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Ishtiaq H, Ahmad B, Zahid N, Bibi T, Khan I, Azizullah A, Ahmad K, Murshed A, Rehman SU, Abdel-Maksoud MA, El-Tayeb MA, Lu J, Zaky MY. Phytochemicals, Antioxidant, and Antidiabetic Effects of Ranunculus hirtellus Aerial Parts and Roots: Methanol and Aqueous Extracts. ACS OMEGA 2024; 9:21805-21821. [PMID: 38799316 PMCID: PMC11112719 DOI: 10.1021/acsomega.3c08631] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/31/2023] [Revised: 04/25/2024] [Accepted: 04/30/2024] [Indexed: 05/29/2024]
Abstract
Ranunculus hirtellus, also known as crowfoot (buttercup), has a rich tradition of use in various biological contexts. While antibacterial studies on extracts from this plant have been conducted, the phytochemical composition, antioxidant properties, and antidiabetic effects remain unexplored. In this study, the phytochemical, antioxidant, and antidiabetic effects of its methanol and aqueous extracts were investigated. Our approach involved gas chromatography-mass spectrometry (GC/MS), alongside quantitative and qualitative methods, for phytochemical profiles. Additionally, concerning biological activities, the antioxidant effect was assessed through 2, 2-diphenyl-pieryl hydrazyl (DPPH) and 2, 2'-azino-bis (3-ethylbenzothiazoline-6-sulfonate) (ABTS) assays, while the antidiabetic effect was examined through the α-amylase inhibitory assay. The chloroform, ethyl acetate, and n-hexane extracts of R. hirtellus revealed the presence of 14 distinct compounds. In the methanol extract, sterols, quinones, glycosides, lactones, lignin, and flavonoids were identified. The aqueous extract contained sterols, alkaloids, glycosides, triterpenes, terpenoids, quinones, leucoanthocyanins, and lactones. The total flavonoid content (TFC), total phenolic content (TPC), total tannin content (TTC), and reducing sugar content (RDC) were determined in plant extracts, and a linear relationship was found between these parameters. Additionally, the TTC, TPC, and TFC values for both extracts hovered around 0.3786, 0.0476, and 0.1864 μg/mL, respectively, across all plant concentrations, while RDC ranged from 0.9336 to 1.0119 μg/mL in all four extracts. In vitro assays demonstrated dose-dependent antidiabetic activity in both methanolic and aqueous extracts by inhibiting α-amylase. Furthermore, the antioxidant activity observed in the DPPH assay was greater in the aqueous extract compared with the methanolic extract. In addition, the ethyl acetate extract exhibited the highest inhibition among chloroform and n-hexane in the ABTS assay. The results suggest that R. hirtellus can be a potential source of natural antioxidants and antidiabetic agents, and further studies are warranted to investigate the underlying mechanisms of its therapeutic effects.
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Affiliation(s)
- Hadiqa Ishtiaq
- Department
of Biology, The University of Haripur, Haripur 22620, Khyber Pakhtunkhwa, Pakistan
| | - Bashir Ahmad
- Department
of Pediatrics, Affiliated Hospital of Guangdong
Medical University, 524000 Zhanjiang, China
- Department
of Biology, The University of Haripur, Haripur 22620, Khyber Pakhtunkhwa, Pakistan
| | - Nayab Zahid
- Department
of Biology, The University of Haripur, Haripur 22620, Khyber Pakhtunkhwa, Pakistan
| | - Tayyaba Bibi
- Department
of Biology, The University of Haripur, Haripur 22620, Khyber Pakhtunkhwa, Pakistan
| | - Imran Khan
- Department
of Food Science and Technology, The University
of Haripur, Haripur 22620, Khyber Pakhtunkhwa, Pakistan
| | - Azizullah Azizullah
- Department
of Biology, The University of Haripur, Haripur 22620, Khyber Pakhtunkhwa, Pakistan
| | - Khalid Ahmad
- Department
of Environmental Sciences, COMSATS University
Islamabad, Abbottabad
Campus, Abbottabad 22060, Khyber Pakhtunkhwa, Pakistan
| | - Abduh Murshed
- Department
of Intensive Care Unit, Affiliated Hospital
of Guangdong Medical University, 524000 Zhanjiang, China
| | - Shafiq Ur Rehman
- Department
of Biology, The University of Haripur, Haripur 22620, Khyber Pakhtunkhwa, Pakistan
| | - Mostafa A. Abdel-Maksoud
- Botany and
Microbiology Department College of Science, King Saud University, P.O. Box 2455, Riyadh 11451, Saudi Arabia
| | - Mohamed A. El-Tayeb
- Botany and
Microbiology Department College of Science, King Saud University, P.O. Box 2455, Riyadh 11451, Saudi Arabia
| | - Jun Lu
- Department
of Pediatrics, Affiliated Hospital of Guangdong
Medical University, 524000 Zhanjiang, China
| | - Mohamed Y. Zaky
- Molecular
Physiology Division, Zoology Department, Faculty of Science, Beni-Suef University, P.O. Box 62521, Beni-Suef 62521, Egypt
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Ji J, Luo Y, Pei L, Li M, Xiao J, Li W, Wu H, Luo Y, He J, Cheng J, Xie L. Complete Plastid Genomes of Nine Species of Ranunculeae (Ranunculaceae) and Their Phylogenetic Inferences. Genes (Basel) 2023; 14:2140. [PMID: 38136961 PMCID: PMC10742492 DOI: 10.3390/genes14122140] [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: 10/20/2023] [Revised: 11/22/2023] [Accepted: 11/24/2023] [Indexed: 12/24/2023] Open
Abstract
The tribe Ranunculeae, Ranunculaceae, comprising 19 genera widely distributed all over the world. Although a large number of Sanger sequencing-based molecular phylogenetic studies have been published, very few studies have been performed on using genomic data to infer phylogenetic relationships within Ranunculeae. In this study, the complete plastid genomes of nine species (eleven samples) from Ceratocephala, Halerpestes, and Ranunculus were de novo assembled using a next-generation sequencing method. Previously published plastomes of Oxygraphis and other related genera of the family were downloaded from GenBank for comparative analysis. The complete plastome of each Ranunculeae species has 112 genes in total, including 78 protein-coding genes, 30 transfer RNA genes, and four ribosomal RNA genes. The plastome structure of Ranunculeae samples is conserved in gene order and arrangement. There are no inverted repeat (IR) region expansions and only one IR contraction was found in the tested samples. This study also compared plastome sequences across all the samples in gene collinearity, codon usage, RNA editing sites, nucleotide variability, simple sequence repeats, and positive selection sites. Phylogeny of the available Ranunculeae species was inferred by the plastome data using maximum-likelihood and Bayesian inference methods, and data partitioning strategies were tested. The phylogenetic relationships were better resolved compared to previous studies based on Sanger sequencing methods, showing the potential value of the plastome data in inferring the phylogeny of the tribe.
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Affiliation(s)
- Jiaxin Ji
- State Key Laboratory of Efficient Production of Forest Resources, School of Ecology and Nature Conservation, Beijing Forestry University, Beijing 100083, China; (J.J.); (Y.L.); (J.X.); (W.L.); (H.W.); (Y.L.); (J.H.)
| | - Yike Luo
- State Key Laboratory of Efficient Production of Forest Resources, School of Ecology and Nature Conservation, Beijing Forestry University, Beijing 100083, China; (J.J.); (Y.L.); (J.X.); (W.L.); (H.W.); (Y.L.); (J.H.)
| | - Linying Pei
- College of Agriculture and Forestry, Longdong University, Qingyang 745000, China;
| | - Mingyang Li
- State Key Laboratory of Efficient Production of Forest Resources, College of Biological Sciences and Technology, Beijing Forestry University, Beijing 100083, China; (M.L.); (J.C.)
| | - Jiamin Xiao
- State Key Laboratory of Efficient Production of Forest Resources, School of Ecology and Nature Conservation, Beijing Forestry University, Beijing 100083, China; (J.J.); (Y.L.); (J.X.); (W.L.); (H.W.); (Y.L.); (J.H.)
| | - Wenhe Li
- State Key Laboratory of Efficient Production of Forest Resources, School of Ecology and Nature Conservation, Beijing Forestry University, Beijing 100083, China; (J.J.); (Y.L.); (J.X.); (W.L.); (H.W.); (Y.L.); (J.H.)
| | - Huanyu Wu
- State Key Laboratory of Efficient Production of Forest Resources, School of Ecology and Nature Conservation, Beijing Forestry University, Beijing 100083, China; (J.J.); (Y.L.); (J.X.); (W.L.); (H.W.); (Y.L.); (J.H.)
| | - Yuexin Luo
- State Key Laboratory of Efficient Production of Forest Resources, School of Ecology and Nature Conservation, Beijing Forestry University, Beijing 100083, China; (J.J.); (Y.L.); (J.X.); (W.L.); (H.W.); (Y.L.); (J.H.)
| | - Jian He
- State Key Laboratory of Efficient Production of Forest Resources, School of Ecology and Nature Conservation, Beijing Forestry University, Beijing 100083, China; (J.J.); (Y.L.); (J.X.); (W.L.); (H.W.); (Y.L.); (J.H.)
| | - Jin Cheng
- State Key Laboratory of Efficient Production of Forest Resources, College of Biological Sciences and Technology, Beijing Forestry University, Beijing 100083, China; (M.L.); (J.C.)
- National Engineering Research Center of Tree Breeding and Ecological Restoration, Beijing Key Laboratory of Ornamental Plants Germplasm Innovation and Molecular Breeding, College of Biological Sciences and Technology, Beijing Forestry University, Beijing 100083, China
| | - Lei Xie
- State Key Laboratory of Efficient Production of Forest Resources, School of Ecology and Nature Conservation, Beijing Forestry University, Beijing 100083, China; (J.J.); (Y.L.); (J.X.); (W.L.); (H.W.); (Y.L.); (J.H.)
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Geometric Morphometric Versus Genomic Patterns in a Large Polyploid Plant Species Complex. BIOLOGY 2023; 12:biology12030418. [PMID: 36979110 PMCID: PMC10045763 DOI: 10.3390/biology12030418] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/01/2023] [Revised: 03/06/2023] [Accepted: 03/07/2023] [Indexed: 03/12/2023]
Abstract
Plant species complexes represent a particularly interesting example of taxonomically complex groups (TCGs), linking hybridization, apomixis, and polyploidy with complex morphological patterns. In such TCGs, mosaic-like character combinations and conflicts of morphological data with molecular phylogenies present a major problem for species classification. Here, we used the large polyploid apomictic European Ranunculus auricomus complex to study relationships among five diploid sexual progenitor species and 75 polyploid apomictic derivate taxa, based on geometric morphometrics using 11,690 landmarked objects (basal and stem leaves, receptacles), genomic data (97,312 RAD-Seq loci, 48 phased target enrichment genes, 71 plastid regions) from 220 populations. We showed that (1) observed genomic clusters correspond to morphological groupings based on basal leaves and concatenated traits, and morphological groups were best resolved with RAD-Seq data; (2) described apomictic taxa usually overlap within trait morphospace except for those taxa at the space edges; (3) apomictic phenotypes are highly influenced by parental subgenome composition and to a lesser extent by climatic factors; and (4) allopolyploid apomictic taxa, compared to their sexual progenitor, resemble a mosaic of ecological and morphological intermediate to transgressive biotypes. The joint evaluation of phylogenomic, phenotypic, reproductive, and ecological data supports a revision of purely descriptive, subjective traditional morphological classifications.
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Goo YK. Therapeutic Potential of Ranunculus Species (Ranunculaceae): A Literature Review on Traditional Medicinal Herbs. PLANTS 2022; 11:plants11121599. [PMID: 35736749 PMCID: PMC9227133 DOI: 10.3390/plants11121599] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Received: 05/25/2022] [Revised: 06/16/2022] [Accepted: 06/16/2022] [Indexed: 11/17/2022]
Abstract
The genus Ranunculus includes approximately 600 species and is distributed worldwide. To date, several researchers have investigated the chemical and biological activities of Ranunculus species, and my research team has found them to have antimalarial effects. This review is based on the available information on the traditional uses and pharmacological studies of Ranunculus species. The present paper covers online literature, particularly from 2010 to 2021, and books on the ethnopharmacology and botany of Ranunculus species. Previous studies on the biological activity of crude or purified compounds from Ranunculus species, including R. sceleratus Linn., R. japonicus Thunb., R. muricatus Linn., R. ternatus Thunb., R. arvensis Linn., R. diffusus DC., R. sardous Crantz, R. ficaria Linn., R. hyperboreus Rotlb., and R. pedatus Waldst. & Kit., have provided new insights into their activities, such as antibacterial and antiprotozoal effects as well as antioxidant, immunomodulatory, and anticarcinogenic properties. In addition, the anti-inflammatory and analgesic effects of plants used in traditional medicine applications have been confirmed. Therefore, there is a need for more diverse studies on the chemical and pharmacological activities of highly purified molecules from Ranunculus species extracts to understand the mechanisms underlying their activities and identify novel drug candidates.
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Affiliation(s)
- Youn-Kyoung Goo
- Department of Parasitology and Tropical Medicine, School of Medicine, Kyungpook National University, Daegu 41944, Korea
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5
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Razavi R, Amiri M, Alshamsi HA, Eslaminejad T, Salavati-Niasari M. Green synthesis of Ag nanoparticles in oil-in-water nano-emulsion and evaluation of their antibacterial and cytotoxic properties as well as molecular docking. ARAB J CHEM 2021. [DOI: 10.1016/j.arabjc.2021.103323] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022] Open
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6
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The molecular taxonomy of three endemic Central Asian species of Ranunculus(Ranunculaceae). PLoS One 2020; 15:e0240121. [PMID: 33017445 PMCID: PMC7535031 DOI: 10.1371/journal.pone.0240121] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2020] [Accepted: 09/18/2020] [Indexed: 11/19/2022] Open
Abstract
Worldwide, the genus Ranunculus includes approximately 600 species and is highly genetically diverse. Recent taxonomic reports suggest that the genus has a monophyletic origin, divided into two subgenera, and consists of 17 sections. The Central Asian country of Kazakhstan has 62 species of the genus that have primarily been collected in the central part of the country. The latest collection trips in southern parts of the country have led to the description of a wider distribution area for Ranunculus and the identification of a new species Ranunculus talassicus Schegol. et A.L. Ebel from Western Tien Shan. Therefore, in this study, attempts were made to assess the molecular taxonomic positions of R. talassicus and two other species endemic to the Central Asian region R. karkaralensis Schegol. and R. pskemensis V.N. Pavlov in relation to other species of the genus, using internal transcribed spacer (ITS) molecular genetic markers. The ITS-aligned sequences of 22 local Central Asian accessions and 43 accession sequences available in the National Center for Biotechnology Information (NCBI) database allowed the construction of a maximum parsimony phylogenetic tree and a Neighbor-Net network. The results indicated that R. talassicus and R. pskemensis could be assigned to section Ranunculastrum. Additionally, an assessment of the network suggested that R. pskemensis was the rooting taxon for the group of species containing R. talassicus, and that R. illyricus L. and R. pedatus Waldst. & Kit. were founders of a prime rooting node for the Ranunculastrum section of the genus. The ITS-aligned sequences showed that R. karkaralensis was indifferent with respect to three other species in the Ranunculus section of the genus, i.e., R. acris L., R. grandifolius C.A. Mey., and R. subborealis Tzvelev. The study indicated that the assessments of ITS-based phylogenetic tree and Neighbor-Net network provided new insights into the taxonomic positions of three endemic species from Central Asia.
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7
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Hetherington-Rauth MC, Johnson MTJ. Floral Trait Evolution of Angiosperms on Pacific Islands. Am Nat 2020; 196:87-100. [DOI: 10.1086/709018] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
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8
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Tomasello S, Karbstein K, Hodač L, Paetzold C, Hörandl E. Phylogenomics unravels Quaternary vicariance and allopatric speciation patterns in temperate‐montane plant species: A case study on the
Ranunculus auricomus
species complex. Mol Ecol 2020; 29:2031-2049. [DOI: 10.1111/mec.15458] [Citation(s) in RCA: 22] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/05/2019] [Accepted: 04/21/2020] [Indexed: 01/06/2023]
Affiliation(s)
- Salvatore Tomasello
- Department of Systematics, Biodiversity and Evolution of Plants (with Herbarium) Albrecht‐von‐Haller Institute for Plant Sciences University of Goettingen Göttingen Germany
| | - Kevin Karbstein
- Department of Systematics, Biodiversity and Evolution of Plants (with Herbarium) Albrecht‐von‐Haller Institute for Plant Sciences University of Goettingen Göttingen Germany
- Georg‐August University School of Science (GAUSS) University of Goettingen Goettingen Germany
| | - Ladislav Hodač
- Department of Systematics, Biodiversity and Evolution of Plants (with Herbarium) Albrecht‐von‐Haller Institute for Plant Sciences University of Goettingen Göttingen Germany
| | - Claudia Paetzold
- Department of Systematics, Biodiversity and Evolution of Plants (with Herbarium) Albrecht‐von‐Haller Institute for Plant Sciences University of Goettingen Göttingen Germany
| | - Elvira Hörandl
- Department of Systematics, Biodiversity and Evolution of Plants (with Herbarium) Albrecht‐von‐Haller Institute for Plant Sciences University of Goettingen Göttingen Germany
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Azani N, Bruneau A, Wojciechowski MF, Zarre S. Miocene climate change as a driving force for multiple origins of annual species in Astragalus (Fabaceae, Papilionoideae). Mol Phylogenet Evol 2019; 137:210-221. [DOI: 10.1016/j.ympev.2019.05.008] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2019] [Revised: 05/13/2019] [Accepted: 05/14/2019] [Indexed: 10/26/2022]
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Liu H, He J, Ding C, Lyu R, Pei L, Cheng J, Xie L. Comparative Analysis of Complete Chloroplast Genomes of Anemoclema, Anemone, Pulsatilla, and Hepatica Revealing Structural Variations Among Genera in Tribe Anemoneae (Ranunculaceae). FRONTIERS IN PLANT SCIENCE 2018; 9:1097. [PMID: 30100915 PMCID: PMC6073577 DOI: 10.3389/fpls.2018.01097] [Citation(s) in RCA: 43] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/03/2018] [Accepted: 07/09/2018] [Indexed: 05/20/2023]
Abstract
Structural rearrangements of Anemone species' chloroplast genome has been reported based on genetic mapping of restriction sites but has never been confirmed by genomic studies. We used a next-generation sequencing method to characterize the complete chloroplast genomes of five species in the tribe Anemoneae. Plastid genomes were assembled using de novo assembling methods combined with conventional Sanger sequencing to fill the gaps. The gene order of the chloroplast genomes of tribe Anemoneae was compared with that of other Ranunculaceae species. Multiple inversions and transpositions were detected in tribe Anemoneae. Anemoclema, Anemone, Hepatica, and Pulsatilla shared the same gene order, which contained three inversions in the large single copy region (LSC) compared to other Ranunculaceae genera. Archiclematis, Clematis, and Naravelia shared the same gene order containing two inversions and one transposition in LSC. A roughly 4.4 kb expansion region in inverted repeat (IR) regions was detected in tribe Anemoneae, suggesting that this expansion event may be a synapomorphy for this group. Plastome phylogenomic analyses using parsimony and a Bayesian method with implementation of partitioned models generated a well resolved phylogeny of Ranunculaceae. These results suggest that evaluation of chloroplast genomes may result in improved resolution of family phylogenies. Samples of Anemone, Hepatica, and Pulsatilla were tested to form paraphyletic grades within tribe Anemoneae. Anemoclema was a sister clade to Clematis. Structual variation of the plastid genome within tribe Anemoneae provided strong phylogenetic information for Ranunculaceae.
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Affiliation(s)
- Huijie Liu
- School of Nature Conservation, Beijing Forestry University, Beijing, China
| | - Jian He
- School of Nature Conservation, Beijing Forestry University, Beijing, China
| | - Chuanhua Ding
- School of Nature Conservation, Beijing Forestry University, Beijing, China
| | - Rudan Lyu
- School of Nature Conservation, Beijing Forestry University, Beijing, China
| | - Linying Pei
- Beijing Forestry University Forest Science Co. Ltd., Beijing, China
| | - Jin Cheng
- School of Nature Conservation, Beijing Forestry University, Beijing, China
| | - Lei Xie
- School of Nature Conservation, Beijing Forestry University, Beijing, China
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Márquez-Corro JI, Escudero M, Martín-Bravo S, Villaverde T, Luceño M. Long-distance dispersal explains the bipolar disjunction in Carex macloviana. AMERICAN JOURNAL OF BOTANY 2017; 104:663-673. [PMID: 28456761 DOI: 10.3732/ajb.1700012] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/09/2017] [Accepted: 03/27/2017] [Indexed: 06/07/2023]
Abstract
PREMISE OF THE STUDY The sedge Carex macloviana d'Urv presents a bipolar distribution. To clarify the origin of its distribution, we consider the four main hypotheses: long-distance dispersal (either by mountain hopping or by direct dispersal), vicariance, parallel evolution, and human introduction. METHODS Phylogenetic, phylogeographic, and divergence time estimation analyses were carried out based on two nuclear ribosomal (ETS and ITS) regions, one nuclear single copy gene (CATP), and three plastid DNA regions (rps16 and 5'trnK introns, and psbA-trnH spacer), using Bayesian inference, maximum likelihood, and statistical parsimony. Bioclimatic data were used to characterize the climatic niche of C. macloviana. KEY RESULTS Carex macloviana constitutes a paraphyletic species, dating back to the Pleistocene (0.62 Mya, 95% highest posterior density: 0.29-1.00 Mya). This species displays strong genetic structure between hemispheres, with two different lineages in the Southern Hemisphere and limited genetic differentiation in Northern Hemisphere populations. Also, populations from the Southern Hemisphere show a narrower climatic niche with regards to the Northern Hemisphere populations. CONCLUSIONS Carex macloviana reached its bipolar distribution by long-distance dispersal, although it was not possible to determine whether it was caused by mountain hopping or by direct dispersal. While there is some support that Carex macloviana might have colonized the Northern Hemisphere by south-to-north transhemisphere dispersal during the Pleistocene, unlike the southwards dispersal pattern inferred for other bipolar Carex L. species, we cannot entirely rule out north-to-south dispersion.
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Affiliation(s)
- José I Márquez-Corro
- Department of Molecular Biology and Biochemical Engineering, Universidad Pablo de Olavide, Carretera de Utrera km 1, ES-41013, Seville, Spain
| | - Marcial Escudero
- Department of Plant Biology and Ecology, Universidad de Sevilla, Reina Mercedes sn, ES-41012, Seville, Spain
| | - Santiago Martín-Bravo
- Department of Molecular Biology and Biochemical Engineering, Universidad Pablo de Olavide, Carretera de Utrera km 1, ES-41013, Seville, Spain
| | - Tamara Villaverde
- Department of Molecular Biology and Biochemical Engineering, Universidad Pablo de Olavide, Carretera de Utrera km 1, ES-41013, Seville, Spain
- Real Jardín Botánico, CSIC, Plaza de Murillo 2, ES-28014, Madrid, Spain
| | - Modesto Luceño
- Department of Molecular Biology and Biochemical Engineering, Universidad Pablo de Olavide, Carretera de Utrera km 1, ES-41013, Seville, Spain
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Manafzadeh S, Staedler YM, Conti E. Visions of the past and dreams of the future in the Orient: the Irano-Turanian region from classical botany to evolutionary studies. Biol Rev Camb Philos Soc 2016; 92:1365-1388. [PMID: 27349491 DOI: 10.1111/brv.12287] [Citation(s) in RCA: 51] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2015] [Revised: 05/12/2016] [Accepted: 05/16/2016] [Indexed: 01/20/2023]
Abstract
Ever since the 19th century, the immense arid lands of the Orient, now called the Irano-Turanian (IT) floristic region, attracted the interest of European naturalists with their tremendous plant biodiversity. Covering approximately 30% of the surface of Eurasia (16000000 km2 ), the IT region is one of the largest floristic regions of the world. The IT region represents one of the hotspots of evolutionary and biological diversity in the Old World, and serves as a source of xerophytic taxa for neighbouring regions. Moreover, it is the cradle of the numerous species domesticated in the Fertile Crescent. Over the last 200 years, naturalists outlined different borders for the IT region. Yet, the delimitation and evolutionary history of this area remain one of the least well-understood fields of global biogeography, even though it is crucial to explaining the distribution of life in Eurasia. No comprehensive review of the biogeographical delimitations nor of the role of geological and climatic changes in the evolution of the IT region is currently available. After considering the key role of floristic regions in biogeography, we review the history of evolving concepts about the borders and composition of the IT region over the past 200 years and outline a tentative circumscription for it. We also summarise current knowledge on the geological and climatic history of the IT region. We then use this knowledge to generate specific evolutionary hypotheses to explain how different geological, palaeoclimatic, and ecological factors contributed to range expansion and contraction, thus shaping patterns of speciation in the IT region over time and space. Both historical and ecological biogeography should be applied to understand better the floristic diversification of the region. This will ultimately require evolutionary comparative analyses based on integrative phylogenetic, geological, climatic, ecological, and species distribution studies on the region. Furthermore, an understanding of evolutionary and ecological processes will play a major role in regional planning for protecting biodiversity of the IT region in facing climatic change. With this review, we aim to introduce the IT floristic region to a broader audience of evolutionary, ecological and systematic biologists, thus promoting cutting-edge research on this area and raising awareness of this vast and diverse, yet understudied, part of the world.
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Affiliation(s)
- Sara Manafzadeh
- Department of Systematic and Evolutionary Botany, University of Zurich, Zollikerstrasse 107, 8008, Zurich, Switzerland
| | - Yannick M Staedler
- Department of Botany and Biodiversity Research, University of Vienna, Rennweg 14, 1030, Vienna, Austria
| | - Elena Conti
- Department of Systematic and Evolutionary Botany, University of Zurich, Zollikerstrasse 107, 8008, Zurich, Switzerland
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13
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Gaudeul M, Véla E, Rouhan G. Eastward colonization of the Mediterranean Basin by two geographically structured clades: The case of Odontites Ludw. (Orobanchaceae). Mol Phylogenet Evol 2016; 96:140-149. [DOI: 10.1016/j.ympev.2015.12.008] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/30/2015] [Revised: 12/09/2015] [Accepted: 12/14/2015] [Indexed: 11/16/2022]
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14
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Liu XQ, Ickert-Bond SM, Nie ZL, Zhou Z, Chen LQ, Wen J. Phylogeny of the Ampelocissus–Vitis clade in Vitaceae supports the New World origin of the grape genus. Mol Phylogenet Evol 2016; 95:217-28. [DOI: 10.1016/j.ympev.2015.10.013] [Citation(s) in RCA: 57] [Impact Index Per Article: 7.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/10/2014] [Revised: 07/31/2015] [Accepted: 10/13/2015] [Indexed: 01/29/2023]
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Mitchell TC, Williams BRM, Wood JRI, Harris DJ, Scotland RW, Carine MA. How the temperate world was colonised by bindweeds: biogeography of the Convolvuleae (Convolvulaceae). BMC Evol Biol 2016; 16:16. [PMID: 26787507 PMCID: PMC4719731 DOI: 10.1186/s12862-016-0591-6] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2015] [Accepted: 01/12/2016] [Indexed: 11/24/2022] Open
Abstract
Background At a global scale, the temperate zone is highly fragmented both between and within hemispheres. This paper aims to investigate how the world’s disjunct temperate zones have been colonised by the pan-temperate plant group Convolvuleae, sampling 148 of the c. 225 known species. We specifically determine the number and timing of amphitropical and transoceanic disjunctions, investigate the extent to which disjunctions in Convolvuleae are spatio-temporally congruent with those in other temperate plant groups and determine the impact of long-distance dispersal events on diversification rates. Results Eight major disjunctions are observed in Convolvuleae: two Northern Hemisphere, two Southern Hemisphere and four amphitropical. Diversity in the Southern Hemisphere is largely the result of a single colonisation of Africa 3.1–6.4 Ma, and subsequent dispersals from Africa to both Australasia and South America. Speciation rates within this monophyletic, largely Southern Hemisphere group (1.38 species Myr−1) are found to be over twice those of the tribe as a whole (0.64 species Myr-1). Increased speciation rates are also observed in Calystegia (1.65 species Myr−1). Conclusions The Convolvuleae has colonised every continent of the world with a temperate biome in c. 18 Myr and eight major range disjunctions underlie this broad distribution. In keeping with other temperate lineages exhibiting disjunct distributions, long-distance dispersal is inferred as the main process explaining the patterns observed although for one American-Eurasian disjunction we cannot exclude vicariance. The colonisation of the temperate zones of the three southern continents within the last c. 4 Myr is likely to have stimulated high rates of diversification recovered in this group, with lineage accumulation rates comparable to those reported for adaptive radiations. Electronic supplementary material The online version of this article (doi:10.1186/s12862-016-0591-6) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Thomas C Mitchell
- Plant Biodiversity Research, Technische Universität München, Emil-Ramann Strasse 2, 85354, Freising, Germany.
| | - Bethany R M Williams
- Department of Plant Sciences, University of Oxford, South Parks Road, Oxford, OX1 3RB, UK.
| | - John R I Wood
- Department of Plant Sciences, University of Oxford, South Parks Road, Oxford, OX1 3RB, UK.
| | - David J Harris
- Royal Botanic Garden Edinburgh, 20A Inverleith Row, Edinburgh, EH3 5LR, UK.
| | - Robert W Scotland
- Department of Plant Sciences, University of Oxford, South Parks Road, Oxford, OX1 3RB, UK.
| | - Mark A Carine
- Department of Life Sciences, The Natural History Museum, Cromwell Road, London, SW7 5BD, UK.
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Uribe-Convers S, Tank DC. Shifts in diversification rates linked to biogeographic movement into new areas: An example of a recent radiation in the Andes. AMERICAN JOURNAL OF BOTANY 2015; 102:1854-69. [PMID: 26542843 DOI: 10.3732/ajb.1500229] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/19/2015] [Accepted: 09/24/2015] [Indexed: 05/25/2023]
Abstract
PREMISE OF THE STUDY Clade-specific bursts in diversification are often associated with the evolution of key innovations. However, in groups with no obvious morphological innovations, observed upticks in diversification rates have also been attributed to the colonization of a new geographic environment. In this study, we explore the systematics, diversification dynamics, and historical biogeography of the plant clade Rhinantheae in the Orobanchaceae, with a special focus on the Andean clade of the genus Bartsia. METHODS We sampled taxa from across Rhinantheae, including a representative sample of Andean Bartsia species. Using standard phylogenetic methods, we reconstructed evolutionary relationships, inferred divergence times among the clades of Rhinantheae, elucidated their biogeographic history, and investigated diversification dynamics. KEY RESULTS We confirmed that the South American Bartsia species form a highly supported monophyletic group. The median crown age of Rhinantheae was determined to be ca. 30 Myr, and Europe played an important role in the biogeographic history of the lineages. South America was first reconstructed in the biogeographic analyses around 9 Myr ago, and with a median age of 2.59 Myr, this clade shows a significant uptick in diversification. CONCLUSIONS Increased net diversification of the South American clade corresponds to biogeographic movement into the New World. This movement happened at a time when the Andes were reaching the necessary elevation to host an alpine environment. Although a specific route could not be identified with certainty, we provide plausible hypotheses to how the group colonized the New World.
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Affiliation(s)
- Simon Uribe-Convers
- Department of Biological Sciences, University of Idaho, 875 Perimeter MS 3051, Moscow, Idaho 83844-3051, USA
| | - David C Tank
- Department of Biological Sciences, University of Idaho, 875 Perimeter MS 3051, Moscow, Idaho 83844-3051, USA
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Williams BRM, Schaefer H, De Sequeira MM, Reyes-Betancort JA, Patiño J, Carine MA. Are there any widespread endemic flowering plant species in Macaronesia? Phylogeography of Ranunculus cortusifolius. AMERICAN JOURNAL OF BOTANY 2015; 102:1736-1746. [PMID: 26453597 DOI: 10.3732/ajb.1500238] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/22/2015] [Accepted: 09/10/2015] [Indexed: 06/05/2023]
Abstract
PREMISE OF THE STUDY Oceanic island endemics typically exhibit very restricted distributions. In Macaronesia, only one endemic angiosperm species, Ranunculus cortusifolius, has a distribution spanning the archipelagos of the Azores, Madeira, and Canaries. Earlier work suggested possible differences between archipelagos and the multiple origins of the species. This paper tests the hypothesis that R. cortusifolius is a single widespread Macaronesian endemic species with a single origin. METHODS Chloroplast (matK-trnK, psbJ-petA) and ITS sequences were generated from across the distribution of R. cortusifolius. Relationships were investigated using Bayesian inference and divergence times estimated using BEAST. Infraspecific variation was investigated using statistical parsimony. The general mixed Yule-coalescent model (GMYC) was further used to identify putative species boundaries based on maternally inherited plastid data. KEY RESULTS The hypothesis of multiple independent origins of R. cortusifolius is rejected. Divergence of the R. cortusifolius lineage from a western Mediterranean sister group in the late Miocene is inferred. Distinct genotypes were resolved within R. cortusifolius that are endemic to the Azores, Madeira, and the Canaries. Four to five putative species were delimited by different versions of the GMYC model. CONCLUSION Ranunculus cortusifolius is the result of a single colonization of Macaronesia. The large distances between archipelagos have been effective barriers to dispersal, promoting allopatric diversification at the molecular level with diversification also evident within the Canaries. Isolation has not been accompanied by marked morphological diversification, which may be explained by the typical association of R. cortusifolius with stable and climatically buffered laurel forest communities.
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Affiliation(s)
- Bethany R M Williams
- Department of Life Sciences, The Natural History Museum, Cromwell Road, London, SW7 5BD
| | - Hanno Schaefer
- Technische Universitaet Muenchen, Plant Biodiversity, Emil-Ramann Str. 2, D-85354 Freising, Germany
| | | | - J Alfredo Reyes-Betancort
- Jardín de Aclimatación de La Orotava (ICIA), C/ Retama n° 2 38400 Puerto de La Cruz, Tenerife, Spain
| | - Jairo Patiño
- Department of Biology, Ecology and Evolution, Liège University, Bât. B22, Boulevard du Rectorat 27, 4000 Liège, Belgium Departamento de Biología Vegetal, Universidad de La Laguna, C/ Astrofísico Francisco Sánchez, s/n 38071 Tenerife, Spain
| | - Mark A Carine
- Department of Life Sciences, The Natural History Museum, Cromwell Road, London, SW7 5BD
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Li T, Xu L, Deng Y, Liao L, Liang G. Isolation and characterization of thirteen microsatellite loci in four diploid species of Ranunculus cantonensis polyploid complex. BIOCHEM SYST ECOL 2015. [DOI: 10.1016/j.bse.2015.02.010] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
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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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20
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Chen C, Qi ZC, Xu XH, Comes HP, Koch MA, Jin XJ, Fu CX, Qiu YX. Understanding the formation of Mediterranean-African-Asian disjunctions: evidence for Miocene climate-driven vicariance and recent long-distance dispersal in the Tertiary relict Smilax aspera (Smilacaceae). THE NEW PHYTOLOGIST 2014; 204:243-255. [PMID: 24975406 DOI: 10.1111/nph.12910] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/02/2013] [Accepted: 05/27/2014] [Indexed: 05/23/2023]
Abstract
Tethyan plant disjunctions, including Mediterranean-African-Asian disjunctions, are thought to be vicariant, but their temporal origin and underlying causes remain largely unknown. To address this issue, we reconstructed the evolutionary history of Smilax aspera, a hypothesized component of the European Tertiary laurel forest flora. Thirty-eight populations and herbarium specimens representing 57 locations across the species range were sequenced at seven plastid regions and the nuclear ribosomal internal transcribed spacer region. Time-calibrated phylogenetic and phylogeographic inferences were used to trace ancestral areas and biogeographical events. The deep intraspecific split between Mediterranean and African-Asian lineages is attributable to range fragmentation of a southern Tethyan ancestor, as colder and more arid climates developed shortly after the mid-Miocene. In the Mediterranean, climate-induced vicariance has shaped regional population structure since the Late Miocene/Early Pliocene. At around the same time, East African and South Asian lineages split by vicariance, with one shared haplotype reflecting long-distance dispersal. Our results support the idea that geographic range formation and divergence of Tertiary relict species are more or less gradual (mostly vicariant) processes over long time spans, rather than point events in history. They also highlight the importance of the Mediterranean Basin as a centre of intraspecific divergence for Tertiary relict plants.
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Affiliation(s)
- Chen Chen
- Key Laboratory of Conservation Biology for Endangered Wildlife of the Ministry of Education, and College of Life Sciences, Zhejiang University, Hangzhou, 310058, China
- Laboratory of Systematic & Evolutionary Botany and Biodiversity, Institute of Plant Sciences, and Conservation Center for Gene Resources of Endangered Wildlife, Zhejiang University, Hangzhou, China
| | - Zhe-Chen Qi
- Key Laboratory of Conservation Biology for Endangered Wildlife of the Ministry of Education, and College of Life Sciences, Zhejiang University, Hangzhou, 310058, China
- Laboratory of Systematic & Evolutionary Botany and Biodiversity, Institute of Plant Sciences, and Conservation Center for Gene Resources of Endangered Wildlife, Zhejiang University, Hangzhou, China
| | - Xi-Hui Xu
- Key Laboratory of Conservation Biology for Endangered Wildlife of the Ministry of Education, and College of Life Sciences, Zhejiang University, Hangzhou, 310058, China
- Laboratory of Systematic & Evolutionary Botany and Biodiversity, Institute of Plant Sciences, and Conservation Center for Gene Resources of Endangered Wildlife, Zhejiang University, Hangzhou, China
| | - Hans Peter Comes
- Department of Organismic Biology, Salzburg University, A-5020, Salzburg, Austria
| | - Marcus A Koch
- Department of Biodiversity and Plant Systematics and Botanical Garden and Herbarium Heidelberg (HEID), Center for Organismal Studies (COS) Heidelberg, Heidelberg University, Heidelberg, Germany
| | - Xin-Jie Jin
- Key Laboratory of Conservation Biology for Endangered Wildlife of the Ministry of Education, and College of Life Sciences, Zhejiang University, Hangzhou, 310058, China
| | - Cheng-Xin Fu
- Key Laboratory of Conservation Biology for Endangered Wildlife of the Ministry of Education, and College of Life Sciences, Zhejiang University, Hangzhou, 310058, China
- Laboratory of Systematic & Evolutionary Botany and Biodiversity, Institute of Plant Sciences, and Conservation Center for Gene Resources of Endangered Wildlife, Zhejiang University, Hangzhou, 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, 310058, China
- Laboratory of Systematic & Evolutionary Botany and Biodiversity, Institute of Plant Sciences, and Conservation Center for Gene Resources of Endangered Wildlife, Zhejiang University, Hangzhou, China
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Hodač L, Scheben AP, Hojsgaard D, Paun O, Hörandl E. ITS polymorphisms shed light on hybrid evolution in apomictic plants: a case study on the Ranunculus auricomus complex. PLoS One 2014; 9:e103003. [PMID: 25062066 PMCID: PMC4111349 DOI: 10.1371/journal.pone.0103003] [Citation(s) in RCA: 33] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2013] [Accepted: 06/23/2014] [Indexed: 11/18/2022] Open
Abstract
The reconstruction of reticulate evolutionary histories in plants is still a major methodological challenge. Sequences of the ITS nrDNA are a popular marker to analyze hybrid relationships, but variation of this multicopy spacer region is affected by concerted evolution, high intraindividual polymorphism, and shifts in mode of reproduction. The relevance of changes in secondary structure is still under dispute. We aim to shed light on the extent of polymorphism within and between sexual species and their putative natural as well as synthetic hybrid derivatives in the Ranunculus auricomus complex to test morphology-based hypotheses of hybrid origin and parentage of taxa. We employed direct sequencing of ITS nrDNA from 68 individuals representing three sexuals, their synthetic hybrids and one sympatric natural apomict, as well as cloning of ITS copies in four representative individuals, RNA secondary structure analysis, and landmark geometric morphometric analysis on leaves. Phylogenetic network analyses indicate additivity of parental ITS variants in both synthetic and natural hybrids. The triploid synthetic hybrids are genetically much closer to their maternal progenitors, probably due to ploidy dosage effects, although exhibiting a paternal-like leaf morphology. The natural hybrids are genetically and morphologically closer to the putative paternal progenitor species. Secondary structures of ITS1-5.8S-ITS2 were rather conserved in all taxa. The observed similarities in ITS polymorphisms suggest that the natural apomict R. variabilis is an ancient hybrid of the diploid sexual species R. notabilis and the sexual species R. cassubicifolius. The additivity pattern shared by R. variabilis and the synthetic hybrids supports an evolutionary and biogeographical scenario that R. variabilis originated from ancient hybridization. Concerted evolution of ITS copies in R. variabilis is incomplete, probably due to a shift to asexual reproduction. Under the condition of comprehensive inter- and intraspecific sampling, ITS polymorphisms are powerful for elucidating reticulate evolutionary histories.
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Affiliation(s)
- Ladislav Hodač
- Department of Systematics, Biodiversity and Evolution of Plants (with Herbarium), Georg August University Göttingen, Göttingen, Germany
| | - Armin Patrick Scheben
- Department of Systematics, Biodiversity and Evolution of Plants (with Herbarium), Georg August University Göttingen, Göttingen, Germany
| | - Diego Hojsgaard
- Department of Systematics, Biodiversity and Evolution of Plants (with Herbarium), Georg August University Göttingen, Göttingen, Germany
| | - Ovidiu Paun
- Division of Systematic and Evolutionary Botany, University of Vienna, Vienna, Austria
| | - Elvira Hörandl
- Department of Systematics, Biodiversity and Evolution of Plants (with Herbarium), Georg August University Göttingen, Göttingen, Germany
- * E-mail:
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22
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Hinsinger DD, Gaudeul M, Couloux A, Bousquet J, Frascaria-Lacoste N. The phylogeography of Eurasian Fraxinus species reveals ancient transcontinental reticulation. Mol Phylogenet Evol 2014; 77:223-37. [PMID: 24795215 DOI: 10.1016/j.ympev.2014.04.021] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2013] [Revised: 04/14/2014] [Accepted: 04/18/2014] [Indexed: 01/16/2023]
Abstract
To investigate the biogeographical history of ashes species of the Eurasian section Fraxinus and to test the hypothesis of ancient reticulations, we sequenced nuclear DNA (nETS and nITS, 1075 bp) for 533 samples and scored AFLP for 63 samples of Eurasian ashes within the section Fraxinus. The nITS phylogeny retrieved the classical view of the evolution of the section, whereas nETS phylogeny indicated an unexpected separation of F. angustifolia in two paraphyletic groups, respectively found in southeastern Europe and in the other parts of the Mediterranean basin. In the nETS phylogeny, the former group was closely related to F. excelsior, whereas the later was closely related to F. mandshurica, a species which is restricted nowadays to northeastern Asia. This topological incongruence between the two loci indicated the occurrence of an ancient reticulation between European and Asian ash species. Several other ancient reticulation events between the two European species and the other species of the section were supported by the posterior predictive checking method. Some of these reticulation events would have occurred during the Miocene, when climatic variations may have lead these species to expand their distribution range and come into contact. The recurrent reticulations observed among Eurasian ash species indicate that they should be considered as conspecific taxa, with subspecific status for some groups. Altogether, the results of the present study provide a rare documented evidence for the occurrence of multiple ancient reticulations within a group of temperate tree taxa with modern disjunct distributions in Eurasia. These ancient reticulation events indicate that the speciation process is slow in ashes, necessitating long periods of geographical isolation. The implications for speciation processes in temperate trees with similar life history and reproductive biology are discussed.
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Affiliation(s)
- Damien D Hinsinger
- AgroParisTech, UMR 8079, 91405 Orsay, France; Centre national de la recherche scientifique, UMR 8079, 910405 Orsay, France; Université Paris-Sud, UMR 8079, F-91000 Orsay, France; Chaire de recherche du Canada en génomique forestière et environnementale, Centre d'étude de la forêt et Institut de biologie intégrative et des systèmes, Université Laval, Québec, Québec G1V 0A6, Canada.
| | - Myriam Gaudeul
- Muséum National d'Histoire Naturelle, UMR CNRS 7205 'Origine, Structure et Evolution de la Biodiversité', 16 rue Buffon, CP 39, F-75005 Paris, France.
| | - Arnaud Couloux
- Genoscope, Centre National de Séquençage, 2 rue Gaston Crémieux, CP 5706, F-91057 Evry Cedex, France.
| | - Jean Bousquet
- Chaire de recherche du Canada en génomique forestière et environnementale, Centre d'étude de la forêt et Institut de biologie intégrative et des systèmes, Université Laval, Québec, Québec G1V 0A6, Canada.
| | - Nathalie Frascaria-Lacoste
- AgroParisTech, UMR 8079, 91405 Orsay, France; Centre national de la recherche scientifique, UMR 8079, 910405 Orsay, France; Université Paris-Sud, UMR 8079, F-91000 Orsay, France.
