pisa, Via Derna 1, 56126 Pisa, Italy
| | - Gianluigi Bacchetta
- Centre for Conservation of Biodiversity (CCB), Department of Life and Environmental Sciences, University of Cagliari, V.le S. Ignazio da Laconi 13, 09123 Cagliari, Italy
| | - Marco Sarigu
- Centre for Conservation of Biodiversity (CCB), Department of Life and Environmental Sciences, University of Cagliari, V.le S. Ignazio da Laconi 13, 09123 Cagliari, Italy
| | - Salvatore Cambria
- Department of Biological, Geological and Environmental Sciences, University of Catania, Via Antonino Longo 19, 95125 Catania, Italy
| | - Paolo Caputo
- Department of Biology, University of Naples Federico II, Via Cinthia 26, 80100 Naples, Italy
| | - Daniele De Luca
- Department of Biology, University of Naples Federico II, Via Cinthia 26, 80100 Naples, Italy
| | - Gianniantonio Domina
- Department of Agricultural, Food and Forest Sciences, University of Palermo, Viale delle Scienze 4, 90128 Palermo, Italy
| | - Alessia Turini
- PLANTSEED Lab, Department of Biology, University of Pisa, Via Derna 1, 56126 Pisa, Italy
| | - Lorenzo Peruzzi
- PLANTSEED Lab, Department of Biology, University of Pisa, Via Derna 1, 56126 Pisa, Italy
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Otero A, Vargas P, Fernández-Mazuecos M, Jiménez-Mejías P, Valcárcel V, Villa-Machío I, Hipp AL. A snapshot of progenitor-derivative speciation in Iberodes (Boraginaceae). Mol Ecol 2022; 31:3192-3209. [PMID: 35390211 DOI: 10.1111/mec.16459] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/11/2020] [Revised: 03/27/2022] [Accepted: 04/01/2022] [Indexed: 11/28/2022]
Abstract
Traditional classification of speciation modes has focused on physical barriers to gene flow. Allopatric speciation with complete reproductive isolation is viewed as the most common mechanism of speciation. Parapatry and sympatry, by contrast, entail speciation in the face of ongoing gene flow, making them more difficult to detect. The genus Iberodes (Boraginaceae, NW Europe) comprises five species with contrasting morphological traits, habitats, and species distributions. Based on the predominance of narrow and geographically distant endemic species, we hypothesized that geographic barriers were responsible for most speciation events in Iberodes. We undertook an integrative study including: (i) phylogenomics through restriction-site associated DNA sequencing, (ii) genetic structure analyses, (iii) demographic modeling, (iv) morphometrics, and (v) climatic niche modeling and niche overlap analysis. Results revealed a history of recurrent progenitor-derivative speciation manifested by a paraphyletic pattern of nested species differentiation. Budding speciation mediated by ecological differentiation is suggested for the coastal lineage, deriving from the inland widespread I. linifolia during Late Pliocene. Meanwhile, geographic isolation followed by niche shifts are suggested for the more recent differentiation of the coastland taxa. Our work provides a model for distinguishing speciation via ecological differentiation of peripheral, narrowly endemic I. kuzinskyanae and I. littoralis from a widespread extant ancestor, I. linifolia. Ultimately, our results illustrate a case of Pliocene speciation in the probable absence of geographic barriers and get away from the traditional cladistic perspective of speciation as producing two species from an extinct ancestor, thus reminding us that phylogenetic trees tell only part of the story.
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Affiliation(s)
- Ana Otero
- Grainger Bioinformatics Center, Department of Science and Education, The Field Museum, 1400 S. DuSable Lake Shore Dr, 60605, Chicago, Illinois, USA.,Departamento de Biodiversidad y Conservación, Real Jardín Botánico (RJB-CSIC). Pza. de Murillo, 28014, Madrid, Spain
| | - Pablo Vargas
- Departamento de Biodiversidad y Conservación, Real Jardín Botánico (RJB-CSIC). Pza. de Murillo, 28014, Madrid, Spain
| | - Mario Fernández-Mazuecos
- Departamento de Biodiversidad y Conservación, Real Jardín Botánico (RJB-CSIC). Pza. de Murillo, 28014, Madrid, Spain.,Centro de Investigación en Biodiversidad y Cambio Global (CIBC-UAM), Universidad Autónoma de Madrid, 28049, Madrid, Spain.,Departamento de Biología (Botánica), Universidad Autónoma de Madrid, C/ Darwin, 2, 28049, Madrid, Spain
| | - Pedro Jiménez-Mejías
- Centro de Investigación en Biodiversidad y Cambio Global (CIBC-UAM), Universidad Autónoma de Madrid, 28049, Madrid, Spain.,Departamento de Biología (Botánica), Universidad Autónoma de Madrid, C/ Darwin, 2, 28049, Madrid, Spain
| | - Virginia Valcárcel
- Centro de Investigación en Biodiversidad y Cambio Global (CIBC-UAM), Universidad Autónoma de Madrid, 28049, Madrid, Spain.,Departamento de Biología (Botánica), Universidad Autónoma de Madrid, C/ Darwin, 2, 28049, Madrid, Spain
| | - Irene Villa-Machío
- Departamento de Biodiversidad y Conservación, Real Jardín Botánico (RJB-CSIC). Pza. de Murillo, 28014, Madrid, Spain
| | - Andrew L Hipp
- Grainger Bioinformatics Center, Department of Science and Education, The Field Museum, 1400 S. DuSable Lake Shore Dr, 60605, Chicago, Illinois, USA.,The Morton Arboretum, 4100 Illinois Route 53, 60532, Lisle, Illinois, USA
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5
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Sun QH, Morales-Briones DF, Wang HX, Landis JB, Wen J, Wang HF. Phylogenomic analyses of the East Asian endemic Abelia (Caprifoliaceae) shed insights into the temporal and spatial diversification history with widespread hybridization. ANNALS OF BOTANY 2022; 129:201-216. [PMID: 34950959 PMCID: PMC8796676 DOI: 10.1093/aob/mcab139] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/10/2021] [Accepted: 11/15/2021] [Indexed: 05/25/2023]
Abstract
BACKGROUND AND AIMS Abelia (Caprifoliaceae) is a small genus with five species, including one artificial hybrid and several natural hybrids. The genus has a discontinuous distribution in Mainland China, Taiwan Island and the Ryukyu Islands, providing a model system to explore the mechanisms of species dispersal in the East Asian flora. However, the current phylogenetic relationships within Abelia remain uncertain. METHODS We reconstructed the phylogenetic relationships within Abelia using nuclear loci generated by target enrichment and plastomes from genome skimming. Divergence time estimation, ancestral area reconstruction and ecological niche modelling (ENM) were used to examine the diversification history of Abelia. KEY RESULTS We found extensive cytonuclear discordance across the genus. By integrating lines of evidence from molecular phylogenies, divergence times and morphology, we propose to merge Abelia macrotera var. zabelioides into A. uniflora. Network analyses suggested that there have been multiple widespread hybridization events among Abelia species. These hybridization events may have contributed to the speciation mechanism and resulted in the high observed morphological diversity. The diversification of Abelia began in the early Eocene, followed by A. chinensis var. ionandra colonizing Taiwan Island during the Middle Miocene. The ENM results suggested an expansion of climatically suitable areas during the Last Glacial Maximum and range contraction during the Last Interglacial. Disjunction between the Himalayan-Hengduan Mountain region and Taiwan Island is probably the consequence of topographical isolation and postglacial contraction. CONCLUSIONS We used genomic data to reconstruct the phylogeny of Abelia and found a clear pattern of reticulate evolution in the group. In addition, our results suggest that shrinkage of postglacial range and the heterogeneity of the terrain have led to the disjunction between Mainland China and Taiwan Island. This study provides important new insights into the speciation process and taxonomy of Abelia.
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Affiliation(s)
- Qing-Hui Sun
- Key Laboratory of Tropical Biological Resources of Ministry of Education, College of Tropical Crops, Hainan University, Haikou, China
| | - Diego F Morales-Briones
- Department of Plant and Microbial Biology, College of Biological Sciences, University of Minnesota, 140 Gortner Laboratory, Saint Paul, MN, USA
- Systematics, Biodiversity and Evolution of Plants, Department of Biology I, Ludwig-Maximilians-Universität München, Menzinger Str. 67, 80638, Munich, Germany
| | - Hong-Xin Wang
- Key Laboratory of Tropical Biological Resources of Ministry of Education, College of Tropical Crops, Hainan University, Haikou, China
- Zhai Mingguo Academician Work Station, Sanya University, Sanya, China
| | - Jacob B Landis
- School of Integrative Plant Science, Section of Plant Biology and the L.H. Bailey Hortorium, Cornell University, Ithaca, NY, USA
- BTI Computational Biology Center, Boyce Thompson Institute, Ithaca, NY, USA
| | - Jun Wen
- Department of Botany, National Museum of Natural History, MRC-166, Smithsonian Institution, Washington, DC, USA
| | - Hua-Feng Wang
- Key Laboratory of Tropical Biological Resources of Ministry of Education, College of Tropical Crops, Hainan University, Haikou, China
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Cho MS, Takayama K, Yang J, Maki M, Kim SC. Genome-Wide Single Nucleotide Polymorphism Analysis Elucidates the Evolution of Prunus takesimensis in Ulleung Island: The Genetic Consequences of Anagenetic Speciation. FRONTIERS IN PLANT SCIENCE 2021; 12:706195. [PMID: 34539700 PMCID: PMC8445234 DOI: 10.3389/fpls.2021.706195] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/07/2021] [Accepted: 08/04/2021] [Indexed: 06/13/2023]
Abstract
Of the two major speciation modes of endemic plants on oceanic islands, cladogenesis and anagenesis, the latter has been recently emphasized as an effective mechanism for increasing plant diversity in isolated, ecologically homogeneous insular settings. As the only flowering cherry occurring on Ulleung Island in the East Sea (concurrently known as Sea of Japan), Prunus takesimensis Nakai has been presumed to be derived through anagenetic speciation on the island. Based on morphological similarities, P. sargentii Rehder distributed in adjacent continental areas and islands has been suggested as a purported continental progenitor. However, the overall genetic complexity and resultant non-monophyly of closely related flowering cherries have hindered the determination of their phylogenetic relationships as well as the establishment of concrete continental progenitors and insular derivative relationships. Based on extensive sampling of wild flowering cherries, including P. takesimensis and P. sargentii from Ulleung Island and its adjacent areas, the current study revealed the origin and evolution of P. takesimensis using multiple molecular markers. The results of phylogenetic reconstruction and population genetic structure analyses based on single nucleotide polymorphisms detected by multiplexed inter-simple sequence repeat genotyping by sequencing (MIG-seq) and complementary cpDNA haplotypes provided evidence for (1) the monophyly of P. takesimensis; (2) clear genetic differentiation between P. takesimensis (insular derivative) and P. sargentii (continental progenitor); (3) uncertain geographic origin of P. takesimensis, but highly likely via single colonization from the source population of P. sargentii in the Korean Peninsula; (4) no significant reduction in genetic diversity in anagenetically derived insular species, i.e., P. takesimensis, compared to its continental progenitor P. sargentii; (5) no strong population genetic structuring or geographical patterns in the insular derivative species; and (6) MIG-seq method as an effective tool to elucidate the complex evolutionary history of plant groups.
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Affiliation(s)
- Myong-Suk Cho
- Department of Biological Sciences, Sungkyunkwan University, Suwon, South Korea
| | - Koji Takayama
- Department of Botany, Graduate School of Science, Kyoto University, Kyoto, Japan
| | - JiYoung Yang
- Research Institute for Dok-do and Ulleung-do Island, Kyungpook National University, Daegu, South Korea
| | | | - Seung-Chul Kim
- Department of Biological Sciences, Sungkyunkwan University, Suwon, South Korea
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7
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Vieu JC, Koubínová D, Grant JR. The Evolution of Trait Disparity during the Radiation of the Plant Genus Macrocarpaea (Gentianaceae) in the Tropical Andes. BIOLOGY 2021; 10:825. [PMID: 34571702 PMCID: PMC8470149 DOI: 10.3390/biology10090825] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/18/2021] [Revised: 07/22/2021] [Accepted: 08/17/2021] [Indexed: 11/16/2022]
Abstract
The evolutionary processes responsible for the extraordinary diversity in the middle elevation montane forests of the Tropical Andes (MMF; 1000-3500 m) remain poorly understood. It is not clear whether adaptive divergence, niche conservatism or geographical processes were the main contributors to the radiation of the respective lineages occurring there. We investigated the evolutionary history of plant lineages in the MMF. We used the vascular plant genus Macrocarpaea (Gentianaceae) as a model, as it consists of 118 morphologically diverse species, a majority of which are endemic to the MMF. We used a time-calibrated molecular phylogeny and morphological and climatic data to compare a set of evolutionary scenarios of various levels of complexity in a phylogenetic comparative framework. In this paper, we show that the hypothesis of adaptive radiation for Macrocarpaea in the MMF is unlikely. The genus remained confined to the upper montane forests (UMF > 1800 m) during more than a half of its evolutionary history, possibly due to evolutionary constraints. Later, coinciding with the beginning of the Pleistocene (around 2.58 Ma), a phylogenetically derived (recently branching) clade, here referred to as the M. micrantha clade (25 species), successfully colonized and radiated in the lower montane forests (LMF < 1800 m). This colonization was accompanied by the evolution of a new leaf phenotype that is unique to the species of the M. micrantha clade that likely represents an adaptation to life in this new environment (adaptive zone). Therefore, our results suggest that niche conservatism and geographical processes have dominated most of the diversification history of Macrocarpaea, but that a rare adaptive divergence event allowed a transition into a new adaptive zone and enabled progressive radiation in this zone through geographical processes.
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Affiliation(s)
| | - Darina Koubínová
- Institute of Biology, University of Neuchâtel, Rue Emile Argand 11, 2000 Neuchâtel, Switzerland; (J.C.V.); (J.R.G.)
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Ahmad M, Leroy T, Krigas N, Temsch EM, Weiss-Schneeweiss H, Lexer C, Sehr EM, Paun O. Spatial and Ecological Drivers of Genetic Structure in Greek Populations of Alkanna tinctoria (Boraginaceae), a Polyploid Medicinal Herb. FRONTIERS IN PLANT SCIENCE 2021; 12:706574. [PMID: 34335669 PMCID: PMC8317432 DOI: 10.3389/fpls.2021.706574] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/07/2021] [Accepted: 06/16/2021] [Indexed: 06/08/2023]
Abstract
Background and Aims: Quantifying genetic variation is fundamental to understand a species' demographic trajectory and its ability to adapt to future changes. In comparison with diploids, however, genetic variation and factors fostering genetic divergence remain poorly studied in polyploids due to analytical challenges. Here, by employing a ploidy-aware framework, we investigated the genetic structure and its determinants in polyploid Alkanna tinctoria (Boraginaceae), an ancient medicinal herb that is the source of bioactive compounds known as alkannin and shikonin (A/S). From a practical perspective, such investigation can inform biodiversity management strategies. Methods: We collected 14 populations of A. tinctoria within its main distribution range in Greece and genotyped them using restriction site-associated DNA sequencing. In addition, we included two populations of A. sieberi. By using a ploidy-aware genotype calling based on likelihoods, we generated a dataset of 16,107 high-quality SNPs. Classical and model-based analysis was done to characterize the genetic structure within and between the sampled populations, complemented by genome size measurements and chromosomal counts. Finally, to reveal the drivers of genetic structure, we searched for associations between allele frequencies and spatial and climatic variables. Key Results: We found support for a marked regional structure in A. tinctoria along a latitudinal gradient in line with phytogeographic divisions. Several analyses identified interspecific admixture affecting both mainland and island populations. Modeling of spatial and climatic variables further demonstrated a larger contribution of neutral processes and a lesser albeit significant role of selection in shaping the observed genetic structure in A. tinctoria. Conclusion: Current findings provide evidence of strong genetic structure in A. tinctoria mainly driven by neutral processes. The revealed natural genomic variation in Greek Alkanna can be used to further predict variation in A/S production, whereas our bioinformatics approach should prove useful for the study of other non-model polyploid species.
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Affiliation(s)
- Muhammad Ahmad
- Center for Health & Bioresources, AIT Austrian Institute of Technology GmbH, Tulln, Austria
- Department of Botany and Biodiversity Research, University of Vienna, Vienna, Austria
| | - Thibault Leroy
- Department of Botany and Biodiversity Research, University of Vienna, Vienna, Austria
| | - Nikos Krigas
- Institute of Plant Breeding and Genetic Resources, Hellenic Agricultural Organization Demeter, Thessaloniki, Greece
| | - Eva M. Temsch
- Department of Botany and Biodiversity Research, University of Vienna, Vienna, Austria
| | | | - Christian Lexer
- Department of Botany and Biodiversity Research, University of Vienna, Vienna, Austria
| | - Eva Maria Sehr
- Center for Health & Bioresources, AIT Austrian Institute of Technology GmbH, Tulln, Austria
| | - Ovidiu Paun
- Department of Botany and Biodiversity Research, University of Vienna, Vienna, Austria
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9
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Hammoud C, Kougioumoutzis K, Rijsdijk KF, Simaiakis SM, Norder SJ, Foufopoulos J, Georgopoulou E, Van Loon EE. Past connections with the mainland structure patterns of insular species richness in a continental-shelf archipelago (Aegean Sea, Greece). Ecol Evol 2021; 11:5441-5458. [PMID: 34026019 PMCID: PMC8131802 DOI: 10.1002/ece3.7438] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2020] [Revised: 02/22/2021] [Accepted: 02/24/2021] [Indexed: 11/18/2022] Open
Abstract
Recent research in island biogeography has highlighted the important role of late Quaternary sea-level fluctuations in shaping biogeographic patterns in insular systems but focused on oceanic systems. Through this study, we aim investigate how late Quaternary sea-level fluctuations shaped species richness patterns in continental-shelf island systems. Focusing on the Aegean archipelago, we first compiled maps of the area's geography using published data, under three sea-level stands: (a) current; (b) median sea-level over the last nine glacial-interglacial cycles (MSL); and (c) Last Glacial Maximum (LGM). We gathered taxon-island occurrences for multiple chorotypes of angiosperms, butterflies, centipedes, and reptiles. We investigated the impact of present-day and past geographic settings on chorological groups by analyzing island species-area relationships (ISARs) and using generalized linear mixed models (GLMMs) selection based on multiple metrics of goodness of fit. Our results confirm that the Aegean's geography has changed dramatically since the LGM, whereas the MSL only modestly differs from the present configuration. Apart for centipedes, paleogeographic changes affected both native and endemic species diversity through altering connections between land-bridge islands and the mainland. On land-bridge islands, we detected over-representation of native species and under-representation of endemics. Unlike oceanic islands, sea-level-driven increase of isolation and area contraction did not strongly shape patterns of species richness. Furthermore, the LGM configurations rather than the MSL configuration shaped patterns of endemic species richness. This suggests that even short episodes of increased connectivity with continental populations are sufficient to counteract the genetic differentiation of insular populations. On the other hand, the over-representation of native nonendemic species on land-bridge islands reflected MSL rather than LGM mainland connections. Our study shows that in terms of processes affecting species richness patterns, continental archipelagos differ fundamentally from oceanic systems because episodic connections with the mainland have profound effects on the biota of land-bridge islands.
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Affiliation(s)
- Cyril Hammoud
- Invertebrate UnitDepartment of BiologyRoyal Museum for Central AfricaTervurenBelgium
- Limnology UnitDepartment of BiologyGhent UniversityGhentBelgium
| | - Konstantinos Kougioumoutzis
- Department of BiologySection of Ecology and TaxonomyNational & Kapodistrian University of AthensAthensGreece
| | - Kenneth F. Rijsdijk
- Institute for Biodiversity and Ecosystem DynamicsUniversity of AmsterdamAmsterdamThe Netherlands
| | | | - Sietze J. Norder
- Leiden University Centre for LinguisticsLeiden UniversityLeidenThe Netherlands
| | | | | | - Emiel E. Van Loon
- Institute for Biodiversity and Ecosystem DynamicsUniversity of AmsterdamAmsterdamThe Netherlands
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Kougioumoutzis K, Kokkoris IP, Panitsa M, Kallimanis A, Strid A, Dimopoulos P. Plant Endemism Centres and Biodiversity Hotspots in Greece. BIOLOGY 2021; 10:72. [PMID: 33498512 PMCID: PMC7909545 DOI: 10.3390/biology10020072] [Citation(s) in RCA: 22] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/03/2020] [Revised: 01/11/2021] [Accepted: 01/17/2021] [Indexed: 12/21/2022]
Abstract
Biodiversity hotspots (BH) cover a small fraction of the Earth's surface, yet host numerous endemics. Human-induced biodiversity loss has been increasing worldwide, despite attempts to halt the extinction crisis. There is thus an urgent need to efficiently allocate the available conservation funds in an optimised conservation prioritization scheme. Identifying BH and endemism centres (EC) is therefore a valuable tool in conservation prioritization and planning. Even though Greece is one of the most plant species-rich European countries, few studies have dealt with the identification of BH or EC and none has ever incorporated phylogenetic information or extended to the national scale. Consequently, we are unaware of the extent that Special Areas of Conservation (SAC) of the Natura 2000 network efficiently protect Greek plant diversity. Here, we located for the first time at a national scale and in a phylogenetic framework, the areas serving as BH and EC, and assessed the effectiveness of the Greek SAC in safeguarding them. BH and EC are mainly located near mountainous areas, and in areas supposedly floristically impoverished, such as the central Aegean islands. A critical re-assessment of the Greek SAC might be needed to minimize the extinction risk of the Greek endemics, by focusing the conservation efforts also on the BH and EC that fall outside the established Greek SAC.
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Affiliation(s)
- Konstantinos Kougioumoutzis
- Division of Plant Biology, Laboratory of Botany, Department of Biology, University of Patras, 26504 Patras, Greece; (I.P.K.); (M.P.); (P.D.)
- Department of Ecology and Systematics, Faculty of Biology, National and Kapodistrian University of Athens, Panepistimiopolis, 15701 Athens, Greece
- Department of Ecology, School of Biology, Aristotle University of Thessaloniki, 54124 Thessaloniki, Greece;
| | - Ioannis P. Kokkoris
- Division of Plant Biology, Laboratory of Botany, Department of Biology, University of Patras, 26504 Patras, Greece; (I.P.K.); (M.P.); (P.D.)
| | - Maria Panitsa
- Division of Plant Biology, Laboratory of Botany, Department of Biology, University of Patras, 26504 Patras, Greece; (I.P.K.); (M.P.); (P.D.)
| | - Athanasios Kallimanis
- Department of Ecology, School of Biology, Aristotle University of Thessaloniki, 54124 Thessaloniki, Greece;
| | | | - Panayotis Dimopoulos
- Division of Plant Biology, Laboratory of Botany, Department of Biology, University of Patras, 26504 Patras, Greece; (I.P.K.); (M.P.); (P.D.)
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11
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Hwang CC, Zhou WC, Ger MJ, Guo Y, Qian ZX, Wang YC, Tsai CL, Wu SP. Biogeography of land snail genus Acusta (Gastropoda: Camaenidae): Diversification on East Asian islands. Mol Phylogenet Evol 2020; 155:106999. [PMID: 33130300 DOI: 10.1016/j.ympev.2020.106999] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2020] [Revised: 09/12/2020] [Accepted: 10/25/2020] [Indexed: 11/18/2022]
Abstract
East Asia has highly diverse and endemic biota due to its complex geological and climatic history and its diversified topography. The continental and insular distributions of land snail genus Acusta in East Asia provide a good opportunity to compare the evolutionary processes in this group under different biogeographical conditions. In this study, we inferred the evolutionary history of the land snail genus Acusta by a molecular phylogeny and investigated how the palaeogeographic events shaped species diversity and the distribution of the Acusta genus within the island arc. A concatenated dataset generated from sequences of one nuclear (ITS2) and two mitochondrial (16S, COI) gene fragments, include most of nominal taxa of the genus, four related species and one outgroup. We constructed the phylogeny and the evolutionary history of the genus through maximum-likelihood and Bayesian inference methods, using a Bayesian molecular clock and ancestral range estimation. Our results suggested that currently recognized species in Acusta are polyphyletic. The traditionally accepted concept of the affinity of Acusta and Bradybaena is not supported. The hypothesis of colonization via land bridges during the Pleistocene glaciations for the biota of East Asian islands is not supported. Instead, the origin and diversification of the genus Acusta was dated to the late Miocene-Pliocene from an area around North and Northeast China to South China and East Asian islands Three major evolutionary lineages were identified. Two of the major lineages demonstrate distinct evolutionary histories, as sympatric speciation is the major speciation process for the continental clade, while the insular clade originated from founder events. Taiwan functioned as an important source of diversification for species on the East Asian islands possibly through passive dispersal of different mechanisms. The sea level fluctuations caused by the Pleistocene glacial cycles play a role in the subsequent dispersion and diversification of species of the continental clade, such as the more recent range expansion of A. redfieldi from South China to Taiwan and Japan.
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Affiliation(s)
- Chung-Chi Hwang
- Department of Life Sciences, National University of Kaohsiung, Kaohsiung, Taiwan
| | - Wei-Chuan Zhou
- Key Laboratory of Molluscan Quarantine and Identification of AQSIQ, Fujian Entry-Exit Inspection & Quarantine Bureau, Fuzhou, Fujian, China
| | - Mang-Jye Ger
- Department of Life Sciences, National University of Kaohsiung, Kaohsiung, Taiwan
| | - Yunhai Guo
- National Institute of Parasitic Diseases, Chinese Center for Disease Control and Prevention, Shanghai, China
| | - Zhou-Xing Qian
- Zhejiang Museum of Natural History, Hangzhou, Zhejiang, China
| | - Yen-Chieh Wang
- Department of Bioresources, Dayeh University, Changhua, Taiwan
| | - Chi-Li Tsai
- Endemic Species Research Institute, Nantou, Taiwan
| | - Shu-Ping Wu
- Department of Earth and Life Sciences, University of Taipei, Taipei, Taiwan.
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12
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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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13
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Trichas A, Smirli M, Papadopoulou A, Anastasiou I, Keskin B, Poulakakis N. Dispersal versus vicariance in the Aegean: combining molecular and morphological phylogenies of eastern Mediterranean Dendarus (Coleoptera: Tenebrionidae) sheds new light on the phylogeography of the Aegean area. Zool J Linn Soc 2020. [DOI: 10.1093/zoolinnean/zlaa022] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
Abstract
Abstract
The Aegean archipelago, as an ‘evolutionary laboratory of nature’, is an ideal model for research in phylogeography. In this area, the darkling beetles of the genus Dendarus (distributed from Morocco to the Caucasus) exhibit a high level of diversity with 36 species, 27 of which are island endemics. However, their taxonomy is complex and unstable, having undergone continuous revision to address extensive morphological and ecological plasticity. Here, we examine the phylogenetic relationships of 23 species from Greece and Turkey, using mitochondrial and nuclear DNA sequences and 61 morphological characters, to unveil their phylogeny in the Aegean. This helps to clarify phylogeographic scenarios and historical processes that shaped the observed patterns. The analyses reveal 13 distinct lineages with several para- and polyphyletic cases that correspond to three major phylogroups [south/south-east Aegean (D. foraminosus complex, D. rhodius, D. sporadicus, D. wettsteini); central to north Aegean, Turkey and mainland Greece (D. crenulatus, D. moesiacus group, D. sinuatus complex, D. stygius) and mainland Greece (D. messenius, D. paganettii)], indicating the need for further taxonomic re-evaluation. Lineage topology and phylogeography suggest a spatial and temporal sequence of geographic isolation, following either a vicariant or a dispersal model coincident with major palaeogeographic separations in the Aegean.
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Affiliation(s)
- Apostolos Trichas
- Natural History Museum of Crete, School of Sciences and Engineering, University of Crete, Knosos Avenue, Irakleio, Greece
| | - Maria Smirli
- Natural History Museum of Crete, School of Sciences and Engineering, University of Crete, Knosos Avenue, Irakleio, Greece
- Department of Biology, School of Sciences and Engineering, University of Crete, Vassilika Vouton, Irakleio, Greece
| | - Anna Papadopoulou
- Department of Biological Sciences, University of Cyprus, Nicosia, Cyprus
| | - Ioannis Anastasiou
- Section of Zoology – Marine Biology, Department of Biology, University of Athens, Panepistimioupoli, GR-157 84 Athens, Greece
| | - Bekir Keskin
- Zoology Department, Section of Biology, Faculty of Science, Ege University, Bornova-Izmir, Turkey
| | - Nikos Poulakakis
- Natural History Museum of Crete, School of Sciences and Engineering, University of Crete, Knosos Avenue, Irakleio, Greece
- Department of Biology, School of Sciences and Engineering, University of Crete, Vassilika Vouton, Irakleio, Greece
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14
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Tseng YH, Huang HY, Xu WB, Yang HA, Peng CI, Liu Y, Chung KF. Phylogeography of Begonia luzhaiensis suggests both natural and anthropogenic causes for the marked population genetic structure. BOTANICAL STUDIES 2019; 60:20. [PMID: 31493093 PMCID: PMC6730737 DOI: 10.1186/s40529-019-0267-9] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/05/2019] [Accepted: 08/08/2019] [Indexed: 05/28/2023]
Abstract
BACKGROUND Sino-Vietnamese limestone karsts (SVLK) are a biodiversity hotspot rich in endemic plant species associated with caves and cave-like microhabitats. Based on phylogenetic studies of Begonia sect. Coelocentrum, a species-rich and characteristic SVLK clade, geographic isolation caused by extensive and continuous karstification was proposed as the major driving force triggering population diversification and geographic speciation. To test this proposition, population genetics and phylogeography of Begonia luzhaiensis were investigated using EST-SSR markers and the chloroplast trnC-ycf6 intergenic spacer. RESULTS F statistics, Bayesian clustering analysis, AMOVA, and PCoA of both data sets all indicated substantial population differentiation and significant isolation by distance. Nested clade phylogeographic analyses inferred that historical fragmentations have been prominent, congruent with Guangxi's geohistory of karstification as well as suggesting a mountain chain in northeastern Guangxi could have also acted as a major geographic barrier. A Bayesian skyline plot (BSP) indicated a slight decline in effective population size at 75,000 years ago (75 Kya), coinciding with the last glacial period during which the increased aridity in East Asia had retarded karstification, negatively affecting the populations of B. luzhaiensis. However, BSP detected a continuous and further population decline until the present time even though summer monsoons have resumed since the end of the last glacial maximum. CONCLUSIONS The microevolution patterns of B. luzhaiensis support that limited gene flow would have greatly enhanced the effects of random genetic drift and has been a major factor promoting diversification in Begonia, highly congruent with previous proposition. Based our study, we further propose that the arrival of Paleolithic Homo sapiens whose activities centered around limestone caves could have had further impacts on the populations of B. luzhaiensis, resulting in additional population decline. Further habitat destruction could have resulted from the transition from hunter gathering to food-producing societies ca. 20-10 Kya and the development of agriculture ca. 10 Kya in South China. Implications of the current study for SVLK plant conservation are also discussed.
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Affiliation(s)
- Yu-Hsin Tseng
- Research Museum and Herbarium (HAST), Biodiversity Research Center, Academia Sinica, Taipei, Taiwan
| | - Han-Yau Huang
- Research Museum and Herbarium (HAST), Biodiversity Research Center, Academia Sinica, Taipei, Taiwan
- School of Forestry and Resource Conservation, National Taiwan University, Taipei, Taiwan
| | - Wei-Bin Xu
- Guangxi Key Laboratory of Plant Conservation and Restoration Ecology in Karst Terrain, Guangxi Institute of Botany, Guangxi Zhuang Autonomous Region and Chinese Academy of Sciences, Guilin, Guangxi China
| | - Hsun-An Yang
- Research Museum and Herbarium (HAST), Biodiversity Research Center, Academia Sinica, Taipei, Taiwan
| | - Ching-I Peng
- Research Museum and Herbarium (HAST), Biodiversity Research Center, Academia Sinica, Taipei, Taiwan
| | - Yan Liu
- Guangxi Key Laboratory of Plant Conservation and Restoration Ecology in Karst Terrain, Guangxi Institute of Botany, Guangxi Zhuang Autonomous Region and Chinese Academy of Sciences, Guilin, Guangxi China
| | - Kuo-Fang Chung
- Research Museum and Herbarium (HAST), Biodiversity Research Center, Academia Sinica, Taipei, Taiwan
- School of Forestry and Resource Conservation, National Taiwan University, Taipei, Taiwan
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15
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Veron S, Haevermans T, Govaerts R, Mouchet M, Pellens R. Distribution and relative age of endemism across islands worldwide. Sci Rep 2019; 9:11693. [PMID: 31406123 PMCID: PMC6690940 DOI: 10.1038/s41598-019-47951-6] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2019] [Accepted: 07/22/2019] [Indexed: 01/18/2023] Open
Abstract
Islands have remarkable levels of endemism and contribute greatly to global biodiversity. Establishing the age of island endemics is important to gain insights into the processes that have shaped the biodiversity patterns of island biota. We investigated the relative age of monocots across islands worldwide, using different measures of phylogenetic endemism tested against null models. We compiled a species occurrence dataset across 4,306 islands, and identified 142 sites with neo-, paleo-, mixed and super-endemism. These sites were distributed across the world, although they tended to be more common at low latitudes. The most frequent types of endemism were mixed and super-endemism, which suggests that present-day island biodiversity has frequently been shaped by processes that took place at different points in times. We also identified the environmental factors that contributed most to different types of endemism; we found that latitude, habitat availability and climate stability had a significant impact on the persistence of ancient taxa and on recent diversification events. The islands identified here are irreplaceable both for the uniqueness and the evolutionary history of their flora, and because they are a source of "option values" and evolutionary potential. Therefore, our findings will help guide biodiversity conservation on a global scale.
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Affiliation(s)
- Simon Veron
- Institut de Systématique, Evolution, Biodiversité (ISYEB UMR 7205), Muséum National d'Histoire Naturelle (MNHN), CNRS, Sorbonne Université, EPHE, CP 51, 47 rue Buffon, 75005, Paris, France.
- Centre d'Ecologie et des Sciences de la Conservation (CESCO UMR 7204) MNHN, CNRS, Sorbonne Université - CP51, 55-61 rue Buffon, 75005, Paris, France.
| | - Thomas Haevermans
- Institut de Systématique, Evolution, Biodiversité (ISYEB UMR 7205), Muséum National d'Histoire Naturelle (MNHN), CNRS, Sorbonne Université, EPHE, CP 51, 47 rue Buffon, 75005, Paris, France
| | | | - Maud Mouchet
- Centre d'Ecologie et des Sciences de la Conservation (CESCO UMR 7204) MNHN, CNRS, Sorbonne Université - CP51, 55-61 rue Buffon, 75005, Paris, France
| | - Roseli Pellens
- Institut de Systématique, Evolution, Biodiversité (ISYEB UMR 7205), Muséum National d'Histoire Naturelle (MNHN), CNRS, Sorbonne Université, EPHE, CP 51, 47 rue Buffon, 75005, Paris, France
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16
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Xu X, Cheng F, Peng L, Sun Y, Hu X, Li S, Xian H, Jia K, Abbott RJ, Mao J. Late Pleistocene speciation of three closely related tree peonies endemic to the Qinling-Daba Mountains, a major glacial refugium in Central China. Ecol Evol 2019; 9:7528-7548. [PMID: 31346420 PMCID: PMC6635923 DOI: 10.1002/ece3.5284] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2018] [Revised: 04/22/2019] [Accepted: 05/08/2019] [Indexed: 12/18/2022] Open
Abstract
Determining the factors promoting speciation is a major task in ecological and evolutionary research and can be aided by phylogeographic analysis. The Qinling-Daba Mountains (QDM) located in central China form an important geographic barrier between southern subtropical and northern temperate regions, and exhibit complex topography, climatic, and ecological diversity. Surprisingly, few phylogeographic analyses and studies of plant speciation in this region have been conducted. To address this issue, we investigated the genetic divergence and evolutionary histories of three closely related tree peony species (Paeonia qiui, P. jishanensis, and P. rockii) endemic to the QDM. Forty populations of the three tree peony species were genotyped using 22 nuclear simple sequence repeat markers (nSSRs) and three chloroplast DNA sequences to assess genetic structure and phylogenetic relationships, supplemented by morphological characterization and ecological niche modeling (ENM). Morphological and molecular genetic analyses showed the three species to be clearly differentiated from each other. In addition, coalescent analyses using DIYABC conducted on nSSR variation indicated that the species diverged from each other in the late Pleistocene, while ecological niche modeling (ENM) suggested they occupied a larger area during the Last Glacial Maximum (LGM) than at present. The combined genetic evidence from nuclear and chloroplast DNA and the results of ENM indicate that each species persisted through the late Pleistocene in multiple refugia in the Qinling, Daba, and Taihang Mountains with divergence favored by restricted gene flow caused by geographic isolation, ecological divergence, and limited pollen and seed dispersal. Our study contributes to a growing understanding of the origin and population structure of tree peonies and provides insights into the high level of plant endemism present in the Qinling-Daba Mountains of Central China.
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Affiliation(s)
- Xing‐Xing Xu
- Peony International Research Institute, National Flower Engineering Research Centre, Key Laboratory for the Genetics and Breeding of Forest Trees and Ornamental Plants, College of Landscape ArchitectureBeijing Forestry UniversityBeijingChina
| | - Fang‐Yun Cheng
- Peony International Research Institute, National Flower Engineering Research Centre, Key Laboratory for the Genetics and Breeding of Forest Trees and Ornamental Plants, College of Landscape ArchitectureBeijing Forestry UniversityBeijingChina
| | - Li‐Ping Peng
- Peony International Research Institute, National Flower Engineering Research Centre, Key Laboratory for the Genetics and Breeding of Forest Trees and Ornamental Plants, College of Landscape ArchitectureBeijing Forestry UniversityBeijingChina
| | - Yan‐Qiang Sun
- Beijing Advanced Innovation Center for Tree Breeding by Molecular Design, National Engineering Laboratory for Tree Breeding, Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Ministry of Education, College of Biological Sciences and TechnologyBeijing Forestry UniversityBeijingChina
| | - Xian‐Ge Hu
- Beijing Advanced Innovation Center for Tree Breeding by Molecular Design, National Engineering Laboratory for Tree Breeding, Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Ministry of Education, College of Biological Sciences and TechnologyBeijing Forestry UniversityBeijingChina
| | - San‐Yuan Li
- Forestry Department of Shaanxi ProvinceXi'anShaanxiChina
| | - Hong‐Li Xian
- Forestry Department of Shaanxi ProvinceXi'anShaanxiChina
| | - Kai‐Hua Jia
- Beijing Advanced Innovation Center for Tree Breeding by Molecular Design, National Engineering Laboratory for Tree Breeding, Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Ministry of Education, College of Biological Sciences and TechnologyBeijing Forestry UniversityBeijingChina
| | - Richard J. Abbott
- School of Biology, Mitchell BuildingUniversity of St AndrewsSt AndrewsFifeUK
| | - Jian‐Feng Mao
- Beijing Advanced Innovation Center for Tree Breeding by Molecular Design, National Engineering Laboratory for Tree Breeding, Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Ministry of Education, College of Biological Sciences and TechnologyBeijing Forestry UniversityBeijingChina
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17
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Yao X, Zhang W, Duan X, Yuan Y, Zhang R, Shan H, Kong H. The making of elaborate petals in Nigella through developmental repatterning. THE NEW PHYTOLOGIST 2019; 223:385-396. [PMID: 30889278 DOI: 10.1111/nph.15799] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/20/2019] [Accepted: 03/08/2019] [Indexed: 05/20/2023]
Abstract
Elaborate petals are present in many flowering plants lineages and have greatly promoted the success and evolutionary radiation of these groups. How elaborate petals are made, however, remains largely unclear. Petals of Nigella (Ranunculaceae) have long been recognized as elaborate and can thus be an excellent model for the study of petal elaboration. Here, by conducting detailed morphological, micromorphological, anatomical, developmental and evolutionary studies on the petals of Nigella species, we explored the processes, general patterns and underlying mechanisms of petal elaboration. We found that petals of Nigella are highly complex, and the complexity can be reflected at various levels. We also found that evolutionary elaboration of the Nigella petals is a gradual process, involving not only modifications of pre-existing structures but also de novo origination of new characters. Further investigations indicated that the elaboration and diversification of Nigella petals were accomplished by modifying the ancestral trajectory of petal development, a process known as developmental repatterning. Our results not only provide new insights into the development and evolution of elaborate petals, but also highlight the necessity of conducting multiple-level investigations for understanding the processes, patterns and underlying mechanisms of plant evolution.
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Affiliation(s)
- Xu Yao
- State Key Laboratory of Systematic and Evolutionary Botany, CAS Center for Excellence in Molecular Plant Sciences, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Wengen Zhang
- State Key Laboratory of Systematic and Evolutionary Botany, CAS Center for Excellence in Molecular Plant Sciences, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
| | - Xiaoshan Duan
- State Key Laboratory of Systematic and Evolutionary Botany, CAS Center for Excellence in Molecular Plant Sciences, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
| | - Yi Yuan
- State Key Laboratory of Systematic and Evolutionary Botany, CAS Center for Excellence in Molecular Plant Sciences, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Rui Zhang
- State Key Laboratory of Systematic and Evolutionary Botany, CAS Center for Excellence in Molecular Plant Sciences, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
| | - Hongyan Shan
- State Key Laboratory of Systematic and Evolutionary Botany, CAS Center for Excellence in Molecular Plant Sciences, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
| | - Hongzhi Kong
- State Key Laboratory of Systematic and Evolutionary Botany, CAS Center for Excellence in Molecular Plant Sciences, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
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18
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Abbott RJ. A mixing-isolation-mixing model of speciation can potentially explain hotspots of species diversity. Natl Sci Rev 2019; 6:290-291. [PMID: 34691866 PMCID: PMC8291541 DOI: 10.1093/nsr/nwy112] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
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19
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Mcglaughlin ME, Riley L, Helenurm K, Wallace LE. Does Channel Island Acmispon (Fabaceae) form cohesive evolutionary groups? WEST N AM NATURALIST 2018. [DOI: 10.3398/064.078.0414] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
Affiliation(s)
| | - Lynn Riley
- Department of Biology, University of South Dakota, Vermillion, SD 57069
| | - Kaius Helenurm
- Department of Biology, University of South Dakota, Vermillion, SD 57069
| | - Lisa E. Wallace
- Department of Biological Sciences, Old Dominion University, Norfolk, VA 23529
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20
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Li YS, Chang CT, Wang CN, Thomas P, Chung JD, Hwang SY. The Contribution of Neutral and Environmentally Dependent Processes in Driving Population and Lineage Divergence in Taiwania ( Taiwania cryptomerioides). FRONTIERS IN PLANT SCIENCE 2018; 9:1148. [PMID: 30135693 PMCID: PMC6092574 DOI: 10.3389/fpls.2018.01148] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/01/2018] [Accepted: 07/18/2018] [Indexed: 06/08/2023]
Abstract
The question of what determines divergence both between and within species has been the central topic in evolutionary biology. Neutral drift and environmentally dependent divergence are predicted to play roles in driving population and lineage divergence. However, neutral drift may preclude adaptation if the rate of gene flow between populations is high. Here, we sampled populations of three Taiwania (Taiwania cryptomerioides) lineages occurring in Taiwan, the mainland of China (Yunnan-Myanmar border), and northern Vietnam, and tested the relative strength of neutral drift and divergent selection in shaping divergence of those populations and lineages. We quantified genetic and epigenetic variation, respectively, using amplified fragment length polymorphism (AFLP) and methylation-sensitive amplification polymorphism (MSAP). Analysis of 1413 AFLP and 462 MSAP loci using frequency-based genome scan methods and generalized linear models (GLMs) found no potential selective outliers when only Taiwanese populations were examined, suggesting that neutral drift was the predominant evolutionary process driving differentiation between those populations. However, environmentally associated divergence was found when lineages were compared. Thirty-two potential selective outliers were identified based on genome scans and their associations with environmental variables were tested with GLMs, generalized linear mixed effect models (GLMMs), and model selection with a model averaging approach. Ten loci (six AFLP and four MSAP) were found to be strongly associated with environmental variables, particularly monthly temperature variation and normalized difference vegetation index (NDVI) using model selection and a model averaging approach. Because only a small portion of genetic and epigenetic loci were found to be potential selective outliers, neutral evolutionary process might also have played crucial roles in driving lineage divergence, particularly between geographically and genetically isolated island and mainland Asia lineages. Nevertheless, the vast amount of neutral drift causing genetic and epigenetic variations might have the potential for adaptation to future climate changes. These could be important for the survival of Taiwania in different geographic areas.
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Affiliation(s)
- Yi-Shao Li
- Department of Life Science, National Taiwan Normal University, Taipei, Taiwan
| | - Chung-Te Chang
- Department of Geography, National Taiwan University, Taipei, Taiwan
| | - Chun-Neng Wang
- Institute of Ecology and Evolution, National Taiwan University, Taipei, Taiwan
| | - Philip Thomas
- International Conifer Conservation Programme of the Royal Botanic Garden, Edinburgh, United Kingdom
| | - Jeng-Der Chung
- Division of Silviculture, Taiwan Forestry Research Institute, Taipei, Taiwan
| | - Shih-Ying Hwang
- Department of Life Science, National Taiwan Normal University, Taipei, Taiwan
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21
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He Z, Li X, Yang M, Wang X, Zhong C, Duke NC, Wu CI, Shi S. Speciation with gene flow via cycles of isolation and migration: insights from multiple mangrove taxa. Natl Sci Rev 2018; 6:275-288. [PMID: 31258952 PMCID: PMC6599600 DOI: 10.1093/nsr/nwy078] [Citation(s) in RCA: 76] [Impact Index Per Article: 12.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023] Open
Abstract
Allopatric speciation requiring an unbroken period of geographical isolation has been the standard model of neo-Darwinism. While doubts have been repeatedly raised, strict allopatry without any gene flow remains a plausible mechanism in most cases. To rigorously reject strict allopatry, genomic sequences superimposed on the geological records of a well-delineated geographical barrier are necessary. The Strait of Malacca, narrowly connecting the Pacific and Indian Ocean coasts, serves at different times either as a geographical barrier or a conduit of gene flow for coastal/marine species. We surveyed 1700 plants from 29 populations of 5 common mangrove species by large-scale DNA sequencing and added several whole-genome assemblies. Speciation between the two oceans is driven by cycles of isolation and gene flow due to the fluctuations in sea level leading to the opening/closing of the Strait to ocean currents. Because the time required for speciation in mangroves is longer than the isolation phases, speciation in these mangroves has proceeded through many cycles of mixing-isolation-mixing, or MIM, cycles. The MIM mechanism, by relaxing the condition of no gene flow, can promote speciation in many more geographical features than strict allopatry can. Finally, the MIM mechanism of speciation is also efficient, potentially yielding mn (m > 1) species after n cycles.
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Affiliation(s)
- Ziwen He
- State Key Laboratory of Biocontrol, Guangdong Key Lab of Plant Resources, Key Laboratory of Biodiversity Dynamics and Conservation of Guangdong Higher Education Institutes, School of Life Sciences, Sun Yat-Sen University, Guangzhou 510275, China
| | - Xinnian Li
- State Key Laboratory of Biocontrol, Guangdong Key Lab of Plant Resources, Key Laboratory of Biodiversity Dynamics and Conservation of Guangdong Higher Education Institutes, School of Life Sciences, Sun Yat-Sen University, Guangzhou 510275, China
| | - Ming Yang
- State Key Laboratory of Biocontrol, Guangdong Key Lab of Plant Resources, Key Laboratory of Biodiversity Dynamics and Conservation of Guangdong Higher Education Institutes, School of Life Sciences, Sun Yat-Sen University, Guangzhou 510275, China
| | - Xinfeng Wang
- State Key Laboratory of Biocontrol, Guangdong Key Lab of Plant Resources, Key Laboratory of Biodiversity Dynamics and Conservation of Guangdong Higher Education Institutes, School of Life Sciences, Sun Yat-Sen University, Guangzhou 510275, China
| | - Cairong Zhong
- Hainan Dongzhai Harbor National Nature Reserve Administration, Haikou 571129, China
| | - Norman C Duke
- Centre for Tropical Water and Aquatic Ecosystem Research, James Cook University, Townsville 4811, Australia
| | - Chung-I Wu
- State Key Laboratory of Biocontrol, Guangdong Key Lab of Plant Resources, Key Laboratory of Biodiversity Dynamics and Conservation of Guangdong Higher Education Institutes, School of Life Sciences, Sun Yat-Sen University, Guangzhou 510275, China.,CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100101, China.,Department of Ecology and Evolution, University of Chicago, Chicago IL 60637, USA
| | - Suhua Shi
- State Key Laboratory of Biocontrol, Guangdong Key Lab of Plant Resources, Key Laboratory of Biodiversity Dynamics and Conservation of Guangdong Higher Education Institutes, School of Life Sciences, Sun Yat-Sen University, Guangzhou 510275, China
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22
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Reis J, Bidau CJ, Maestri R, Martinez PA. Diversification of the climatic niche drove the recent processes of speciation in Sigmodontinae (Rodentia, Cricetidae). Mamm Rev 2018. [DOI: 10.1111/mam.12128] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
Affiliation(s)
- Jennifer Reis
- PIBiLab - Laboratório de Pesquisas Integrativas em Biodiversidade; Universidade Federal de Sergipe; São Cristóvão SE 49100-000 Brazil
| | - Claudio J. Bidau
- Capital Federal; Olaguer 444, 1752 Lomas del Mirador Buenos Aires Argentina
| | - Renan Maestri
- Departamento de Zoologia; Instituto de Biociências; Universidade Federal do Rio Grande do Sul; Porto Alegre RS 91501-970 Brazil
| | - Pablo A. Martinez
- PIBiLab - Laboratório de Pesquisas Integrativas em Biodiversidade; Universidade Federal de Sergipe; São Cristóvão SE 49100-000 Brazil
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Vamosi JC, Magallón S, Mayrose I, Otto SP, Sauquet H. Macroevolutionary Patterns of Flowering Plant Speciation and Extinction. ANNUAL REVIEW OF PLANT BIOLOGY 2018; 69:685-706. [PMID: 29489399 DOI: 10.1146/annurev-arplant-042817-040348] [Citation(s) in RCA: 40] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/07/2023]
Abstract
Species diversity is remarkably unevenly distributed among flowering plant lineages. Despite a growing toolbox of research methods, the reasons underlying this patchy pattern have continued to perplex plant biologists for the past two decades. In this review, we examine the present understanding of transitions in flowering plant evolution that have been proposed to influence speciation and extinction. In particular, ploidy changes, transitions between tropical and nontropical biomes, and shifts in floral form have received attention and have offered some surprises in terms of which factors influence speciation and extinction rates. Mating systems and dispersal characteristics once predominated as determining factors, yet recent evidence suggests that these changes are not as influential as previously thought or are important only when paired with range shifts. Although range extent is an important correlate of speciation, it also influences extinction and brings an applied focus to diversification research. Recent studies that find that past diversification can predict present-day extinction risk open an exciting avenue for future research to help guide conservation prioritization.
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Affiliation(s)
- Jana C Vamosi
- Department of Biological Sciences, University of Calgary, Calgary, Alberta T2N 1N4, Canada;
| | - Susana Magallón
- Instituto de Biología, Universidad Nacional Autónoma de México, Ciudad de México 04510, México
| | - Itay Mayrose
- Department of Molecular Biology and Ecology of Plants, George S. Wise Faculty of Life Sciences, Tel Aviv University, Tel Aviv 69978, Israel
| | - Sarah P Otto
- Department of Zoology and the Biodiversity Research Centre, University of British Columbia, Vancouver, British Columbia V6T 1Z4, Canada
| | - Hervé Sauquet
- Laboratoire Écologie, Systématique, Évolution, Université Paris-Sud, CNRS UMR 8079, 91405 Orsay, France
- National Herbarium of New South Wales (NSW), Royal Botanic Gardens and Domain Trust, Sydney, NSW 2000, Australia
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Cao YN, Wang IJ, Chen LY, Ding YQ, Liu LX, Qiu YX. Inferring spatial patterns and drivers of population divergence of Neolitsea sericea (Lauraceae), based on molecular phylogeography and landscape genomics. Mol Phylogenet Evol 2018; 126:162-172. [PMID: 29678646 DOI: 10.1016/j.ympev.2018.04.010] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2017] [Revised: 03/02/2018] [Accepted: 04/09/2018] [Indexed: 11/24/2022]
Abstract
The relative roles of geography, climate and ecology in driving population divergence and (incipient) speciation has so far been largely neglected in studies addressing the evolution of East Asia's island flora. Here, we employed chloroplast and ribosomal DNA sequences and restriction site-associated DNA sequencing (RADseq) loci to investigate the phylogeography and drivers of population divergence of Neolitsea sericea. These data sets support the subdivision of N. sericea populations into the Southern and Northern lineages across the 'Tokara gap'. Two distinct sublineages were further identified for the Northern lineage of N. sericea from the RADseq data. RADseq was also used along with approximate Bayesian computation to show that the current distribution and differentiation of N. sericea populations resulted from a combination of relatively ancient migration and successive vicariant events that likely occurred during the mid to late Pleistocene. Landscape genomic analyses showed that, apart from geographic barriers, barrier, potentially local adaptation to different climatic conditions appears to be one of the major drivers for lineage diversification of N. sericea.
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Affiliation(s)
- Ya-Nan Cao
- Key Laboratory of Conservation Biology for Endangered Wildlife of the Ministry of Education, and College of Life Sciences, Zhejiang University, Hangzhou, Zhejiang 310058, China
| | - Ian J Wang
- Department of Environmental Science, Policy, and Management, University of California, Berkeley, CA 94720, USA
| | - Lu-Yao Chen
- Key Laboratory of Conservation Biology for Endangered Wildlife of the Ministry of Education, and College of Life Sciences, Zhejiang University, Hangzhou, Zhejiang 310058, China
| | - Yan-Qian Ding
- Key Laboratory of Conservation Biology for Endangered Wildlife of the Ministry of Education, and College of Life Sciences, Zhejiang University, Hangzhou, Zhejiang 310058, China
| | - Lu-Xian Liu
- Key Laboratory of Conservation Biology for Endangered Wildlife of the Ministry of Education, and College of Life Sciences, Zhejiang University, Hangzhou, Zhejiang 310058, China
| | - Ying-Xiong Qiu
- Key Laboratory of Conservation Biology for Endangered Wildlife of the Ministry of Education, and College of Life Sciences, Zhejiang University, Hangzhou, Zhejiang 310058, China.
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Jaros U, Tribsch A, Comes HP. Diversification in continental island archipelagos: new evidence on the roles of fragmentation, colonization and gene flow on the genetic divergence of Aegean Nigella (Ranunculaceae). ANNALS OF BOTANY 2018; 121:241-254. [PMID: 29300817 PMCID: PMC5808797 DOI: 10.1093/aob/mcx150] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/20/2017] [Accepted: 11/16/2017] [Indexed: 05/20/2023]
Abstract
Background and Aims Disentangling the relative roles of past fragmentation (vicariance), colonization (dispersal) and post-divergence gene flow in the genetic divergence of continental island organisms remains a formidable challenge. Amplified fragment length polymorphisms (AFLPs) were used to (1) gain further insights into the biogeographical processes underlying the Pleistocene diversification of the Aegean Nigella arvensis complex; (2) evaluate the role of potential key factors driving patterns of population genetic variability (mating system, geographical isolation and historical contingencies); and (3) test the robustness of conclusions previously drawn from chloroplast (cp) DNA. Methods Genetic diversity was analysed for 235 AFLP markers from 48 populations (497 individuals) representing 11 taxa of the complex using population genetic methods and Bayesian assignment tests. Key Results Most designated taxa are identifiable as genetically distinct units. Both fragmentation and dispersal-driven diversification processes occurred at different geological time scales, from Early to Late Pleistocene, specifically (1) sea barrier-induced vicariant speciation in the Cyclades, the Western Cretan Strait and Ikaria; and (2) bi-regional colonizations of the 'Southern Aegean Island Arc' from the Western vs. Eastern Aegean mainland, followed by allopatric divergences in Crete vs. Rhodos and Karpathos/Kasos. Outcrossing island taxa experienced drift-related demographic processes that are magnified in the two insular selfing species. Population genetic differentiation on the mainland seems largely driven by dispersal limitation, while in the Central Aegean it may still be influenced by historical events (island fragmentation and sporadic long-distance colonization). Conclusions The biogeographical history of Aegean Nigella is more complex than expected for a strictly allopatric vicariant model of divergence. Nonetheless, the major phylogeographical boundaries of this radiation are largely congruent with the geography and history of islands, with little evidence for ongoing gene exchange between divergent taxa. The present results emphasize the need to investigate further biological and landscape features and contemporary vs. historical processes in driving population divergence and taxon diversification in Aegean plant radiations.
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Affiliation(s)
- Ursula Jaros
- Department of Ecology and Evolution, University of Salzburg, Salzburg, Austria
| | - Andreas Tribsch
- Department of Ecology and Evolution, University of Salzburg, Salzburg, Austria
| | - Hans Peter Comes
- Department of Ecology and Evolution, University of Salzburg, Salzburg, Austria
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26
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Traveset A, Navarro L. Plant reproductive ecology and evolution in the Mediterranean islands: state of the art. PLANT BIOLOGY (STUTTGART, GERMANY) 2018; 20 Suppl 1:63-77. [PMID: 28945322 DOI: 10.1111/plb.12636] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/16/2017] [Accepted: 09/21/2017] [Indexed: 06/07/2023]
Abstract
The ca. 12,000 islands and islets that encompass the Mediterranean Basin represent a biodiversity hotspot. They have been disconnected from each other and from the continent for hundreds of thousands to millions of years and encompass a high incidence of endemic plant species, with values that can exceed 20% of the local flora. Despite this, relatively few studies have been carried out to unravel ecological and evolutionary aspects of plant reproduction. We synthesise here the available information on the breeding systems, pollination and seed dispersal mode of the Mediterranean island flora. The main objective is to identify general patterns as well as to detect the main gaps in information on reproductive ecology in these particular and vulnerable systems in the face of global change. We also briefly review the information on impacts of invasive species on plant reproduction and dispersal, as these are some of the main threats to island biodiversity in general and Mediterranean island plant diversity in particular. The review has revealed that most available information is very geographically biased towards the western Mediterranean islands, especially the Balearic Islands, although a good fraction of studies have also been carried out on the eastern islands in the Aegean archipelago. Moreover, the majority of data come from species-focused studies, mainly endemic species of restricted range, whereas only a small fraction of studies have been performed at a community level. Relatively little work has involved genetic analyses, mainly focused on assessing the genetic differentiation and variability on narrow endemics. Contrary to our expectations, most island species do not rely on autonomous selfing, which might be related to the relatively high diversity of pollinators. The small, uninhabited, islands might be the last refuges of peculiar interactions that evolved in them in ancient times; they thus should be considered as sanctuaries of extraordinary biodiversity. Finally, we point out the main gaps of information and formulate a set of hypotheses that we believe are worth testing in future studies if we are to advance knowledge on the reproductive biology of Mediterranean island plants.
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Affiliation(s)
- A Traveset
- Global Change Research Group, Institut Mediterrani d'Estudis Avançats IMEDEA (CSIC- UIB), Mallorca, Balearic Islands, Spain
| | - L Navarro
- Departamento de Biología Vegetal y Ciencias del Suelo, Facultad de Ciencias, Universidad de Vigo, Vigo, Spain
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27
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Wang J, Ai B, Kong H, Kang M. Speciation history of a species complex of Primulina eburnea (Gesneriaceae) from limestone karsts of southern China, a biodiversity hot spot. Evol Appl 2017; 10:919-934. [PMID: 29151883 PMCID: PMC5680421 DOI: 10.1111/eva.12495] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/11/2017] [Accepted: 05/22/2017] [Indexed: 11/30/2022] Open
Abstract
Limestone karsts in southern China are characterized by high edaphic and topographic heterogeneity and host high levels of species richness and endemism. However, the evolutionary mechanisms for generating such biodiversity remain poorly understood. Here, we performed species delimitation, population genetic analyses, simulations of gene flow and analyses of floral morphological traits to infer the geographic history of speciation in a species complex of Primulina eburnea from limestone karsts of southern China. Using Bayesian species delimitation, we determined that there are seven distinct species that correspond well to the putative morphological species. Species tree reconstruction, Structure and Neighbor‐Net analyses all recovered four lineages in agreement with currently species geographic boundaries. High levels of genetic differentiation were observed both within and among species. Isolation–migration coalescent analysis provides evidence for significant but low gene flow among species. Approximate Bayesian computation (ABC) analysis supports a scenario of historical gene flow rather than recent contemporary gene flow for most species divergences. Finally, we found no evidence of divergent selection contributing to population differentiation of a suite of flower traits. These results support the prevalence of allopatric speciation and highlight the role of geographic isolation in the diversification process. At small geographic scales, limited hybridization occurred in the past between proximate populations but did not eliminate species boundaries. We conclude that limited gene flow might have been the predominant evolutionary force in promoting population differentiation and speciation.
