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Kavalco KF, Pasa R. Chromosomal Radiation: A model to explain karyotypic diversity in cryptic species. Genet Mol Biol 2023; 46:e20230116. [PMID: 37815421 PMCID: PMC10563172 DOI: 10.1590/1678-4685-gmb-2023-0116] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2023] [Accepted: 08/22/2023] [Indexed: 10/11/2023] Open
Abstract
We present a concept that explains the pattern of occurrence of widely distributed organisms with large chromosomal diversity, large or small molecular divergence, and the insufficiency or absence of morphological identity. Our model is based on cytogenetic studies associated with molecular and biological data and can be applied to any lineage of sister species, chronospecies, or cryptic species. Through the evaluation of the karyotypic macrostructure, as the physical location of genes e satellites DNAs, in addition to phylogenetic reconstructions from mitochondrial and nuclear genes, per example, we have observed morphologically indistinguishable individuals presenting different locally fixed karyomorphs with phylogeographic discontinuity. The biological process behind this pattern is seen in many groups of cryptic species, in which variation lies mainly in the organization of their genomes but not necessarily in the ecosystems they inhabit or in their external morphology. It's similar to the processes behind other events observed in the distribution of lineages. In this work, we explore the hypothesis of a process analogous to ecological-evolutionary radiation, which we called Chromosomal Radiation. Chromosomal Radiation can be adaptive or non-adaptive and applied to different groups of organisms.
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Affiliation(s)
- Karine Frehner Kavalco
- Universidade Federal de Viçosa, Instituto de Ciências Biológicas e da Saúde, Laboratório de Genética Ecológica e Evolutiva (LaGEEvo), Campus Rio Paranaíba, Rio Paranaíba, MG, Brazil
- Universidade Federal de Viçosa, Instituto de Ciências Biológicas e da Saúde, Laboratório de Bioinformática e Genômica, Campus Rio Paranaíba, Rio Paranaíba, MG, Brazil
| | - Rubens Pasa
- Universidade Federal de Viçosa, Instituto de Ciências Biológicas e da Saúde, Laboratório de Genética Ecológica e Evolutiva (LaGEEvo), Campus Rio Paranaíba, Rio Paranaíba, MG, Brazil
- Universidade Federal de Viçosa, Instituto de Ciências Biológicas e da Saúde, Laboratório de Bioinformática e Genômica, Campus Rio Paranaíba, Rio Paranaíba, MG, Brazil
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Comprehensive cytogenetic analysis of the most chromosomally variable mammalian genus from South America: Ctenomys (Rodentia: Caviomorpha: Ctenomyidae). Mamm Biol 2022. [DOI: 10.1007/s42991-022-00312-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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3
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Brito JC, Sow AS, Vale CG, Pizzigalli C, Hamidou D, Gonçalves DV, Martínez-Freiría F, Santarém F, Rebelo H, Campos JC, Pleguezuelos JM, Ferreira da Silva MJ, Naia M, Tarroso P, Godinho R, Silva TL, Macedo T, Boratyński Z, Sidatt ZEA, Álvares F. