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Novaković BB, Raković MB, Čiampor Jr F, Teofilova TM, Živić IM. Genetic variability of the riffle beetle Elmis maugetii Latreille, 1802 (Coleoptera: Elmidae) in Europe and North Africa. Biologia (Bratisl) 2022. [DOI: 10.1007/s11756-022-01206-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/02/2022]
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Kadoglidou K, Irakli M, Boutsika A, Mellidou I, Maninis N, Sarrou E, Georgiadou V, Tourvas N, Krigas N, Moysiadis T, Grigoriadou K, Maloupa E, Xanthopoulou A, Ganopoulos I. Metabolomic Fingerprinting and Molecular Characterization of the Rock Samphire Germplasm Collection from the Balkan Botanic Garden of Kroussia, Northern Greece. PLANTS 2022; 11:plants11040573. [PMID: 35214906 PMCID: PMC8879136 DOI: 10.3390/plants11040573] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/31/2021] [Revised: 02/10/2022] [Accepted: 02/17/2022] [Indexed: 11/19/2022]
Abstract
The traditionally edible aerial parts of rock samphire (Crithmum maritimum L.) could be a valuable functional food or feed ingredient due to their high antioxidant capacity, ascorbic acid content, and rich content in secondary metabolites such as phenolics and flavonoids. The first objective of this study was to evaluate eighteen genotypes derived from different regions of Greece regarding the phytochemical contents of their soluble extracts in total phenolics, total flavonoids, and individual polyphenols as determined by LC-MS analysis, as well as ascorbic acid content and their antioxidant capacity as determined by different assays, including ABTS (2,2-azino-bis-3-ethylbenzothiazoline-6-sulfonic acid), DPPH (2,2-diphenyl-1-picrylhydrazyl radical scavenging activity), and FRAP (ferric reducing antioxidant power) assays. The second objective of the study was the molecular characterization of native Greek C. maritimum genotypes. Great variation among genotypes was observed in terms of the antioxidant capacity, ascorbic acid content, and phenolic compounds (total phenolic content and total flavonoid content), as well as in caffeolquinic acids and flavonoids. The principal component analysis highlighted genotypes with a higher potential in antioxidants and polyphenolics. The most promising genotypes were G9 from Kefalonia, followed by G4 from Ikaria, where both clearly exhibited a similar response with high values of evaluated traits. The molecular characterization of genotypes revealed low variability and low to moderate genetic diversity between populations. Our data indicated that the rock samphire germplasm collection from the Balkan Botanic Garden of Kroussia could serve as an important source of documented genetic material and, thus, it is suggested for further investigation to provide insight regarding cultivation and agro-processing aspects, artificial selection, or plant breeding aimed at developing C. maritimum genotypes of high-bioactive value.
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Affiliation(s)
- Kalliopi Kadoglidou
- Institute of Plant Breeding and Genetic Resources, ELGO-DIMITRA, Thermi, GR-57001 Thessaloniki, Greece; (M.I.); (A.B.); (I.M.); (N.M.); (E.S.); (V.G.); (N.T.); (N.K.); (T.M.); (K.G.); (E.M.); (A.X.)
- Correspondence: (K.K.); (I.G.)
| | - Maria Irakli
- Institute of Plant Breeding and Genetic Resources, ELGO-DIMITRA, Thermi, GR-57001 Thessaloniki, Greece; (M.I.); (A.B.); (I.M.); (N.M.); (E.S.); (V.G.); (N.T.); (N.K.); (T.M.); (K.G.); (E.M.); (A.X.)
| | - Anastasia Boutsika
- Institute of Plant Breeding and Genetic Resources, ELGO-DIMITRA, Thermi, GR-57001 Thessaloniki, Greece; (M.I.); (A.B.); (I.M.); (N.M.); (E.S.); (V.G.); (N.T.); (N.K.); (T.M.); (K.G.); (E.M.); (A.X.)
| | - Ifigeneia Mellidou
- Institute of Plant Breeding and Genetic Resources, ELGO-DIMITRA, Thermi, GR-57001 Thessaloniki, Greece; (M.I.); (A.B.); (I.M.); (N.M.); (E.S.); (V.G.); (N.T.); (N.K.); (T.M.); (K.G.); (E.M.); (A.X.)
| | - Nikolas Maninis
- Institute of Plant Breeding and Genetic Resources, ELGO-DIMITRA, Thermi, GR-57001 Thessaloniki, Greece; (M.I.); (A.B.); (I.M.); (N.M.); (E.S.); (V.G.); (N.T.); (N.K.); (T.M.); (K.G.); (E.M.); (A.X.)
| | - Eirini Sarrou
- Institute of Plant Breeding and Genetic Resources, ELGO-DIMITRA, Thermi, GR-57001 Thessaloniki, Greece; (M.I.); (A.B.); (I.M.); (N.M.); (E.S.); (V.G.); (N.T.); (N.K.); (T.M.); (K.G.); (E.M.); (A.X.)
| | - Vasiliki Georgiadou
- Institute of Plant Breeding and Genetic Resources, ELGO-DIMITRA, Thermi, GR-57001 Thessaloniki, Greece; (M.I.); (A.B.); (I.M.); (N.M.); (E.S.); (V.G.); (N.T.); (N.K.); (T.M.); (K.G.); (E.M.); (A.X.)
| | - Nikolaos Tourvas
- Institute of Plant Breeding and Genetic Resources, ELGO-DIMITRA, Thermi, GR-57001 Thessaloniki, Greece; (M.I.); (A.B.); (I.M.); (N.M.); (E.S.); (V.G.); (N.T.); (N.K.); (T.M.); (K.G.); (E.M.); (A.X.)
| | - Nikos Krigas
- Institute of Plant Breeding and Genetic Resources, ELGO-DIMITRA, Thermi, GR-57001 Thessaloniki, Greece; (M.I.); (A.B.); (I.M.); (N.M.); (E.S.); (V.G.); (N.T.); (N.K.); (T.M.); (K.G.); (E.M.); (A.X.)
| | - Theodoros Moysiadis
- Institute of Plant Breeding and Genetic Resources, ELGO-DIMITRA, Thermi, GR-57001 Thessaloniki, Greece; (M.I.); (A.B.); (I.M.); (N.M.); (E.S.); (V.G.); (N.T.); (N.K.); (T.M.); (K.G.); (E.M.); (A.X.)
- Department of Computer Science, School of Sciences and Engineering, University of Nicosia, Nicosia 2417, Cyprus
| | - Katerina Grigoriadou
- Institute of Plant Breeding and Genetic Resources, ELGO-DIMITRA, Thermi, GR-57001 Thessaloniki, Greece; (M.I.); (A.B.); (I.M.); (N.M.); (E.S.); (V.G.); (N.T.); (N.K.); (T.M.); (K.G.); (E.M.); (A.X.)
| | - Eleni Maloupa
- Institute of Plant Breeding and Genetic Resources, ELGO-DIMITRA, Thermi, GR-57001 Thessaloniki, Greece; (M.I.); (A.B.); (I.M.); (N.M.); (E.S.); (V.G.); (N.T.); (N.K.); (T.M.); (K.G.); (E.M.); (A.X.)
| | - Aliki Xanthopoulou
- Institute of Plant Breeding and Genetic Resources, ELGO-DIMITRA, Thermi, GR-57001 Thessaloniki, Greece; (M.I.); (A.B.); (I.M.); (N.M.); (E.S.); (V.G.); (N.T.); (N.K.); (T.M.); (K.G.); (E.M.); (A.X.)
| | - Ioannis Ganopoulos
- Institute of Plant Breeding and Genetic Resources, ELGO-DIMITRA, Thermi, GR-57001 Thessaloniki, Greece; (M.I.); (A.B.); (I.M.); (N.M.); (E.S.); (V.G.); (N.T.); (N.K.); (T.M.); (K.G.); (E.M.); (A.X.)
- Correspondence: (K.K.); (I.G.)
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Silva-Arias GA, Caballero-Villalobos L, Giudicelli GC, Freitas LB. Landscape and climatic features drive genetic differentiation processes in a South American coastal plant. BMC Ecol Evol 2021; 21:196. [PMID: 34702161 PMCID: PMC8547116 DOI: 10.1186/s12862-021-01916-4] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2020] [Accepted: 09/22/2021] [Indexed: 12/26/2022] Open
Abstract
BACKGROUND Historical and ecological processes shape patterns of genetic diversity in plant species. Colonization to new environments and geographical landscape features determine, amongst other factors, genetic diversity within- and differentiation between-populations. We analyse the genetic diversity and population structure of Calibrachoa heterophylla to infer the influence of abiotic landscape features on the level of gene flow in this coastal species of the South Atlantic Coastal Plain. RESULTS The C. heterophylla populations located on early-deposited coastal plain regions show higher genetic diversity than those closer to the sea. The genetic differentiation follows a pattern of isolation-by-distance. Landscape features, such as water bodies and wind corridors, and geographical distances equally explain the observed genetic differentiation, whereas the precipitation seasonality exhibits a strong signal for isolation-by-environment in marginal populations. The estimated levels of gene flow suggest that marginal populations had restricted immigration rates enhancing differentiation. CONCLUSIONS Topographical features related to coastal plain deposition history influence population differentiation in C. heterophylla. Gene flow is mainly restricted to nearby populations and facilitated by wind fields, albeit without any apparent influence of large water bodies. Furthermore, differential rainfall regimes in marginal populations seem to promote genetic differentiation.
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Affiliation(s)
- Gustavo A Silva-Arias
- Professorship for Population Genetics, Department of Life Science Systems, Technical University of Munich, Freising, Germany. .,Laboratory of Molecular Evolution, Department of Genetics, Universidade Federal do Rio Grande do Sul, Porto Alegre, Rio Grande do Sul, Brazil.
| | - Lina Caballero-Villalobos
- Laboratory of Molecular Evolution, Department of Genetics, Universidade Federal do Rio Grande do Sul, Porto Alegre, Rio Grande do Sul, Brazil
| | - Giovanna C Giudicelli
- Laboratory of Molecular Evolution, Department of Genetics, Universidade Federal do Rio Grande do Sul, Porto Alegre, Rio Grande do Sul, Brazil
| | - Loreta B Freitas
- Laboratory of Molecular Evolution, Department of Genetics, Universidade Federal do Rio Grande do Sul, Porto Alegre, Rio Grande do Sul, Brazil.
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Liu L, Fan X, Tan P, Wu J, Zhang H, Han C, Chen C, Xun L, Guo W, Chang Z, Teng K. The development of SSR markers based on RNA-sequencing and its validation between and within Carex L. species. BMC PLANT BIOLOGY 2021; 21:17. [PMID: 33407132 PMCID: PMC7789143 DOI: 10.1186/s12870-020-02792-8] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/18/2019] [Accepted: 12/09/2020] [Indexed: 05/26/2023]
Abstract
BACKGROUND Carex L. is one of the largest genera in the Cyperaceae family and an important vascular plant in the ecosystem. However, the genetic background of Carex is complex and the classification is not clear. In order to investigate the gene function annotation of Carex, RNA-sequencing analysis was performed. Simple sequence repeats (SSRs) were generated based on the Illumina data and then were utilized to investigate the genetic characteristics of the 79 Carex germplasms. RESULTS In this study, 36,403 unigenes with a total length of 41,724,615 bp were obtained and annotated based on GO, KOG, KEGG, NR databases. The results provide a theoretical basis for gene function exploration. Out of 8776 SSRs, 96 pairs of primers were randomly selected. One hundred eighty polymorphic bands were amplified with a polymorphism rate of 100% based on 42 pairs of primers with higher polymorphism levels. The average band number was 4.3 per primer, the average distance value was 0.548, and the polymorphic information content was ranged from 0.133 to 0.494. The number of observed alleles (Na), effective alleles (Ne), Nei's (1973) gene diversity (H), and the Shannon information index (I) were 2.000, 1.376, 0.243, and 0.391, respectively. NJ clustering divided into three groups and the accessions from New Zealand showed a similar genetic attribute and clustered into one group. UPGMA and PCoA analysis also revealed the same result. The analysis of molecular variance (AMOVA) revealed a superior genetic diversity within accessions than between accessions based on geographic origin cluster and NJ cluster. What's more, the fingerprints of 79 Carex species are established in this study. Different combinations of primer pairs can be used to identify multiple Carex at one time, which overcomes the difficulties of traditional identification methods. CONCLUSIONS The transcriptomic analysis shed new light on the function categories from the annotated genes and will facilitate future gene functional studies. The genetic characteristics analysis indicated that gene flow was extensive among 79 Carex species. These markers can be used to investigate the evolutionary history of Carex and related species, as well as to serve as a guide in future breeding projects.
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Affiliation(s)
- Lingyun Liu
- College of Grassland Science, Beijing Forestry University, Beijing, 100083 China
| | - Xifeng Fan
- Beijing Research and Development Center for Grass and Environment, Beijing Academy of Agriculture and Forestry Sciences, Beijing, 100097 China
| | - Penghui Tan
- Beijing Chaoyang Foreign Language School, Beijing, 100000 China
| | - Juying Wu
- Beijing Research and Development Center for Grass and Environment, Beijing Academy of Agriculture and Forestry Sciences, Beijing, 100097 China
| | - Hui Zhang
- Beijing Research and Development Center for Grass and Environment, Beijing Academy of Agriculture and Forestry Sciences, Beijing, 100097 China
| | - Chao Han
- Beijing Research and Development Center for Grass and Environment, Beijing Academy of Agriculture and Forestry Sciences, Beijing, 100097 China
| | - Chao Chen
- Beijing Research and Development Center for Grass and Environment, Beijing Academy of Agriculture and Forestry Sciences, Beijing, 100097 China
| | - Lulu Xun
- Shaanxi Engineering Research Center for Conservation and Utilization of Botanical Resources, Xi’an Botanical Garden of Shaanxi Province (Institute of Botany of Shaanxi Province), Shaanxi, 710000 China
| | - Weier Guo
- Department of Plant Biology, University of California, Davis, Davis, CA USA
| | - Zhihui Chang
- College of Grassland Science, Beijing Forestry University, Beijing, 100083 China
| | - Ke Teng
- Beijing Research and Development Center for Grass and Environment, Beijing Academy of Agriculture and Forestry Sciences, Beijing, 100097 China
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Abstract
Holocentric chromosomes possess multiple kinetochores along their length rather than the single centromere typical of other chromosomes [1]. They have been described for the first time in cytogenetic experiments dating from 1935 and, since this first observation, the term holocentric chromosome has referred to chromosomes that: i. lack the primary constriction corresponding to centromere observed in monocentric chromosomes [2]; ii. possess multiple kinetochores dispersed along the chromosomal axis so that microtubules bind to chromosomes along their entire length and move broadside to the pole from the metaphase plate [3]. These chromosomes are also termed holokinetic, because, during cell division, chromatids move apart in parallel and do not form the classical V-shaped figures typical of monocentric chromosomes [4–6]. Holocentric chromosomes evolved several times during both animal and plant evolution and are currently reported in about eight hundred diverse species, including plants, insects, arachnids and nematodes [7,8]. As a consequence of their diffuse kinetochores, holocentric chromosomes may stabilize chromosomal fragments favouring karyotype rearrangements [9,10]. However, holocentric chromosome may also present limitations to crossing over causing a restriction of the number of chiasma in bivalents [11] and may cause a restructuring of meiotic divisions resulting in an inverted meiosis [12].
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Affiliation(s)
- Mauro Mandrioli
- Dipartimento di Scienze della Vita, Università di Modena e Reggio Emilia, Modena, Italy
- * E-mail:
| | - Gian Carlo Manicardi
- Dipartimento di Scienze della Vita, Università di Modena e Reggio Emilia, Modena, Italy
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Schwarzer C, Joshi J. Ecotypic differentiation, hybridization and clonality facilitate the persistence of a cold-adapted sedge in European bogs. Biol J Linn Soc Lond 2019. [DOI: 10.1093/biolinnean/blz141] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
Abstract
Recent research has shown that many cold-adapted species survived the last glacial maximum (LGM) in northern refugia. Whether this evolutionary history has had consequences for their genetic diversity and adaptive potential remains unknown. We sampled 14 populations of Carex limosa, a sedge specialized to bog ecosystems, along a latitudinal gradient from its Scandinavian core to the southern lowland range-margin in Germany. Using microsatellite and experimental common-garden data, we evaluated the impacts of global climate change along this gradient and assessed the conservation status of the southern marginal populations. Microsatellite data revealed two highly distinct genetic groups and hybrid individuals. In our common-garden experiment, the two groups showed divergent responses to increased nitrogen/phosphorus (N/P) availability, suggesting ecotypic differentiation. Each group formed genetically uniform populations at both northern and southern sampling areas. Mixed populations occurred throughout our sampling area, an area that was entirely glaciated during the LGM. The fragmented distribution implies allopatric divergence at geographically separated refugia that putatively differed in N/P availability. Molecular data and an observed low hybrid fecundity indicate the importance of clonal reproduction for hybrid populations. At the southern range-margin, however, all populations showed effects of clonality, lowered fecundity and low competitiveness, suggesting abiotic and biotic constraints to population persistence.
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Affiliation(s)
- Christian Schwarzer
- University of Potsdam, Biodiversity Research/Systematic Botany, Maulbeerallee 1, 14469 Potsdam, Germany
- Berlin-Brandenburg Institute of Advanced Biodiversity Research (BBIB), Altensteinstr. 6, 14195 Berlin, Germany
| | - Jasmin Joshi
- University of Potsdam, Biodiversity Research/Systematic Botany, Maulbeerallee 1, 14469 Potsdam, Germany
- Berlin-Brandenburg Institute of Advanced Biodiversity Research (BBIB), Altensteinstr. 6, 14195 Berlin, Germany
- Hochschule für Technik HSR Rapperswil, Institute for Landscape and Open Space, Oberseestrasse 10, 8640 Rapperswil, Switzerland
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Montero-Pau J, Gómez A, Serra M. Founder effects drive the genetic structure of passively dispersed aquatic invertebrates. PeerJ 2018; 6:e6094. [PMID: 30581680 PMCID: PMC6294052 DOI: 10.7717/peerj.6094] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/24/2018] [Accepted: 11/10/2018] [Indexed: 11/25/2022] Open
Abstract
Populations of passively dispersed organisms in continental aquatic habitats typically show high levels of neutral genetic differentiation despite their high dispersal capabilities. Several evolutionary factors, including founder events, local adaptation, and life cycle features such as high population growth rates and the presence of propagule banks, have been proposed to be responsible for this paradox. Here, we have modeled the colonization process to assess the impact of migration rate, population growth rate, population size, local adaptation and life-cycle features on the population genetic structure in these organisms. Our simulations show that the strongest effect on population structure are persistent founder effects, resulting from the interaction of a few population founders, high population growth rates, large population sizes and the presence of diapausing egg banks. In contrast, the role of local adaptation, genetic hitchhiking and migration is limited to small populations in these organisms. Our results indicate that local adaptation could have different impact on genetic structure in different groups of zooplankters.
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Affiliation(s)
- Javier Montero-Pau
- Department of Biochemistry and Molecular Biology, Universidad de Valencia, Valencia, Spain.,Department of Biological Sciences, University of Hull, Hull, United Kingdom
| | - Africa Gómez
- Department of Biological Sciences, University of Hull, Hull, United Kingdom
| | - Manuel Serra
- Instituto Cavanilles de Biodiversidad y Biología Evolutiva, Universidad de Valencia, Valencia, Spain
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8
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Escudero M, Hahn M, Hipp AL. RAD-seq linkage mapping and patterns of segregation distortion in sedges: meiosis as a driver of karyotypic evolution in organisms with holocentric chromosomes. J Evol Biol 2018; 31:833-843. [PMID: 29573004 DOI: 10.1111/jeb.13267] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/10/2017] [Revised: 03/08/2018] [Accepted: 03/08/2018] [Indexed: 12/12/2022]
Abstract
Meiotic drive, the class of meiotic mechanisms that drive unequal segregation of alleles among gametes, may be an important force in karyotype evolution. Its role in holocentric organisms, whose chromosomes lack localized centromeres, is poorly understood. We crossed two individuals of Carex scoparia (Cyperaceae) with different chromosome numbers (2n = 33II = 66 × 2n = 32II = 64) to obtain F1 individuals, which we then self-pollinated to obtain second-generation (F2) crosses. RAD-seq was performed for 191 individuals (including the parents, five F1 individuals and 184 F2 individuals). Our F2 linkage map based on stringent editing of the RAD-seq data set yielded 32 linkage groups. In the final map, 865 loci were located on a linkage map of 3966.99 cM (linkage groups ranged from 24.39 to 193.31 cM in length and contained 5-51 loci each). Three linkage groups exhibit more loci under segregation distortion than expected by chance; within linkage groups, loci exhibiting segregation distortion are clustered. This finding implicates meiotic drive in the segregation of chromosome variants, suggesting that selection of chromosome variants in meiosis may contribute to the establishment and fixation of chromosome variants in Carex, which is renowned for high chromosomal and species diversity. This is an important finding as previous studies demonstrate that chromosome divergence may play a key role in differentiation and speciation in Carex.
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Affiliation(s)
- Marcial Escudero
- The Morton Arboretum, Lisle, IL, USA.,Botany Department, Field Museum of Natural History, Chicago, IL, USA.,Department of Plant Biology and Ecology, Universidad de Sevilla, Sevilla, Spain
| | | | - Andrew L Hipp
- The Morton Arboretum, Lisle, IL, USA.,Botany Department, Field Museum of Natural History, Chicago, IL, USA
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9
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Schmidt L, Fischer M, Oja T. Two closely related species differ in their regional genetic differentiation despite admixing. AOB PLANTS 2018; 10:ply007. [PMID: 29479408 PMCID: PMC5817946 DOI: 10.1093/aobpla/ply007] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/01/2017] [Accepted: 01/09/2018] [Indexed: 06/08/2023]
Abstract
Regional genetic differentiation within species is often addressed in evolutionary ecology and conservation biology. Here, we address regional differentiation in two closely related hybridizing taxa, the perennial sedges Carex flava and C. viridula and their hybrid C. × subviridula in 37 populations in the north and centre of their distribution range in Europe (Estonia, Lowland (<1000 m a.s.l.) and Highland Switzerland) using 10 putative microsatellite loci. We ask whether regional differentiation was larger in the less common taxon C. viridula or whether, possibly due to hybridization, it was similar between taxa. Our results showed similar, low to moderate genetic diversity for the three studied taxa. In total, we found 12 regional species-specific alleles. Analysis of molecular variance (AMOVA), STRUCTURE and multidimensional scaling analysis showed regional structure in genetic variation, where intraspecific differentiation between regions was lower for C. flava (AMOVA: 6.84 %) than for C. viridula (20.77 %) or C. × subviridula (18.27 %) populations. Hybrids differed from the parental taxa in the two regions where they occurred, i.e. in Estonia and Lowland Switzerland. We conclude that C. flava and C. viridula clearly differ from each other genetically, that there is pronounced regional differentiation and that, despite hybridization, this regional differentiation is more pronounced in the less common taxon, C. viridula. We encourage future studies on hybridizing taxa to work with plant populations from more than one region.
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Affiliation(s)
- Lisanna Schmidt
- Institute of Ecology and Earth Sciences, Department of Botany, University of Tartu, Tartu, Estonia
- Institute of Plant Sciences, University of Bern, Bern, Switzerland
| | - Markus Fischer
- Institute of Plant Sciences, University of Bern, Bern, Switzerland
- Botanical Garden, University of Bern, Bern, Switzerland
- Oeschger Centre for Climate Change Research, University of Bern, Bern, Switzerland
| | - Tatjana Oja
- Institute of Ecology and Earth Sciences, Department of Botany, University of Tartu, Tartu, Estonia
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10
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Tausch S, Leipold M, Poschlod P, Reisch C. Molecular markers provide evidence for a broad-fronted recolonisation of the widespread calcareous grassland species Sanguisorba minor from southern and cryptic northern refugia. PLANT BIOLOGY (STUTTGART, GERMANY) 2017; 19:562-570. [PMID: 28387987 DOI: 10.1111/plb.12570] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/10/2017] [Accepted: 04/04/2017] [Indexed: 06/07/2023]
Abstract
Calcareous grasslands belong to the most species-rich and endangered habitats in Europe. However, little is known about the origin of the species typically occurring in these grasslands. In this study we analysed the glacial and post-glacial history of Sanguisorba minor, a typical plant species frequently occurring in calcareous grasslands. The study comprised 38 populations throughout the whole distribution range of the species across Europe. We used molecular markers (AFLP) and applied Bayesian cluster analysis as well as spatial principal components analysis (sPCA) to identify glacial refugia and post-glacial migration routes to Central Europe. Our study revealed significant differences in the level of genetic variation and the occurrence of rare fragments within populations of S. minor and a distinct separation of eastern and western lineages. The analyses uncovered traditional southern but also cryptic northern refugia and point towards a broad fronted post-glacial recolonisation. Based on these results we postulate that incomplete lineage sorting may have contributed to the detected pattern of genetic variation and that S. minor recolonised Central Europe post-glacially from Iberia and northern glacial refugia in France, Belgium or Germany. Our results highlight the importance of refugial areas for the conservation of intraspecific variation in calcareous grassland species.
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Affiliation(s)
- S Tausch
- University of Regensburg, Institute of Plant Sciences, Regensburg, Germany
| | - M Leipold
- University of Regensburg, Institute of Plant Sciences, Regensburg, Germany
| | - P Poschlod
- University of Regensburg, Institute of Plant Sciences, Regensburg, Germany
| | - C Reisch
- University of Regensburg, Institute of Plant Sciences, Regensburg, Germany
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11
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De Castro O, Di Maio A, Di Febbraro M, Imparato G, Innangi M, Véla E, Menale B. A Multi-Faceted Approach to Analyse the Effects of Environmental Variables on Geographic Range and Genetic Structure of a Perennial Psammophilous Geophyte: The Case of the Sea Daffodil Pancratium maritimum L. in the Mediterranean Basin. PLoS One 2016; 11:e0164816. [PMID: 27749920 PMCID: PMC5066950 DOI: 10.1371/journal.pone.0164816] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2016] [Accepted: 09/30/2016] [Indexed: 11/18/2022] Open
Abstract
The Mediterranean coastline is a dynamic and complex system which owes its complexity to its past and present vicissitudes, e.g. complex tectonic history, climatic fluctuations, and prolonged coexistence with human activities. A plant species that is widespread in this habitat is the sea daffodil, Pancratium maritimum (Amaryllidaceae), which is a perennial clonal geophyte of the coastal sands of the Mediterranean and neighbouring areas, well adapted to the stressful conditions of sand dune environments. In this study, an integrated approach was used, combining genetic and environmental data with a niche modelling approach, aimed to investigate: (1) the effect of climate change on the geographic range of this species at different times {past (last inter-glacial, LIG; and last glacial maximum, LGM), present (CURR), near-future (FUT)} and (2) the possible influence of environmental variables on the genetic structure of this species in the current period. The genetic results show that 48 sea daffodil populations (867 specimens) display a good genetic diversity in which the marginal populations (i.e. Atlantic Sea populations) present lower values. Recent genetic signature of bottleneck was detected in few populations (8%). The molecular variation was higher within the populations (77%) and two genetic pools were well represented. Comparing the different climatic simulations in time, the global range of this plant increased, and a further extension is foreseen in the near future thanks to projections on the climate of areas currently—more temperate, where our model suggested a forecast for a climate more similar to the Mediterranean coast. A significant positive correlation was observed between the genetic distance and Precipitation of Coldest Quarter variable in current periods. Our analyses support the hypothesis that geomorphology of the Mediterranean coasts, sea currents, and climate have played significant roles in shaping the current genetic structure of the sea daffodil especially during LGM because of strong variation in coastline caused by glaciations.
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Affiliation(s)
- Olga De Castro
- Department of Biology, University of Naples Federico II, Naples, Italy
- * E-mail: ,
| | | | - Mirko Di Febbraro
- Department of Biosciences and Territory, University of Molise, Pesche (Isernia), Italy
| | - Gennaro Imparato
- Department of Electrical and Information Technology Engineering, University of Naples Federico II, Naples, Italy
| | - Michele Innangi
- Department of Environmental, Biological, Pharmaceutical Sciences and Technologies, Second University of Naples, Caserta, Italy
| | - Errol Véla
- Research unit Botany and Modelling of Plant Architecture and Vegetation, University of Montpellier, Montpellier, France
| | - Bruno Menale
- Department of Biology, University of Naples Federico II, Naples, Italy
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Escudero M, Hahn M, Brown BH, Lueders K, Hipp AL. Chromosomal rearrangements in holocentric organisms lead to reproductive isolation by hybrid dysfunction: The correlation between karyotype rearrangements and germination rates in sedges. AMERICAN JOURNAL OF BOTANY 2016; 103:1529-36. [PMID: 27558707 DOI: 10.3732/ajb.1600051] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/04/2016] [Accepted: 06/14/2016] [Indexed: 05/13/2023]
Abstract
PREMISE OF THE STUDY Understanding the drivers of speciation is a central task of evolutionary biology. Chromosomal rearrangements are known to play an important role in species diversification, but the role of rearrangements of holocentric chromosomes-chromosomes without localized centromeres-is poorly understood. METHODS We made numerous artificial crosses between Carex scoparia individuals of different diploid chromosome numbers and, for comparison, between individuals of the same chromosome number. We studied chromosome pairing and chromosomal rearrangements in the F1 individuals using light microscopy. We then estimated germination rates as a function of geographic distance, genetic distance, chromosome number differences in parents, and pairing irregularities in F1 individuals, using generalized least squares to fit alternative regression models. KEY RESULTS The most informative predictors of germination rates in the F1 generation are chromosome number differences and minimum number of chromosome pairing irregularities in the F1 individuals. Genetic and geographic distances between parents are not significant predictors. CONCLUSIONS Holocentric chromosomal rearrangements play an important role in postzygotic reproductive isolation in Carex through F1 hybrid inviability and sterility. Hybrid dysfunction seems to be a suitable model for chromosomal speciation when there are several chromosomal rearrangements between parents. However, we have not tested the hypothesis that genome rearrangements may also play an important role in suppressing recombination between cytogenetically divergent populations.
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Affiliation(s)
- Marcial Escudero
- The Morton Arboretum, 4100 Illinois Route 53, Lisle, Illinois 60532 USA Department of Botany, The Field Museum of Natural History, 1400 S. Lake Shore Drive, Chicago, Illinois 60605 USA Department of Plant Biology and Ecology, University of Seville, Reina Mercedes sn 41010 Seville, Spain.
| | - Marlene Hahn
- The Morton Arboretum, 4100 Illinois Route 53, Lisle, Illinois 60532 USA
| | - Bethany H Brown
- The Morton Arboretum, 4100 Illinois Route 53, Lisle, Illinois 60532 USA
| | - Kate Lueders
- The Morton Arboretum, 4100 Illinois Route 53, Lisle, Illinois 60532 USA
| | - Andrew L Hipp
- The Morton Arboretum, 4100 Illinois Route 53, Lisle, Illinois 60532 USA Department of Botany, The Field Museum of Natural History, 1400 S. Lake Shore Drive, Chicago, Illinois 60605 USA
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Santiso X, Lopez L, Retuerto R, Barreiro R. Phylogeography of a widespread species: pre-glacial vicariance, refugia, occasional blocking straits and long-distance migrations. AOB PLANTS 2016; 8:plw003. [PMID: 26768603 DOI: 10.1093/aobpla/plwoo3] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Received: 09/17/2015] [Accepted: 12/28/2015] [Indexed: 05/26/2023]
Abstract
Phylogeographic studies give us the opportunity to reconstruct the historical migrations of species and link them with climatic and geographic variation. They are, therefore, a key tool to understanding the relationships among biology, geology and history. One of the most interesting biogeographical areas of the world is the Mediterranean region. However, in this area, the description of concordant phylogeographic patterns is quite scarce, which limits the understanding of evolutionary patterns related to climate. Species with one-dimensional distribution ranges, such as the strawberry tree (Arbutus unedo), are particularly useful to unravel these patterns. Here, we describe its phylogeographic structure and check for concordance with patterns seen in other Mediterranean plants: longitudinal/latitudinal clines of diversity, evidence for glacial refugia and the role of sea straits in dispersal. We also identify the most likely source for the disjunct Irish population. With this aim, we sequenced four chloroplast non-coding fragments of A. unedo from 23 populations covering its whole distribution. We determined the genetic diversity, population structure, haplotype genealogy and time to the most recent common ancestor. The genealogy revealed two clades that separated during the last 700 ky but before the last glacial maximum. One clade occupies Atlantic Iberia and North Africa, while the other occurs in the Western Mediterranean. The Eastern Mediterranean is inhabited by newer haplotypes derived from both clades, while the Irish population is closely related to Iberian demes. The straits of Sicily and Gibraltar partially restricted the gene flow. We concluded that a vicariance event during the Late Quaternary in the western end of the species' range followed by eastward migration seems a likely explanation for the observed phylogeographic pattern. The role of straits indicates an occasional communication between Europe and North Africa, suggesting that the latter was a novel refugia. The East-West genetic split in Iberia is consistent with the refugia-within-refugia model. Finally, the strawberry tree possibly reached Ireland from Iberia instead of throughout the maritime fringe of France as previously thought.
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Affiliation(s)
- Xabier Santiso
- Área de Ecoloxía, Facultade de Bioloxía, Campus Vida, Universidade de Santiago de Compostela, 15782 Santiago de Compostela, Spain
| | - Lúa Lopez
- Área de Ecología, Facultad de Ciencias, Campus A Zapateira, Universidad de A Coruña, 15071 A Coruña, Spain
| | - Rubén Retuerto
- Área de Ecoloxía, Facultade de Bioloxía, Campus Vida, Universidade de Santiago de Compostela, 15782 Santiago de Compostela, Spain
| | - Rodolfo Barreiro
- Área de Ecología, Facultad de Ciencias, Campus A Zapateira, Universidad de A Coruña, 15071 A Coruña, Spain
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Santiso X, Lopez L, Retuerto R, Barreiro R. Phylogeography of a widespread species: pre-glacial vicariance, refugia, occasional blocking straits and long-distance migrations. AOB PLANTS 2016; 8:plw003. [PMID: 26768603 PMCID: PMC4768523 DOI: 10.1093/aobpla/plw003] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/17/2015] [Accepted: 12/28/2015] [Indexed: 05/26/2023]
Abstract
Phylogeographic studies give us the opportunity to reconstruct the historical migrations of species and link them with climatic and geographic variation. They are, therefore, a key tool to understanding the relationships among biology, geology and history. One of the most interesting biogeographical areas of the world is the Mediterranean region. However, in this area, the description of concordant phylogeographic patterns is quite scarce, which limits the understanding of evolutionary patterns related to climate. Species with one-dimensional distribution ranges, such as the strawberry tree (Arbutus unedo), are particularly useful to unravel these patterns. Here, we describe its phylogeographic structure and check for concordance with patterns seen in other Mediterranean plants: longitudinal/latitudinal clines of diversity, evidence for glacial refugia and the role of sea straits in dispersal. We also identify the most likely source for the disjunct Irish population. With this aim, we sequenced four chloroplast non-coding fragments of A. unedo from 23 populations covering its whole distribution. We determined the genetic diversity, population structure, haplotype genealogy and time to the most recent common ancestor. The genealogy revealed two clades that separated during the last 700 ky but before the last glacial maximum. One clade occupies Atlantic Iberia and North Africa, while the other occurs in the Western Mediterranean. The Eastern Mediterranean is inhabited by newer haplotypes derived from both clades, while the Irish population is closely related to Iberian demes. The straits of Sicily and Gibraltar partially restricted the gene flow. We concluded that a vicariance event during the Late Quaternary in the western end of the species' range followed by eastward migration seems a likely explanation for the observed phylogeographic pattern. The role of straits indicates an occasional communication between Europe and North Africa, suggesting that the latter was a novel refugia. The East-West genetic split in Iberia is consistent with the refugia-within-refugia model. Finally, the strawberry tree possibly reached Ireland from Iberia instead of throughout the maritime fringe of France as previously thought.
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Affiliation(s)
- Xabier Santiso
- Área de Ecoloxía, Facultade de Bioloxía, Campus Vida, Universidade de Santiago de Compostela, 15782 Santiago de Compostela, Spain
| | - Lúa Lopez
- Área de Ecología, Facultad de Ciencias, Campus A Zapateira, Universidad de A Coruña, 15071 A Coruña, Spain
| | - Rubén Retuerto
- Área de Ecoloxía, Facultade de Bioloxía, Campus Vida, Universidade de Santiago de Compostela, 15782 Santiago de Compostela, Spain
| | - Rodolfo Barreiro
- Área de Ecología, Facultad de Ciencias, Campus A Zapateira, Universidad de A Coruña, 15071 A Coruña, Spain
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15
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Mayol M, Riba M, González-Martínez SC, Bagnoli F, de Beaulieu JL, Berganzo E, Burgarella C, Dubreuil M, Krajmerová D, Paule L, Romšáková I, Vettori C, Vincenot L, Vendramin GG. Adapting through glacial cycles: insights from a long-lived tree (Taxus baccata). THE NEW PHYTOLOGIST 2015; 208:973-986. [PMID: 26096330 DOI: 10.1111/nph.13496] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/15/2014] [Accepted: 04/30/2015] [Indexed: 06/04/2023]
Abstract
Despite the large body of research devoted to understanding the role of Quaternary glacial cycles in the genetic divergence of European trees, the differential contribution of geographic isolation and/or environmental adaptation in creating population genetic divergence remains unexplored. In this study, we used a long-lived tree (Taxus baccata) as a model species to investigate the impact of Quaternary climatic changes on genetic diversity via neutral (isolation-by-distance) and selective (isolation-by-adaptation) processes. We applied approximate Bayesian computation to genetic data to infer its demographic history, and combined this information with past and present climatic data to assess the role of environment and geography in the observed patterns of genetic structure. We found evidence that yew colonized Europe from the East, and that European samples diverged into two groups (Western, Eastern) at the beginning of the Quaternary glaciations, c. 2.2 Myr before present. Apart from the expected effects of geographical isolation during glacials, we discovered a significant role of environmental adaptation during interglacials at the origin of genetic divergence between both groups. This process may be common in other organisms, providing new research lines to explore the effect of Quaternary climatic factors on present-day patterns of genetic diversity.