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Affiliation(s)
- Jing Wang
- Key Laboratory of Plant Resources Conservation and Sustainable Utilization South China Botanical Garden Chinese Academy of Sciences Guangzhou China
| | - Bin Ai
- Key Laboratory of Plant Resources Conservation and Sustainable Utilization South China Botanical Garden Chinese Academy of Sciences Guangzhou China
| | - Hanghui Kong
- Key Laboratory of Plant Resources Conservation and Sustainable Utilization South China Botanical Garden Chinese Academy of Sciences Guangzhou China
| | - Ming Kang
- Key Laboratory of Plant Resources Conservation and Sustainable Utilization South China Botanical Garden Chinese Academy of Sciences Guangzhou China.,Southeast Asia Biodiversity Research Institute Chinese Academy of Sciences Nay Pyi Taw Myanmar
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28
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Sefc KM, Mattersdorfer K, Ziegelbecker A, Neuhüttler N, Steiner O, Goessler W, Koblmüller S. Shifting barriers and phenotypic diversification by hybridisation. Ecol Lett 2017; 20:651-662. [PMID: 28384842 PMCID: PMC6555762 DOI: 10.1111/ele.12766] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2017] [Accepted: 03/06/2017] [Indexed: 01/30/2023]
Abstract
The establishment of hybrid taxa relies on reproductive isolation from the parental forms, typically achieved by ecological differentiation. Here, we present an alternative mechanism, in which shifts in the strength and location of dispersal barriers facilitate diversification by hybridisation. Our case study concerns the highly diverse, stenotopic rock-dwelling cichlids of the African Great Lakes, many of which display geographic colour pattern variation. The littoral habitat of these fish has repeatedly been restructured in the course of ancient lake level fluctuations. Genetic data and an experimental cross support the hybrid origin of a distinct yellow-coloured variant of Tropheus moorii from ancient admixture between two allopatric, red and bluish variants. Deficient assortative mating preferences imply that reproductive isolation continues to be contingent on geographic separation. Linking paleolimnological data with the establishment of the hybrid variant, we sketch a selectively neutral diversification process governed solely by rearrangements of dispersal barriers.
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Affiliation(s)
- Kristina M. Sefc
- Institute of Zoology, University of Graz, Universitätsplatz 2, 8010 Graz, Austria
| | - Karin Mattersdorfer
- Institute of Zoology, University of Graz, Universitätsplatz 2, 8010 Graz, Austria
| | | | - Nina Neuhüttler
- Institute of Zoology, University of Graz, Universitätsplatz 2, 8010 Graz, Austria
| | - Oliver Steiner
- Institute of Chemistry - Analytical Chemistry, University of Graz, Universitätsplatz 1, 8010 Graz, Austria
| | - Walter Goessler
- Institute of Chemistry - Analytical Chemistry, University of Graz, Universitätsplatz 1, 8010 Graz, Austria
| | - Stephan Koblmüller
- Institute of Zoology, University of Graz, Universitätsplatz 2, 8010 Graz, Austria
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29
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Sfenthourakis S, Triantis KA. The Aegean archipelago: a natural laboratory of evolution, ecology and civilisations. ACTA ACUST UNITED AC 2017; 24:4. [PMID: 28251115 PMCID: PMC5320758 DOI: 10.1186/s40709-017-0061-3] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2016] [Accepted: 01/28/2017] [Indexed: 12/29/2022]
Abstract
The Aegean archipelago, comprising numerous islands and islets with great heterogeneity in topographic, geological, historical and environmental properties, offers an ideal natural laboratory for ecological and evolutionary research, and has been the stage for a very long interaction between human civilizations and local ecosystems. This work presents insights that have been gained from past and current relevant research in the area, highlighting also the importance of the Aegean archipelago as a useful model to address many major questions in biogeography, ecology and evolutionary processes. Among the most interesting findings from such studies concern the role of habitat heterogeneity as the most important determinant of species richness, the development of a new model (Choros) for the species–area–habitats relationship, the mechanistic aspects of the Small Island Effect, the very high rates of species turnover, the lack of a role for interspecific competition in shaping species co-occurrence patterns in most cases, the importance of non adaptive radiation in diversification of several taxa, the insights into the relative roles of vicariance and dispersal in speciation, the understanding of the interplay between human presence and the establishment of exotic species and extinction of indigenous biotas. Concluding, the Aegean archipelago is an ideal stage for research in evolution, ecology and biogeography, and has the potential to become a model study area at a global level, especially for land-bridge, continental islands.
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Affiliation(s)
- Spyros Sfenthourakis
- Department of Biological Sciences, University of Cyprus, Panepistimiou 1, 2109 Aglantzia, Nicosia, Cyprus
| | - Kostas A Triantis
- Department of Ecology and Taxonomy, Faculty of Biology, National and Kapodistrian University, Athens, Greece
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Wang N, Liang B, Wang J, Yeh CF, Liu Y, Liu Y, Liang W, Yao CT, Li SH. Incipient speciation with gene flow on a continental island: Species delimitation of the Hainan Hwamei (Leucodioptron canorum owstoni, Passeriformes, Aves). Mol Phylogenet Evol 2016; 102:62-73. [PMID: 27233437 DOI: 10.1016/j.ympev.2016.05.022] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2015] [Revised: 04/26/2016] [Accepted: 05/20/2016] [Indexed: 01/11/2023]
Abstract
Because of their isolation, continental islands (e.g., Madagascar) are often thought of as ideal systems to study allopatric speciation. However, many such islands have been connected intermittently to their neighboring continent during recent periods of glaciation, which may cause frequent contact between the diverging populations on the island and continent. As a result, the speciation processes on continental islands may not meet the prerequisites for strictly allopatric speciation. We used multiple lines of evidence to re-evaluate the taxonomic status of the Hainan Hwamei (Leucodioptron canorum owstoni), which is endemic to Hainan, the largest continental island in the South China Sea. Our analysis of mitochondrial DNA and twelve nuclear loci suggests that the Hainan Hwamei can be regarded as an independent species (L. owstoni); the morphological traits of the Hainan Hwamei also showed significant divergence from those of their mainland sister taxon, the Chinese Hwamei (L. canorum). We also inferred the divergence history of the Hainan and Chinese Hwamei to see whether their divergence was consistent with a strictly allopatric model. Our results suggest that the two Hwameis split only 0.2 million years ago with limited asymmetrical post-divergence gene flow. This implies that the Hainan Hwamei is an incipient species and that speciation occurred through ecologically divergent selection and/or assortative mating rather than a strictly allopatric process.
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Affiliation(s)
- Ning Wang
- Ministry of Education Key Laboratory for Tropical Plant and Animal Ecology, College of Life Sciences, Hainan Normal University, Haikou 571158, China.
| | - Bin Liang
- Ministry of Education Key Laboratory for Tropical Plant and Animal Ecology, College of Life Sciences, Hainan Normal University, Haikou 571158, China
| | - Jichao Wang
- Ministry of Education Key Laboratory for Tropical Plant and Animal Ecology, College of Life Sciences, Hainan Normal University, Haikou 571158, China
| | - Chia-Fen Yeh
- Department of Life Science, National Taiwan Normal University, Taipei 11677, Taiwan
| | - Yang Liu
- State Key Laboratory of BioControl, College of Ecology and Evolution/School of Life Sciences, Sun Yat-sen University, Guangzhou 510275, China
| | - Yanlin Liu
- Institute of Forestry Ecology, Environment and Protection, Chinese Academy of Forestry, Beijing 100091, China
| | - Wei Liang
- Ministry of Education Key Laboratory for Tropical Plant and Animal Ecology, College of Life Sciences, Hainan Normal University, Haikou 571158, China
| | - Cheng-Te Yao
- High-Altitude Experimental Station, Taiwan Endemic Species Research Institute, Chi-chi 55244, Taiwan
| | - Shou-Hsien Li
- Department of Life Science, National Taiwan Normal University, Taipei 11677, Taiwan.
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Ståhls G, Vujić A, Petanidou T, Cardoso P, Radenković S, Ačanski J, Pérez Bañón C, Rojo S. Phylogeographic patterns of Merodon hoverflies in the Eastern Mediterranean region: revealing connections and barriers. Ecol Evol 2016; 6:2226-45. [PMID: 27069578 PMCID: PMC4782255 DOI: 10.1002/ece3.2021] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/11/2015] [Accepted: 01/28/2016] [Indexed: 11/29/2022] Open
Abstract
We investigated the phylogeographic patterns of Merodon species (Diptera, Syrphidae) in the Eastern Mediterranean. Ten species were sampled on five different islands and mainland sites as a minimum. All samples were screened for their mtDNA COI barcode haplotype diversity, and for some samples, we additionally generated genomic fingerprints. The recently established zoogeographic distribution categories classify these species as having (1) Balkan distribution; (2) Anatolian distribution; (3) continental areas and large islands distribution; and (4) with wide distribution. The ancestral haplotypes and their geographical localities were estimated with statistical parsimony (TCS). TCS networks identified as the ancestral haplotype samples that originated from localities situated within the distributional category of the species in question. Strong geographical haplotype structuring was detected for many Merodon species. We were particularly interested to test the relative importance of current (Aegean Sea) and past Mid-Aegean Trench) barriers to dispersal for Merodon flies in the Aegean. We employed phylogenetic β-diversity (Pβ total) and its partition in replacement (Pβ repl) and richness difference (Pβ rich) to test the importance of each explanatory variable (interisland distance, MAT, and island area) in interisland differences using partial Mantel tests and hierarchical partitioning of variation. β-Analyses confirmed the importance of both current and past barriers to dispersal on the evolution of group. Current interisland distance was particularly important to explain the replacement of haplotypes, while the MAT was driving differences in richness of haplotypes, revealing the MAT as a strong past barrier whose effects are still visible today in the phylogenetic history of the clade in the Aegean. These results support the hypothesis of a highly restricted dispersal and gene flow among Merodon populations between islands since late Pleistocene. Additionally, patterns of phylogeographic structure deduced from haplotype connections and ISSR genome fingerprinting data revealed a few putative cases of human-mediated transfers of Merodon spp.
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Affiliation(s)
- Gunilla Ståhls
- Zoology UnitFinnish Museum of Natural HistoryUniversity of HelsinkiPO Box 1700014HelsinkiFinland
| | - Ante Vujić
- Department of Biology and EcologyUniversity of Novi SadTrg Dositeja Obradovića 221000Novi SadSerbia
| | - Theodora Petanidou
- Department of GeographyLaboratory of Biogeography & EcologyUniversity of the Aegean81100MytileneGreece
| | - Pedro Cardoso
- Zoology UnitFinnish Museum of Natural HistoryUniversity of HelsinkiPO Box 1700014HelsinkiFinland
| | - Snezana Radenković
- Department of Biology and EcologyUniversity of Novi SadTrg Dositeja Obradovića 221000Novi SadSerbia
| | - Jelena Ačanski
- BioSense InstituteUniversity of Novi SadDr Zorana Đinđića 121000Novi SadSerbia
| | - Celeste Pérez Bañón
- Department of Environmental Sciences & Natural Resources/Research Institute CIBIOUniversity of AlicanteApdo 99E‐03080AlicanteSpain
| | - Santos Rojo
- Department of Environmental Sciences & Natural Resources/Research Institute CIBIOUniversity of AlicanteApdo 99E‐03080AlicanteSpain
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Bai WN, Wang WT, Zhang DY. Phylogeographic breaks within Asian butternuts indicate the existence of a phytogeographic divide in East Asia. THE NEW PHYTOLOGIST 2016; 209:1757-72. [PMID: 26499508 DOI: 10.1111/nph.13711] [Citation(s) in RCA: 58] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/09/2015] [Accepted: 09/15/2015] [Indexed: 05/16/2023]
Abstract
East Asia has been hypothesized to be subdivided into two distinct northern and southern areas, separated by a band of dry climate that was far more severe in the early Tertiary but still exists today. However, this biogeographic hypothesis has rarely been tested using a molecular phylogeographic approach. We genotyped 70 populations throughout the distributional range of Asian butternuts (Juglans section Cardiocaryon) using eight chloroplast DNA regions, one single-copy nuclear gene, and 17 nuclear microsatellite loci, supplemented with paleodistribution modeling of the major genetic clades. The genetic data consistently identified two clades, one northern, comprising Juglans mandshurica and Juglans ailantifolia, and one southern, comprising Juglans cathayensis. The two clades diverged through climate-induced vicariance of an ancestral northern range during the mid-Miocene and remained mostly separate thereafter, with geographical isolation of the Japanese Islands and refugial isolation or secondary contacts in the late Pleistocene producing further subdivision within the northern clade. But beyond all that, we also discovered a role of environmental adaptation in maintaining and/or reinforcing the north-south divergence. Asian butternuts offer a strong case for the existence of a biogeographic divide between the northern and southern parts of East Asia during the Neogene and into the Pleistocene.