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Pellino M, Hojsgaard D, Schmutzer T, Scholz U, Hörandl E, Vogel H, Sharbel TF. Asexual genome evolution in the apomicticRanunculus auricomuscomplex: examining the effects of hybridization and mutation accumulation. Mol Ecol 2013; 22:5908-21. [DOI: 10.1111/mec.12533] [Citation(s) in RCA: 42] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2012] [Revised: 08/21/2013] [Accepted: 08/26/2013] [Indexed: 10/26/2022]
Affiliation(s)
- Marco Pellino
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK); D-06466 Gatersleben Germany
| | - Diego Hojsgaard
- Department of Systematic Botany; Albrecht-von-Haller Institute for Plant Sciences; Georg-August-University of Goettingen; Untere Karspuele 2 D-37073 Goettingen Germany
| | - Thomas Schmutzer
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK); D-06466 Gatersleben Germany
| | - Uwe Scholz
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK); D-06466 Gatersleben Germany
| | - Elvira Hörandl
- Department of Systematic Botany; Albrecht-von-Haller Institute for Plant Sciences; Georg-August-University of Goettingen; Untere Karspuele 2 D-37073 Goettingen Germany
| | - Heiko Vogel
- Department of Entomology; Max Planck Institute for Chemical Ecology; D-07745 Jena Germany
| | - Timothy F. Sharbel
- Leibniz Institute of Plant Genetics and Crop Plant Research (IPK); D-06466 Gatersleben Germany
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Saarela JM, Sokoloff PC, Gillespie LJ, Consaul LL, Bull RD. DNA barcoding the Canadian Arctic flora: core plastid barcodes (rbcL + matK) for 490 vascular plant species. PLoS One 2013; 8:e77982. [PMID: 24348895 PMCID: PMC3865322 DOI: 10.1371/journal.pone.0077982] [Citation(s) in RCA: 64] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2013] [Accepted: 09/08/2013] [Indexed: 01/16/2023] Open
Abstract
Accurate identification of Arctic plant species is critical for understanding potential climate-induced changes in their diversity and distributions. To facilitate rapid identification we generated DNA barcodes for the core plastid barcode loci (rbcL and matK) for 490 vascular plant species, representing nearly half of the Canadian Arctic flora and 93% of the flora of the Canadian Arctic Archipelago. Sequence recovery was higher for rbcL than matK (93% and 81%), and rbcL was easier to recover than matK from herbarium specimens (92% and 77%). Distance-based and sequence-similarity analyses of combined rbcL + matK data discriminate 97% of genera, 56% of species, and 7% of infraspecific taxa. There is a significant negative correlation between the number of species sampled per genus and the percent species resolution per genus. We characterize barcode variation in detail in the ten largest genera sampled (Carex, Draba, Festuca, Pedicularis, Poa, Potentilla, Puccinellia, Ranunculus, Salix, and Saxifraga) in the context of their phylogenetic relationships and taxonomy. Discrimination with the core barcode loci in these genera ranges from 0% in Salix to 85% in Carex. Haplotype variation in multiple genera does not correspond to species boundaries, including Taraxacum, in which the distribution of plastid haplotypes among Arctic species is consistent with plastid variation documented in non-Arctic species. Introgression of Poa glauca plastid DNA into multiple individuals of P. hartzii is problematic for identification of these species with DNA barcodes. Of three supplementary barcode loci (psbA-trnH, psbK-psbI, atpF-atpH) collected for a subset of Poa and Puccinellia species, only atpF-atpH improved discrimination in Puccinellia, compared with rbcL and matK. Variation in matK in Vaccinium uliginosum and rbcL in Saxifraga oppositifolia corresponds to variation in other loci used to characterize the phylogeographic histories of these Arctic-alpine species.
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Affiliation(s)
- Jeffery M. Saarela
- Botany Section, Research and Collections Services, Canadian Museum of Nature, Ottawa, Ontario, Canada
| | - Paul C. Sokoloff
- Botany Section, Research and Collections Services, Canadian Museum of Nature, Ottawa, Ontario, Canada
| | - Lynn J. Gillespie
- Botany Section, Research and Collections Services, Canadian Museum of Nature, Ottawa, Ontario, Canada
| | - Laurie L. Consaul
- Botany Section, Research and Collections Services, Canadian Museum of Nature, Ottawa, Ontario, Canada
| | - Roger D. Bull
- Botany Section, Research and Collections Services, Canadian Museum of Nature, Ottawa, Ontario, Canada
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Cosendai AC, Wagner J, Ladinig U, Rosche C, Hörandl E. Geographical parthenogenesis and population genetic structure in the alpine species Ranunculus kuepferi (Ranunculaceae). Heredity (Edinb) 2013; 110:560-9. [PMID: 23403961 PMCID: PMC3656632 DOI: 10.1038/hdy.2013.1] [Citation(s) in RCA: 61] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2012] [Revised: 12/05/2012] [Accepted: 12/19/2012] [Indexed: 11/08/2022] Open
Abstract
Geographical parthenogenesis describes the enigmatic phenomenon that asexual organisms have larger distribution areas than their sexual relatives, especially in previously glaciated areas. Classical models suggest temporary advantages to asexuality in colonization scenarios because of uniparental reproduction and clonality. We analyzed population genetic structure and self-fertility of the plant species Ranunculus kuepferi on 59 populations from the whole distribution area (European Alps, Apennines and Corsica). Amplified fragment length polymorphisms (AFLPs) and five microsatellite loci revealed individual genotypes for all populations and mostly insignificant differences between diploid sexuals and tetraploid apomicts in all measures of genetic diversity. Low frequencies of private AFLP fragments/simple sequence repeat alleles, and character incompatibility analyses suggest that facultative recombination explains best the unexpectedly high genotypic diversity of apomicts. STRUCTURE analyses using AFLPs revealed a higher number of partitions and a stronger geographical subdivision for diploids than for tetraploids, which contradicts expectations of standard gene flow models, but indicates a reduction of genetic structure in asexuals. Apomictic populations exhibited high admixture near the sexual area, but appeared rather uniform in remote areas. Bagging experiments and analyses of pollen tube growth confirmed self-fertility for pollen-dependent apomicts, but self-sterility for diploid sexuals. Facultative apomixis combines advantages of both modes of reproduction: uniparental reproduction allows for rapid colonization of remote areas, whereas facultative sexuality and polyploidy maintains genetic diversity within apomictic populations. The density dependence of outcrossing limits range expansions of sexual populations.