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Affiliation(s)
| | - Miquel Riba
- CREAF, Cerdanyola del Vallès, 08193, Spain
- Univ Autonòma Barcelona, Cerdanyola del Vallès, 08193, Spain
| | | | - Francesca Bagnoli
- Plant Protection Institute, National Research Council, Via Madonna del Piano 10, 50019, Sesto Fiorentino (FI), Italy
| | | | | | - Concetta Burgarella
- Université Montpellier 2, CNRS UMR, Institut de Sciences de l'Evolution de Montpellier, Montpellier, 5554, France
| | | | - Diana Krajmerová
- Faculty of Forestry, Technical University, SK-96053, Zvolen, Slovakia
| | - Ladislav Paule
- Faculty of Forestry, Technical University, SK-96053, Zvolen, Slovakia
| | - Ivana Romšáková
- Faculty of Forestry, Technical University, SK-96053, Zvolen, Slovakia
| | - Cristina Vettori
- Institute of Biosciences and Bioresources, National Research Council, Via Madonna del Piano 10, 50019, Sesto Fiorentino (FI), Italy
| | | | - Giovanni G Vendramin
- Institute of Biosciences and Bioresources, National Research Council, Via Madonna del Piano 10, 50019, Sesto Fiorentino (FI), Italy
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Distinct Phylogeographic Structures of Wild Radish (Raphanus sativus L. var. raphanistroides Makino) in Japan. PLoS One 2015; 10:e0135132. [PMID: 26247202 PMCID: PMC4527673 DOI: 10.1371/journal.pone.0135132] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2015] [Accepted: 07/17/2015] [Indexed: 12/05/2022] Open
Abstract
Coastal plants with simple linear distribution ranges along coastlines provide a suitable system for improving our understanding of patterns of intra-specific distributional history and genetic variation. Due to the combination of high seed longevity and high dispersibility of seeds via seawater, we hypothesized that wild radish would poorly represent phylogeographic structure at the local scale. On the other hand, we also hypothesized that wild radish populations might be geographically differentiated, as has been exhibited by their considerable phenotypic variations along the islands of Japan. We conducted nuclear DNA microsatellite loci and chloroplast DNA haplotype analyses for 486 samples and 144 samples, respectively, from 18 populations to investigate the phylogeographic structure of wild radish in Japan. Cluster analysis supported the existence of differential genetic structures between the Ryukyu Islands and mainland Japan populations. A significant strong pattern of isolation by distance and significant evidence of a recent bottleneck were detected. The chloroplast marker analysis resulted in the generation of eight haplotypes, of which two haplotypes (A and B) were broadly distributed in most wild radish populations. High levels of variation in microsatellite loci were identified, whereas cpDNA displayed low levels of genetic diversity within populations. Our results indicate that the Kuroshio Current would have contributed to the sculpting of the phylogeographic structure by shaping genetic gaps between isolated populations. In addition, the Tokara Strait would have created a geographic barrier between the Ryukyu Islands and mainland Japan. Finally, extant habitat disturbances (coastal erosion), migration patterns (linear expansion), and geographic characteristics (small islands and sea currents) have influenced the expansion and historical population dynamics of wild radish. Our study is the first to record the robust phylogeographic structure in wild radish between the Ryukyu Islands and mainland Japan, and might provide new insight into the genetic differentiation of coastal plants across islands.
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Weiland JE, Garrido P, Kamvar ZN, Espíndola AS, Marek SM, Grünwald NJ, Garzón CD. Population Structure of Pythium irregulare, P. ultimum, and P. sylvaticum in Forest Nursery Soils of Oregon and Washington. PHYTOPATHOLOGY 2015; 105:684-694. [PMID: 25607720 DOI: 10.1094/phyto-05-14-0147-r] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Pythium species are important soilborne pathogens occurring in the forest nursery industry of the Pacific Northwest. However, little is known about their genetic diversity or population structure and it is suspected that isolates are moved among forest nurseries on seedling stock and shared field equipment. In order to address these concerns, a total of 115 isolates of three Pythium species (P. irregulare, P. sylvaticum, and P. ultimum) were examined at three forest nurseries using simple sequence repeat (SSR) and amplified fragment length polymorphism (AFLP) markers. Analyses revealed distinct patterns of intraspecific variation for the three species. P. sylvaticum exhibited the most diversity, followed by P. irregulare, while substantial clonality was found in P. ultimum. For both P. irregulare and P. sylvaticum, but not P. ultimum, there was evidence for significant variation among nurseries. However, all three species also exhibited at least two distinct lineages not associated with the nursery of origin. Finally, evidence was found that certain lineages and clonal genotypes, including fungicide-resistant isolates, are shared among nurseries, indicating that pathogen movement has occurred.