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Affiliation(s)
- Wei-Ning Bai
- State Key Laboratory of Earth Surface Processes and Resource Ecology and Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, College of Life Sciences, Beijing Normal University, Beijing, 100875, China
| | - Wen-Ting Wang
- State Key Laboratory of Earth Surface Processes and Resource Ecology and Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, College of Life Sciences, Beijing Normal University, Beijing, 100875, China
- School of Mathematics and Computer Science, Northwest University for Nationalities, Lanzhou, 730030, China
| | - Da-Yong Zhang
- State Key Laboratory of Earth Surface Processes and Resource Ecology and Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, College of Life Sciences, Beijing Normal University, Beijing, 100875, China
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Carlson JE, Adams CA, Holsinger KE. Intraspecific variation in stomatal traits, leaf traits and physiology reflects adaptation along aridity gradients in a South African shrub. ANNALS OF BOTANY 2016; 117:195-207. [PMID: 26424782 PMCID: PMC4701147 DOI: 10.1093/aob/mcv146] [Citation(s) in RCA: 49] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/01/2015] [Accepted: 08/11/2015] [Indexed: 05/02/2023]
Abstract
BACKGROUND AND AIMS Trait-environment relationships are commonly interpreted as evidence for local adaptation in plants. However, even when selection analyses support this interpretation, the mechanisms underlying differential benefits are often unknown. This study addresses this gap in knowledge using the broadly distributed South African shrub Protea repens. Specifically, the study examines whether broad-scale patterns of trait variation are consistent with spatial differences in selection and ecophysiology in the wild. METHODS In a common garden study of plants sourced from 19 populations, associations were measured between five morphological traits and three axes describing source climates. Trait-trait and trait-environment associations were analysed in a multi-response model. Within two focal populations in the wild, selection and path analyses were used to test associations between traits, fecundity and physiological performance. KEY RESULTS Across 19 populations in a common garden, stomatal density increased with the source population's mean annual temperature and decreased with its average amount of rainfall in midsummer. Concordantly, selection analysis in two natural populations revealed positive selection on stomatal density at the hotter, drier site, while failing to detect selection at the cooler, moister site. Dry-site plants with high stomatal density also had higher stomatal conductances, cooler leaf temperatures and higher light-saturated photosynthetic rates than those with low stomatal density, but no such relationships were present among wet-site plants. Leaf area, stomatal pore index and specific leaf area in the garden also co-varied with climate, but within-population differences were not associated with fitness in either wild population. CONCLUSIONS The parallel patterns of broad-scale variation, differences in selection and differences in trait-ecophysiology relationships suggest a mechanism for adaptive differentiation in stomatal density. Densely packed stomata may improve performance by increasing transpiration and cooling, but predominately in drier, hotter climates. This study uniquely shows context-dependent benefits of stomatal density--a trait rarely linked to local adaptation in plants.
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Affiliation(s)
- Jane E Carlson
- Department of Biological Sciences, Nicholls State University, P.O. Box 2021, Thibodaux, LA 70310, USA and
| | - Christopher A Adams
- Department of Biological Sciences, Nicholls State University, P.O. Box 2021, Thibodaux, LA 70310, USA and
| | - Kent E Holsinger
- Department of Ecology and Evolutionary Biology, University of Connecticut, U-3043, Storrs, CT 06269, USA
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Ruskin KJ, Hodgman TP, Etterson MA, Olsen BJ. Divergent oviposition preferences of sister species are not driven by nest survival: the evidence for neutrality. Behav Ecol Sociobiol 2015. [DOI: 10.1007/s00265-015-1975-0] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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Wellenreuther M, Sánchez-Guillén RA. Nonadaptive radiation in damselflies. Evol Appl 2015; 9:103-18. [PMID: 27087842 PMCID: PMC4780385 DOI: 10.1111/eva.12269] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2015] [Accepted: 04/16/2015] [Indexed: 12/02/2022] Open
Abstract
Adaptive radiations have long served as living libraries to study the build‐up of species richness; however, they do not provide good models for radiations that exhibit negligible adaptive disparity. Here, we review work on damselflies to argue that nonadaptive mechanisms were predominant in the radiation of this group and have driven species divergence through sexual selection arising from male–female mating interactions. Three damselfly genera (Calopteryx,Enallagma and Ischnura) are highlighted and the extent of (i) adaptive ecological divergence in niche use and (ii) nonadaptive differentiation in characters associated with reproduction (e.g. sexual morphology and behaviours) was evaluated. We demonstrate that species diversification in the genus Calopteryx is caused by nonadaptive divergence in coloration and behaviour affecting premating isolation, and structural differentiation in reproductive morphology affecting postmating isolation. Similarly, the vast majority of diversification events in the sister genera Enallagma and Ischnura are entirely driven by differentiation in genital structures used in species recognition. The finding that closely related species can show negligible ecological differences yet are completely reproductively isolated suggests that the evolution of reproductive isolation can be uncoupled from niche‐based divergent natural selection, challenging traditional niche models of species coexistence.
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Affiliation(s)
- Maren Wellenreuther
- Evolutionary Ecology, Biology Department Lund University Lund Sweden; Plant and Food Research Limited Nelson New Zealand
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Chen D, Chang J, Li SH, Liu Y, Liang W, Zhou F, Yao CT, Zhang Z. Was the exposed continental shelf a long-distance colonization route in the ice age? The Southeast Asia origin of Hainan and Taiwan partridges. Mol Phylogenet Evol 2015; 83:167-73. [DOI: 10.1016/j.ympev.2014.11.006] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/19/2014] [Revised: 10/04/2014] [Accepted: 11/07/2014] [Indexed: 10/24/2022]
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Chung KF, Leong WC, Rubite RR, Repin R, Kiew R, Liu Y, Peng CI. Phylogenetic analyses of Begonia sect. Coelocentrum and allied limestone species of China shed light on the evolution of Sino-Vietnamese karst flora. BOTANICAL STUDIES 2014; 55:1. [PMID: 28510906 PMCID: PMC5432845 DOI: 10.1186/1999-3110-55-1] [Citation(s) in RCA: 69] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/09/2013] [Accepted: 08/27/2013] [Indexed: 05/22/2023]
Abstract
BACKGROUND The picturesque limestone karsts across the Sino-Vietnamese border are renowned biodiversity hotspot, distinguished for extremely high endemism of calciphilous plants restricted to caves and cave-like microhabitats that have functioned as biological refugia on the otherwise harsh habitats. To understand evolutionary mechanisms underlying the splendid limestone flora, dated phylogeny is reconstructed for Asian Begonia, a species-rich genus on limestone substrates represented by no less than 60 species in southern China, using DNA sequences of nrITS and chloroplast rpL16 intron. The sampling includes 94 Begonia species encompassing most major Asian clades with a special emphasized on Chinese species. RESULTS Except for two tuberous deciduous species and a species with upright stems, a majority of Sino-Vietnamese limestone Begonia (SVLB), including sect. Coelocentrum (19 species sampled) and five species of sect. Diploclinium, Leprosae, and Petermannia, are rhizomatous and grouped in a strongly supported and yet internally poorly resolved clade (Clade SVLB), suggesting a single evolutionary origin of the adaptation to limestone substrates by rhizomatous species, subsequent species radiation, and a strong tendency to retain their ancestral niche. Divergence-time estimates indicate a late Miocene diversification of Clade SVLB, coinciding with the onset of the East Asian monsoon and the period of extensive karstification in the area. CONCLUSIONS Based on our phylogenetic study, Begonia sect. Coelocentrum is recircumscribed and expanded to include other members of the Clade SVLB (sect. Diploclinium: B. cavaleriei, B. pulvinifera, and B. wangii; sect. Leprosae: B. cylindrica and B. leprosa; sect. Petermannia: B. sinofloribunda). Because species of Clade SVLB have strong niche conservatism to retain in their ancestral habitats in cave-like microhabitats and Begonia are generally poor dispersers prone to diversify allopatrically, we propose that extensive and continuous karstification of the Sino-Vietnamese limestone region facilitated by the onset of East Asian monsoon since the late Miocene has been the major driving force for species accumulation via geographic isolation in Clade SVLB. Morphologically species of Clade SVLB differ mainly in vegetative traits without apparent adaptive value, suggesting that limestone Begonia radiation is better characterized as non-adaptive, an underappreciated speciation mode crucial for rapid species accumulations in organisms of low vagility and strong niche conservatism.
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Affiliation(s)
- Kuo-Fang Chung
- School of Forestry and Resource Conservation, National Taiwan University, Daan, Taipei 106 Taiwan
| | - Wai-Chao Leong
- School of Forestry and Resource Conservation, National Taiwan University, Daan, Taipei 106 Taiwan
- Herbarium (HAST), Biodiversity Research Center, Academia Sinica, Nangang, Taipei 115 Taiwan
| | - Rosario Rivera Rubite
- Department of Biology, College of Arts and Sciences, University of the Philippines Manila and Philippine National Herbarium, National Museum, Manila, Philippines
| | - Rimi Repin
- Sabah Park, P.O. Box 10626, 88806 Kota Kinabalu, Sabah Malaysia
| | - Ruth Kiew
- Forest Research Institute Malaysia, 52109 Kepong, Selangor Malaysia
| | - Yan Liu
- Guangxi Institute of Botany, Guangxi Zhuangzu Autonomous Region and the Chinese Academy of Sciences, Guilin, 541006 China
| | - Ching-I Peng
- Herbarium (HAST), Biodiversity Research Center, Academia Sinica, Nangang, Taipei 115 Taiwan
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Poulakakis N, Kapli P, Lymberakis P, Trichas A, Vardinoyiannis K, Sfenthourakis S, Mylonas M. A review of phylogeographic analyses of animal taxa from the Aegean and surrounding regions. J ZOOL SYST EVOL RES 2014. [DOI: 10.1111/jzs.12071] [Citation(s) in RCA: 76] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Nikos Poulakakis
- Natural History Museum of Crete; University of Crete; Iraklion Greece
- Biology Department; University of Crete; Iraklion Greece
| | - Paschalia Kapli
- Natural History Museum of Crete; University of Crete; Iraklion Greece
- Biology Department; University of Crete; Iraklion Greece
| | - Petros Lymberakis
- Natural History Museum of Crete; University of Crete; Iraklion Greece
| | - Apostolos Trichas
- Natural History Museum of Crete; University of Crete; Iraklion Greece
| | | | | | - Moisis Mylonas
- Natural History Museum of Crete; University of Crete; Iraklion Greece
- Biology Department; University of Crete; Iraklion Greece
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Kamilari M, Klossa-Kilia E, Kilias G, Sfenthourakis S. Old Aegean palaeoevents driving the diversification of an endemic isopod species (Oniscidea, Trachelipodidae). ZOOL SCR 2014. [DOI: 10.1111/zsc.12060] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Maria Kamilari
- Division of Animal Biology; Department of Biology; School of Natural Sciences; University of Patras; Patras GR-26500 Greece
| | - Elena Klossa-Kilia
- Division of Animal Biology; Department of Biology; School of Natural Sciences; University of Patras; Patras GR-26500 Greece
| | - George Kilias
- Division of Genetics, Cell and Developmental Biology; School of Natural Sciences; University of Patras; GR-26500 Patras Greece
| | - Spyros Sfenthourakis
- Department of Biological Sciences; University of Cyprus; P.O. Box 20537 Nicosia 1678 Cyprus
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Francuski L, Djurakic M, Ståhls G, Milankov V. Landscape genetics and wing morphometrics show a lack of structuring across island and coastal populations of the drone fly in the Mediterranean. J Zool (1987) 2013. [DOI: 10.1111/jzo.12090] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- L. Francuski
- Faculty of Sciences; Department of Biology and Ecology; University of Novi Sad; Novi Sad Serbia
| | - M. Djurakic
- Faculty of Sciences; Department of Biology and Ecology; University of Novi Sad; Novi Sad Serbia
| | - G. Ståhls
- Finnish Museum of Natural History; University of Helsinki; Helsinki Finland
| | - V. Milankov
- Faculty of Sciences; Department of Biology and Ecology; University of Novi Sad; Novi Sad Serbia
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Abstract
BACKGROUND Our understanding of the processes and dynamics of allopolyploid speciation, the long-term consequences of ploidal change, and the genetic and chromosomal changes in new emerged allopolyploids has substantially increased during the past few decades. Yet we remain uncertain about the time since lineage divergence when two taxa are capable of spawning such entities. Indeed, the matter has seemed intractable. Knowledge of the window of opportunity for allopolyploid production is very important because it provides temporal insight into a key evolutionary process, and a temporal reference against which other modes of speciation may be measured. SCOPE This Viewpoint paper reviews and integrates published information on the crossability of herbaceous species and the fertility of their hybrids in relation to species' divergence times. Despite limitations in methodology and sampling, the estimated times to hybrid sterility are somewhat congruent across disparate lineages. Whereas the waiting time for hybrid sterility is roughly 4-5 million years, the waiting time for cross-incompatibility is roughly 8-10 million years, sometimes considerably more. Strict allopolyploids may be formed in the intervening time window. The progenitors of several allopolyploids diverged between 4 and 6 million years before allopolyploid synthesis, as expected. This is the first study to propose a general temporal framework for strict allopolyploidy. This Viewpoint paper hopefully will stimulate interest in studying the tempo of speciation and the tempo of reproductive isolation in general.