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Affiliation(s)
- A-C Cosendai
- Department of Systematic and Evolutionary Botany, Institute of Botany, University of Vienna, Vienna, Austria
| | - J Wagner
- Institute of Botany, University of Innsbruck, Innsbruck, Austria
| | - U Ladinig
- Institute of Botany, University of Innsbruck, Innsbruck, Austria
| | - C Rosche
- Institute of Biology/Geobotany and Botanical Garden, Martin-Luther-University Halle-Wittenberg, Halle, Germany
| | - E Hörandl
- Department of Systematic Botany, Georg-August-University of Göttingen, Göttingen, Germany
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Liu XQ, Ickert-Bond SM, Chen LQ, Wen J. Molecular phylogeny of Cissus L. of Vitaceae (the grape family) and evolution of its pantropical intercontinental disjunctions. Mol Phylogenet Evol 2013; 66:43-53. [DOI: 10.1016/j.ympev.2012.09.003] [Citation(s) in RCA: 53] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2012] [Revised: 08/28/2012] [Accepted: 09/04/2012] [Indexed: 11/26/2022]
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Cires E, Cuesta C, Vargas P, Fernández Prieto JA. Unravelling the evolutionary history of the polyploid complexRanunculus parnassiifolius(Ranunculaceae). Biol J Linn Soc Lond 2012. [DOI: 10.1111/j.1095-8312.2012.01968.x] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Eduardo Cires
- Departamento de Biología de Organismos y Sistemas; Universidad de Oviedo; Catedrático Rodrigo Uría s/n 33071 Oviedo Spain
| | - Candela Cuesta
- Departamento de Biología de Organismos y Sistemas; Universidad de Oviedo; Catedrático Rodrigo Uría s/n 33071 Oviedo Spain
- Department of Plant Systems Biology; VIB; Technologiepark 927 9052 Ghent Belgium
| | - Pablo Vargas
- Real Jardín Botánico de Madrid; CSIC; Plaza Murillo 2 28014 Madrid Spain
| | - José Antonio Fernández Prieto
- Departamento de Biología de Organismos y Sistemas; Universidad de Oviedo; Catedrático Rodrigo Uría s/n 33071 Oviedo Spain
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Generic phylogeny and historical biogeography of Alismataceae, inferred from multiple DNA sequences. Mol Phylogenet Evol 2012; 63:407-16. [DOI: 10.1016/j.ympev.2012.01.016] [Citation(s) in RCA: 34] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2011] [Revised: 01/13/2012] [Accepted: 01/18/2012] [Indexed: 11/24/2022]
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Chen LY, Chen JM, Gituru RW, Wang QF. Generic phylogeny, historical biogeography and character evolution of the cosmopolitan aquatic plant family Hydrocharitaceae. BMC Evol Biol 2012; 12:30. [PMID: 22404786 PMCID: PMC3317846 DOI: 10.1186/1471-2148-12-30] [Citation(s) in RCA: 36] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/04/2012] [Accepted: 03/10/2012] [Indexed: 11/17/2022] Open
Abstract
Background Hydrocharitaceae is a fully aquatic monocot family, consists of 18 genera with approximately 120 species. The family includes both fresh and marine aquatics and exhibits great diversity in form and habit including annual and perennial life histories; submersed, partially submersed and floating leaf habits and linear to orbicular leaf shapes. The family has a cosmopolitan distribution and is well represented in the Tertiary fossil record in Europe. At present, the historical biogeography of the family is not well understood and the generic relationships remain controversial. In this study we investigated the phylogeny and biogeography of Hydrocharitaceae by integrating fossils and DNA sequences from eight genes. We also conducted ancestral state reconstruction for three morphological characters. Results Phylogenetic analyses produced a phylogeny with most branches strongly supported by bootstrap values greater than 95 and Bayesian posterior probability values of 1.0. Stratiotes is the first diverging lineage with the remaining genera in two clades, one clade consists of Lagarosiphon, Ottelia, Blyxa, Apalanthe, Elodea and Egeria; and the other consists of Hydrocharis-Limnobium, Thalassia, Enhalus, Halophila, Najas, Hydrilla, Vallisneria, Nechamandra and Maidenia. Biogeographic analyses (DIVA, Mesquite) and divergence time estimates (BEAST) resolved the most recent common ancestor of Hydrocharitaceae as being in Asia during the Late Cretaceous and Palaeocene (54.7-72.6 Ma). Dispersals (including long-distance dispersal and migrations through Tethys seaway and land bridges) probably played major roles in the intercontinental distribution of this family. Ancestral state reconstruction suggested that in Hydrocharitaceae evolution of dioecy is bidirectional, viz., from dioecy to hermaphroditism, and from hermaphroditism to dioecy, and that the aerial-submerged leaf habit and short-linear leaf shape are the ancestral states. Conclusions Our study has shed light on the previously controversial generic phylogeny of Hydrocharitaceae. The study has resolved the historical biogeography of this family and supported dispersal as the most likely explanation for the intercontinental distribution. We have also provided valuable information for understanding the evolution of breeding system and leaf phenotype in aquatic monocots.
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Affiliation(s)
- Ling-Yun Chen
- CAS Key Laboratory of Aquatic Botany and Watershed Ecology, Chinese Academy of Sciences, Wuhan 430074, Hubei, P R China
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Nie ZL, Sun H, Manchester SR, Meng Y, Luke Q, Wen J. Evolution of the intercontinental disjunctions in six continents in the Ampelopsis clade of the grape family (Vitaceae). BMC Evol Biol 2012; 12:17. [PMID: 22316163 PMCID: PMC3299610 DOI: 10.1186/1471-2148-12-17] [Citation(s) in RCA: 61] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2011] [Accepted: 02/08/2012] [Indexed: 11/28/2022] Open
Abstract
BACKGROUND The Ampelopsis clade (Ampelopsis and its close allies) of the grape family Vitaceae contains ca. 43 species disjunctly distributed in Asia, Europe, North America, South America, Africa, and Australia, and is a rare example to study both the Northern and the Southern Hemisphere intercontinental disjunctions. We reconstruct the temporal and spatial diversification of the Ampelopsis clade to explore the evolutionary processes that have resulted in their intercontinental disjunctions in six continents. RESULTS The Bayesian molecular clock dating and the likelihood ancestral area analyses suggest that the Ampelopsis clade most likely originated in North America with its crown group dated at 41.2 Ma (95% HPD 23.4-61.0 Ma) in the middle Eocene. Two independent Laurasian migrations into Eurasia are inferred to have occurred in the early Miocene via the North Atlantic land bridges. The ancestor of the Southern Hemisphere lineage migrated from North America to South America in the early Oligocene. The Gondwanan-like pattern of intercontinental disjunction is best explained by two long-distance dispersals: once from South America to Africa estimated at 30.5 Ma (95% HPD 16.9-45.9 Ma), and the other from South America to Australia dated to 19.2 Ma (95% HPD 6.7-22.3 Ma). CONCLUSIONS The global disjunctions in the Ampelopsis clade are best explained by a diversification model of North American origin, two Laurasian migrations, one migration into South America, and two post-Gondwanan long-distance dispersals. These findings highlight the importance of both vicariance and long distance dispersal in shaping intercontinental disjunctions of flowering plants.
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Affiliation(s)
- Ze-Long Nie
- Key Laboratory of Biodiversity and Biogeography, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan 650204, China
- Department of Botany, National Museum of Natural History, MRC 166, Smithsonian Institution, Washington, DC 20013-7012, USA
| | - Hang Sun
- Key Laboratory of Biodiversity and Biogeography, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan 650204, China
| | - Steven R Manchester
- Florida Museum of Natural History, University of Florida, Gainesville, FL 32611, USA
| | - Ying Meng
- Key Laboratory of Biodiversity and Biogeography, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan 650204, China
- Institute of Tibetan Plateau Research at Kunming, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, Yunnan 650204, China
| | - Quentin Luke
- East African Herbarium, National Museums of Kenya, Nairobi 00502, Kenya
| | - Jun Wen
- Department of Botany, National Museum of Natural History, MRC 166, Smithsonian Institution, Washington, DC 20013-7012, USA
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