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Affiliation(s)
- Jerry E Weiland
- First and sixth authors: U.S. Department of Agriculture-Agriculture Research Service, Horticultural Crops Research Laboratory, and Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR 97331; second, fourth, fifth, and seventh authors: Department of Entomology and Plant Pathology, Oklahoma State University, Stillwater, OK 74074; and third author: Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR 97331
| | - Patricia Garrido
- First and sixth authors: U.S. Department of Agriculture-Agriculture Research Service, Horticultural Crops Research Laboratory, and Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR 97331; second, fourth, fifth, and seventh authors: Department of Entomology and Plant Pathology, Oklahoma State University, Stillwater, OK 74074; and third author: Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR 97331
| | - Zhian N Kamvar
- First and sixth authors: U.S. Department of Agriculture-Agriculture Research Service, Horticultural Crops Research Laboratory, and Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR 97331; second, fourth, fifth, and seventh authors: Department of Entomology and Plant Pathology, Oklahoma State University, Stillwater, OK 74074; and third author: Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR 97331
| | - Andrés S Espíndola
- First and sixth authors: U.S. Department of Agriculture-Agriculture Research Service, Horticultural Crops Research Laboratory, and Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR 97331; second, fourth, fifth, and seventh authors: Department of Entomology and Plant Pathology, Oklahoma State University, Stillwater, OK 74074; and third author: Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR 97331
| | - Stephen M Marek
- First and sixth authors: U.S. Department of Agriculture-Agriculture Research Service, Horticultural Crops Research Laboratory, and Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR 97331; second, fourth, fifth, and seventh authors: Department of Entomology and Plant Pathology, Oklahoma State University, Stillwater, OK 74074; and third author: Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR 97331
| | - Niklaus J Grünwald
- First and sixth authors: U.S. Department of Agriculture-Agriculture Research Service, Horticultural Crops Research Laboratory, and Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR 97331; second, fourth, fifth, and seventh authors: Department of Entomology and Plant Pathology, Oklahoma State University, Stillwater, OK 74074; and third author: Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR 97331
| | - Carla D Garzón
- First and sixth authors: U.S. Department of Agriculture-Agriculture Research Service, Horticultural Crops Research Laboratory, and Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR 97331; second, fourth, fifth, and seventh authors: Department of Entomology and Plant Pathology, Oklahoma State University, Stillwater, OK 74074; and third author: Department of Botany and Plant Pathology, Oregon State University, Corvallis, OR 97331
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Sramkó G, Attila MV, Hawkins JA, Bateman RM. Molecular phylogeny and evolutionary history of the Eurasiatic orchid genus Himantoglossum s.l. (Orchidaceae). ANNALS OF BOTANY 2014; 114:1609-26. [PMID: 25294871 PMCID: PMC4649687 DOI: 10.1093/aob/mcu179] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/07/2023]
Abstract
BACKGROUND AND AIMS Lizard orchids of the genus Himantoglossum include many of Eurasia's most spectacular orchids, producing substantial spikes of showy flowers. However, until recently the genus had received only limited, and entirely traditional, systematic study. The aim of the current work was to provide a more robust molecular phylogeny in order to better understand the evolutionary relationships among species of particular conservation concern. METHODS All putative species of Himantoglossum s.l. were sampled across its geographical range. A large subsample of the 153 populations studied contributed to an initial survey of nuclear ribosomal internal transcribed spacer (nrITS) ribotypes. Smaller subsets were then sequenced for four plastid regions and the first intron of the low-copy-number nuclear gene LEAFY. Rooted using Steveniella as outgroup, phylogenetic trees were generated using parsimony and Bayesian methods from each of the three datasets, supplemented with a ribotype network. KEY RESULTS The resulting trees collectively determined the order of branching of the early divergent taxa as Himantoglossum comperianum > H. robertianum group > H. formosum, events that also involved significant morphological divergence. Relaxed molecular clock dating suggested that these divergences preceded the Pleistocene glaciations (the origin of the H. robertianum group may have coincided with the Messinian salinity crisis) and occurred in Asia Minor and/or the Caucasus. Among more controversial taxa of the H. hircinum-jankae clade, which are only subtly morphologically divergent, topological resolution was poorer and topological incongruence between datasets was consequently greater. CONCLUSIONS Plastid sequence divergence is broadly consistent with prior, morphologically circumscribed taxa and indicates a division between H. hircinum-adriaticum to the west of the Carpathians and H. jankae-caprinum (plus local endemics) to the east, a distinction also suggested by nrITS ribotypes. LEAFY phylogenies are less congruent with prior taxonomic arrangements and include one likely example of paralogy. Himantoglossum metlesicsianum fully merits its IUCN Endangered status. Potentially significant genetic variation was detected within Steveniella satyrioides, H. robertianum and H. hircinum. However, confident circumscription of the more derived species of Himantoglossum s.s., including local endemics of hybrid origin, must await future morphometric and population-genetic analyses.
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Affiliation(s)
- Gábor Sramkó
- MTA-ELTE-MTM Ecology Research Group, Pázmány P. sétány 1/C, Budapest, 1117, Hungary Department of Botany, University of Debrecen, Egyetem ter 1., Debrecen, 4032, Hungary
| | - Molnár V Attila
- Department of Botany, University of Debrecen, Egyetem ter 1., Debrecen, 4032, Hungary
| | - Julie A Hawkins
- School of Biological Sciences, University of Reading, Reading RG6 6AS, UK
| | - Richard M Bateman
- Jodrell Laboratory, Royal Botanical Gardens Kew, Richmond, Surrey TW9 3DS, UK
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Escudero M, Eaton DA, Hahn M, Hipp AL. Genotyping-by-sequencing as a tool to infer phylogeny and ancestral hybridization: A case study in Carex (Cyperaceae). Mol Phylogenet Evol 2014; 79:359-67. [DOI: 10.1016/j.ympev.2014.06.026] [Citation(s) in RCA: 87] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2014] [Revised: 06/19/2014] [Accepted: 06/30/2014] [Indexed: 11/27/2022]
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Blanco-Pastor JL, Vargas P. Autecological traits determined two evolutionary strategies in Mediterranean plants during the Quaternary: low differentiation and range expansion versus geographical speciation in Linaria. Mol Ecol 2013; 22:5651-68. [PMID: 24134639 DOI: 10.1111/mec.12518] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/19/2011] [Accepted: 08/24/2013] [Indexed: 01/18/2023]
Abstract
The evolutionary patterns of the Mediterranean flora during the Quaternary have been relatively well documented based on phylogenetic and biogeographic analyses, but few studies have addressed the evolutionary traits that determined diversification and range expansion success during this period. We analysed previously published and newly generated sequences of three plastid noncoding regions (rpl32-trnL(UAG) , trnS-trnG and trnL-trnF), the nuclear ribosomal internal transcribed spacer (ITS) and a low-copy nuclear gene intron (AGT1) of Linaria sect. Supinae, a group of angiosperms that diversified in the Quaternary. The origin and recent colonization dynamics of closely related lineages were inferred by biogeographic reconstruction and phylogeographic analyses, while breeding system experiments coupled with ecological and morphological data were used to test association with range expansion and diversification. A combination of traits, including selfing, short lifespan and the ability to tolerate a wide variety of substrates, were key factors underlying range expansion after long-distance dispersal throughout the Mediterranean basin. By contrast, self-incompatibility may have promoted higher diversification rates in narrow ranges of the Iberian Peninsula. We argue that a few traits contributed to the adoption of two contrasting strategies that may have been predominant in the evolution of Mediterranean angiosperms.
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Affiliation(s)
- J L Blanco-Pastor
- Real Jardín Botánico de Madrid (RJB-CSIC), Plaza de Murillo, 2, 28014, Madrid, Spain
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Remote locality of the littoral Carex extensa (Cyperaceae) in Hungary — long distance dispersal from coastal to inland salt marshes. Biologia (Bratisl) 2013. [DOI: 10.2478/s11756-013-0219-x] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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Escudero M, Weber JA, Hipp AL. Species coherence in the face of karyotype diversification in holocentric organisms: the case of a cytogenetically variable sedge (Carex scoparia, Cyperaceae). ANNALS OF BOTANY 2013; 112:515-26. [PMID: 23723260 PMCID: PMC3718211 DOI: 10.1093/aob/mct119] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/08/2023]
Abstract
BACKGROUND AND AIMS The sedge genus Carex, the most diversified angiosperm genus of the northern temperate zone, is renowned for its holocentric chromosomes and karyotype variability. The genus exhibits high variation in chromosome numbers both among and within species. Despite the possibility that this chromosome evolution may play a role in the high species diversity of Carex, population-level patterns of molecular and cytogenetic differentiation in the genus have not been extensively studied. METHODS Microsatellite variation (11 loci, 461 individuals) and chromosomal diversity (82 individuals) were investigated in 22 Midwestern populations of the North American sedge Carex scoparia and two Northeastern populations. KEY RESULTS Among Midwestern populations, geographic distance is the most important predictor of genetic differentiation. Within populations, inbreeding is high and chromosome variation explains a significant component of genetic differentiation. Infrequent dispersal among populations separated by >100 km explains an important component of molecular genetic and cytogenetic diversity within populations. However, karyotype variation and correlation between genetic and chromosomal variation persist within populations even when putative migrants based on genetic data are excluded. CONCLUSIONS These findings demonstrate dispersal and genetic connectivity among widespread populations that differ in chromosome numbers, explaining the phenomenon of genetic coherence in this karyotypically diverse sedge species. More generally, the study suggests that traditional sedge taxonomic boundaries demarcate good species even when those species encompass a high range of chromosomal diversity. This finding is important evidence as we work to document the limits and drivers of biodiversity in one of the world's largest angiosperm genera.