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Milankov V, Ludoški J, Francuski L, Ståhls G, Vujić A. Genetic and phenotypic diversity patterns inMerodon albifrons Meigen, 1822 (Diptera: Syrphidae): evidence of intraspecific spatial and temporal structuring. Biol J Linn Soc Lond 2013. [DOI: 10.1111/bij.12127] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Vesna Milankov
- Faculty of Sciences; Department of Biology and Ecology; University of Novi Sad; Trg Dositeja Obradovića 2; 21000; Novi Sad; Serbia
| | - Jasmina Ludoški
- Faculty of Sciences; Department of Biology and Ecology; University of Novi Sad; Trg Dositeja Obradovića 2; 21000; Novi Sad; Serbia
| | - Ljubinka Francuski
- Faculty of Sciences; Department of Biology and Ecology; University of Novi Sad; Trg Dositeja Obradovića 2; 21000; Novi Sad; Serbia
| | - Gunilla Ståhls
- Finnish Museum of Natural History; University of Helsinki; PO Box 17; Helsinki; FIN-00014; Finland
| | - Ante Vujić
- Faculty of Sciences; Department of Biology and Ecology; University of Novi Sad; Trg Dositeja Obradovića 2; 21000; Novi Sad; Serbia
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Yuan N, Comes HP, Mao YR, Qi XS, Qiu YX. Genetic effects of recent habitat fragmentation in the Thousand-Island Lake region of southeast China on the distylous herb Hedyotis chrysotricha (Rubiaceae). AMERICAN JOURNAL OF BOTANY 2012; 99:1715-25. [PMID: 23024122 DOI: 10.3732/ajb.1200054] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/21/2023]
Abstract
PREMISE OF THE STUDY Known-age artificial-lake islands provide ideal model systems to elucidate the genetic and evolutionary consequences of anthropogenic habitat fragmentation on very recent time scales. Here, we studied a distylous herb, Hedyotis chrysotricha (Rubiaceae), in the artificially created Thousand-Island Lake (TIL) region of southeast China to explore the genetic consequences of islanding for this species. • METHODS Seven microsatellite loci were used to genotype 384 individuals of H. chrysotricha from 18 populations to estimate genetic diversity, population structure, and demographic parameters. • KEY RESULTS Island populations had significantly lower mean genetic diversity than those from the western/eastern mainland (e.g., H(E) = 0.381 vs. 0.461) and also displayed higher mean subdivision (F(ST) = 0.12 vs. 0.042/0.051). BayesAss analyses indicated moderate levels of migration rates among most populations, whereas Bottleneck did not provide strong evidence for such effects. In consequence, 2MOD strongly favored a gene flow-drift model over a pure drift model in the study area, but concomitantly revealed a relatively greater influence of drift in the island populations as evidenced by their significantly higher probabilities of allelic coancestry (F = 0.184 vs. 0.085). • CONCLUSIONS The observed genetic patterns in H. chrysotricha indicate that recent anthropogenic habitat fragmentation in the TIL region can lead to significant loss of genetic diversity in isolated fragments (islands) due to ongoing drift. By contrast, patterns of random mating, gene flow, and population connectivity have not greatly been modified yet, possibly owing to the species' fruit (seed) dispersal capabilities providing resilience in the face of habitat fragmentation.
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Affiliation(s)
- Na Yuan
- Key Laboratory of Conservation Biology for Endangered Wildlife of the Ministry of Education, and College of Life Sciences, Zhejiang University, Hangzhou 310058, China
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JOHNSON MICHAELS, HAMILTON ZOËR, TEALE ROY, KENDRICK PETERG. Endemic evolutionary radiation of Rhagada land snails (Pulmonata: Camaenidae) in a continental archipelago in northern Western Australia. Biol J Linn Soc Lond 2012. [DOI: 10.1111/j.1095-8312.2012.01882.x] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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Mayol M, Palau C, Rosselló JA, González-Martínez SC, Molins A, Riba M. Patterns of genetic variability and habitat occupancy in Crepis triasii (Asteraceae) at different spatial scales: insights on evolutionary processes leading to diversification in continental islands. ANNALS OF BOTANY 2012; 109:429-41. [PMID: 22167790 PMCID: PMC3268543 DOI: 10.1093/aob/mcr298] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/27/2011] [Accepted: 10/24/2011] [Indexed: 05/29/2023]
Abstract
BACKGROUND AND AIMS Archipelagos are unique systems for studying evolutionary processes promoting diversification and speciation. The islands of the Mediterranean basin are major areas of plant richness, including a high proportion of narrow endemics. Many endemic plants are currently found in rocky habitats, showing varying patterns of habitat occupancy at different spatial scales throughout their range. The aim of the present study was to understand the impact of varying patterns of population distribution on genetic diversity and structure to shed light on demographic and evolutionary processes leading to population diversification in Crepis triasii, an endemic plant from the eastern Balearic Islands. METHODS Using allozyme and chloroplast markers, we related patterns of genetic structure and diversity to those of habitat occupancy at a regional (between islands and among populations within islands) and landscape (population size and connectivity) scale. KEY RESULTS Genetic diversity was highly structured both at the regional and at the landscape level, and was positively correlated with population connectivity in the landscape. Populations located in small isolated mountains and coastal areas, with restricted patterns of regional occupancy, were genetically less diverse and much more differentiated. In addition, more isolated populations had stronger fine-scale genetic structure than well-connected ones. Changes in habitat availability and quality arising from marine transgressions during the Quaternary, as well as progressive fragmentation associated with the aridification of the climate since the last glaciation, are the most plausible factors leading to the observed patterns of genetic diversity and structure. CONCLUSIONS Our results emphasize the importance of gene flow in preventing genetic erosion and maintaining the evolutionary potential of populations. They also agree with recent studies highlighting the importance of restricted gene flow and genetic drift as drivers of plant evolution in Mediterranean continental islands.
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Affiliation(s)
- Maria Mayol
- Center for Ecological Research and Forestry Applications, Autonomous University of Barcelona, Bellaterra, Spain.
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Runemark A, Hey J, Hansson B, Svensson EI. Vicariance divergence and gene flow among islet populations of an endemic lizard. Mol Ecol 2011; 21:117-29. [PMID: 22129244 DOI: 10.1111/j.1365-294x.2011.05377.x] [Citation(s) in RCA: 34] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Allopatry and allopatric speciation can arise through two different mechanisms: vicariance or colonization through dispersal. Distinguishing between these different allopatric mechanisms is difficult and one of the major challenges in biogeographical research. Here, we address whether allopatric isolation in an endemic island lizard is the result of vicariance or dispersal. We estimated the amount and direction of gene flow during the divergence of isolated islet populations and subspecies of the endemic Skyros wall lizard Podarcis gaigeae, a phenotypically variable species that inhabits a major island and small islets in the Greek archipelago. We applied isolation-with-migration models to estimate population divergence times, population sizes and gene flow between islet-mainland population pairs. Divergence times were significantly correlated with independently estimated geological divergence times. This correlation strongly supports a vicariance scenario where islet populations have sequentially become isolated from the major island. We did not find evidence for significant gene flow within P. g. gaigeae. However, gene-flow estimates from the islet to the mainland populations were positively affected by islet area and negatively by distance between the islet and mainland. We also found evidence for gene flow from one subspecies (P. g. weigandi) into another (P. g. gaigeae), but not in the other direction. Ongoing gene flow between the subspecies suggests that even in this geographically allopatric scenario with the sea posing a strong barrier to dispersal, divergence with some gene flow is still feasible.
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Affiliation(s)
- Anna Runemark
- Department of Biology, Ecology Building, Lund University, SE-223 62 Lund, Sweden.
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Hutsemékers V, Szövényi P, Shaw AJ, González-Mancebo JM, Muñoz J, Vanderpoorten A. Oceanic islands are not sinks of biodiversity in spore-producing plants. Proc Natl Acad Sci U S A 2011; 108:18989-94. [PMID: 22084108 PMCID: PMC3223459 DOI: 10.1073/pnas.1109119108] [Citation(s) in RCA: 36] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Islands have traditionally been considered as migratory and evolutionary dead ends for two main reasons: island colonizers are typically assumed to lose their dispersal power, and continental back colonization has been regarded as unlikely because of niche preemption. The hypothesis that islands might actually represent dynamic refugia and migratory stepping stones for species that are effective dispersers, and in particular, for spore-producing plants, is formally tested here, using the archipelagos of the Azores, Canary Islands, and Madeira, as a model. Population genetic analyses based on nuclear microsatellite variation indicate that dispersal ability of the moss Platyhypnidium riparioides does not decrease in the island setting. The analyses further show that, unlike island populations, mainland (southwestern Europe and North Africa) populations underwent a severe bottleneck during the last glacial maximum (LGM). Our results thus refute the traditional view of islands as the end of the colonization road and point to a different perception of North Atlantic archipelagos as major sources of biodiversity for the postglacial recolonization of Europe by spore-producing plants.
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Affiliation(s)
- Virginie Hutsemékers
- Institut de Botanique, Université de Liège, B22 Sart Tilman, B-4000 Liège1, Belgium.
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Qiu YX, Fu CX, Comes HP. Plant molecular phylogeography in China and adjacent regions: Tracing the genetic imprints of Quaternary climate and environmental change in the world's most diverse temperate flora. Mol Phylogenet Evol 2011; 59:225-44. [PMID: 21292014 DOI: 10.1016/j.ympev.2011.01.012] [Citation(s) in RCA: 438] [Impact Index Per Article: 33.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2010] [Revised: 01/24/2011] [Accepted: 01/25/2011] [Indexed: 10/18/2022]
Abstract
The Sino-Japanese Floristic Region (SJFR) of East Asia harbors the most diverse of the world's temperate flora, and was the most important glacial refuge for its Tertiary representatives ('relics') throughout Quaternary ice-age cycles. A steadily increasing number of phylogeographic studies in the SJFR of mainland China and adjacent areas, including the Qinghai-Tibetan-Plateau (QTP) and Sino-Himalayan region, have documented the population histories of temperate plant species in these regions. Here we review this current literature that challenges the oft-stated view of the SJFR as a glacial sanctuary for temperate plants, instead revealing profound effects of Quaternary changes in climate, topography, and/or sea level on the current genetic structure of such organisms. There are three recurrent phylogeographic scenarios identified by different case studies that broadly agree with longstanding biogeographic or palaeo-ecological hypotheses: (i) postglacial re-colonization of the QTP from (south-)eastern glacial refugia; (ii) population isolation and endemic species formation in Southwest China due to tectonic shifts and river course dynamics; and (iii) long-term isolation and species survival in multiple localized refugia of (warm-)temperate deciduous forest habitats in subtropical (Central/East/South) China. However, in four additional instances, phylogeographic findings seem to conflict with a priori predictions raised by palaeo-data, suggesting instead: (iv) glacial in situ survival of some hardy alpine herbs and forest trees on the QTP platform itself; (v) long-term refugial isolation of (warm-)temperate evergreen taxa in subtropical China; (vi) 'cryptic' glacial survival of (cool-)temperate deciduous forest trees in North China; and (vii) unexpectedly deep (Late Tertiary/early-to-mid Pleistocene) allopatric-vicariant differentiation of disjunct lineages in the East China-Japan-Korea region due to past sea transgressions. We discuss these and other consequences of the main phylogeographic findings in light of palaeo-environmental evidence, emphasize notable gaps in our knowledge, and outline future research prospects for disentangling the evolution and biogeographic history of the region's extremely diverse temperate flora.
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Affiliation(s)
- Ying-Xiong Qiu
- Key Laboratory of Conservation Biology for Endangered Wildlife of the Ministry of Education, College of Life Sciences, Zhejiang University, Hangzhou 310058, China.
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PRUNIER RACHEL, HOLSINGER KENTE. Was it an explosion? Using population genetics to explore the dynamics of a recent radiation within Protea (Proteaceae L.). Mol Ecol 2010; 19:3968-80. [DOI: 10.1111/j.1365-294x.2010.04779.x] [Citation(s) in RCA: 36] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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Panitsa M, Trigas P, Iatrou G, Sfenthourakis S. Factors affecting plant species richness and endemism on land-bridge islands – An example from the East Aegean archipelago. ACTA OECOLOGICA-INTERNATIONAL JOURNAL OF ECOLOGY 2010. [DOI: 10.1016/j.actao.2010.04.004] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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