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Affiliation(s)
- Marcial Escudero
- The Morton Arboretum, 4100 Illinois Route 53, Lisle, IL 60532-1293, USA
- Pablo de Olavide University, Carretera de Utrera km 1 SN, Seville 41013, Spain
| | - Jaime A. Weber
- The Morton Arboretum, 4100 Illinois Route 53, Lisle, IL 60532-1293, USA
| | - Andrew L. Hipp
- The Morton Arboretum, 4100 Illinois Route 53, Lisle, IL 60532-1293, USA
- The Field Museum, 1400 S. Lake Shore Drive, Chicago, IL 60605-2496, USA
- For correspondence. E-mail
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Escudero M, Vargas P, Arens P, Joop Ouborg N, Luceño M. Corrigendum. Mol Ecol 2013. [DOI: 10.1111/mec.12244] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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Alarcón ML, Vargas P, Aldasoro JJ. Erodium maritimum (Geraniaceae), a species with an uneven and fragmented distribution along the Western Mediterranean and European Atlantic coasts, has a weak genetic structure. PLANT BIOLOGY (STUTTGART, GERMANY) 2013; 15:186-194. [PMID: 22726533 DOI: 10.1111/j.1438-8677.2012.00621.x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
Erodium maritimum L. is an annual species presenting heterogeneous, sometimes very small, and distant populations, distributed along a discontinuous coastal strip of the European Atlantic and the central and western Mediterranean basin. The aim of this study is to investigate genetic variation and geographic structure changes across its large distribution. Fourteen populations of E. maritimum were studied using AFLP fingerprints, together with their population sizes, reproductive systems and flower visitors. AFLP markers revealed the genetic structure of the species to be weak. Many individuals from one population clustered together with those of other populations, showing a high degree of genetic admixture. Despite having a self-compatible reproductive system, populations (especially the largest ones) showed high levels of genetic polymorphism, and the majority of genetic variation was contained within populations. The low genetic structure suggests high levels of gene flow, which might be explained through the dispersability of the species' fruits. Finally, recommendations are provided for management strategies to facilitate the conservation of this endangered species.
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Affiliation(s)
- M L Alarcón
- Institut Botànic de Barcelona (IBB-CSIC-ICUB), Barcelona, Spain.
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Jiménez-Mejías P, Escudero M, Guerra-Cárdenas S, Lye KA, Luceño M. Taxonomic delimitation and drivers of speciation in the Ibero-North African Carex sect. Phacocystis river-shore group (Cyperaceae). AMERICAN JOURNAL OF BOTANY 2011; 98:1855-1867. [PMID: 22025295 DOI: 10.3732/ajb.1100120] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/31/2023]
Abstract
PREMISE OF THE STUDY The Ibero-North African Carex sect. Phacocystis river-shore group is a set of perennial helophytic species with poorly defined taxonomic boundaries. In the present study, we delimited the different taxonomic units, addressed the phylogeographic history, and evaluated the drivers of differentiation that have promoted diversification of these plants. METHODS We analyzed molecular data using statistical parsimony for plastid sequences (26 samples from 26 populations) and principal coordinate analysis, neighbor joining, and Bayesian analysis of population structure for AFLPs (186 samples from 26 populations). Chromosome numbers from 14 samples (9 populations) are newly reported. KEY RESULTS Three species can be distinguished (C. acuta, C. elata, and C. reuteriana). Unexpectedly for rhizome-growing helophytes, the vegetative reproduction detected was incidental. The widespread C. elata was found to be a genetically poorly differentiated taxon, whereas the local C. reuteriana displayed geographical structuring. Geographical factors seem to be the main driver of differentiation for both taxa. CONCLUSIONS Despite apparent morphological and ecological similarities, C. elata and C. reuteriana have disparate genetic structures and evolutionary histories, which may have originated from small ecological differences. Carex elata is broadly distributed throughout Europe, and its northern populations were recently founded, probably after the last glacial maximum. In contrast, C. reuteriana is an Ibero-North African endemic, with long-standing populations affected by isolation and limited gene flow. It is likely that high-density blocking effects and different gene-flow barriers act together to delimit its distribution and promote its relatively high population differentiation.
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Affiliation(s)
- Pedro Jiménez-Mejías
- Department of Molecular Biology and Biochemical Engineering, Pablo de Olavide University, carretera de Utrera km 1, 41013 Seville, Spain.
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Fernández-Mazuecos M, Vargas P. Historical isolation versus recent long-distance connections between Europe and Africa in bifid toadflaxes (Linaria sect. Versicolores). PLoS One 2011; 6:e22234. [PMID: 21779399 PMCID: PMC3136523 DOI: 10.1371/journal.pone.0022234] [Citation(s) in RCA: 56] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2011] [Accepted: 06/17/2011] [Indexed: 12/02/2022] Open
Abstract
BACKGROUND Due to its complex, dynamic and well-known paleogeography, the Mediterranean region provides an ideal framework to study the colonization history of plant lineages. The genus Linaria has its diversity centre in the Mediterranean region, both in Europe and Africa. The last land connection between both continental plates occurred during the Messinian Salinity Crisis, in the late Miocene (5.96 to 5.33 Ma). METHODOLOGY/PRINCIPAL FINDINGS We analyzed the colonization history of Linaria sect. Versicolores (bifid toadflaxes), which includes c. 22 species distributed across the Mediterranean, including Europe and Africa. Two cpDNA regions (rpl32-trnL(UAG) and trnK-matK) were sequenced from 66 samples of Linaria. We conducted phylogenetic, dating, biogeographic and phylogeographic analyses to reconstruct colonization patterns in space and time. Four major clades were found: two of them exclusively contain Iberian samples, while the other two include northern African samples together with some European samples. The bifid toadflaxes have been split in African and European clades since the late Miocene, and most lineage and speciation differentiation occurred during the Pliocene and Quaternary. We have strongly inferred four events of post-Messinian colonization following long-distance dispersal from northern Africa to the Iberian Peninsula, Sicily and Greece. CONCLUSIONS/SIGNIFICANCE The current distribution of Linaria sect. Versicolores lineages is explained by both ancient isolation between African and European populations and recent events of long-distance dispersal over sea barriers. This result provides new evidence for the biogeographic complexity of the Mediterranean region.
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Escudero M, Hipp AL, Luceño M. Karyotype stability and predictors of chromosome number variation in sedges: a study in Carex section Spirostachyae (Cyperaceae). Mol Phylogenet Evol 2010; 57:353-63. [PMID: 20655386 DOI: 10.1016/j.ympev.2010.07.009] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2010] [Accepted: 07/19/2010] [Indexed: 11/25/2022]
Abstract
Previous work on holocentric chromosomes in the angiosperm genus Carex demonstrates that many of the traditional sections are marked by different ranges of chromosome number, suggesting phylogenetic autocorrelation. It has been hypothesized that shifting constraints on chromosome rearrangements may limit the potential for hybridization among lineages, promoting speciation. In this study, we evaluated alternative evolutionary models to test for such transitions in Carex section Spirostachyae as well as the relative effects of several plausible drivers of intraspecific chromosome diversity. Chromosome number variation in section Spirostachyae shows significant phylogenetic signal, but no evidence of clade-specific shifts in chromosome number distribution. This gradual model of chromosome evolution contrasts with the shifting equilibrium model previously identified in a younger section of the same genus, suggesting that section Spirostachyae may have a more slowly evolving karyotype. Chromosome number variance, on the other hand, exhibits low phylogenetic signal. Average time of coalescence rather than geographic range or chromosome number itself predicts chromosome number variance, demonstrating a previously unreported relationship between population history and cytogenetic variation.
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Affiliation(s)
- Marcial Escudero
- Department of Molecular Biology and Biochemical Engineering, Pablo de Olavide University, Seville, Spain.
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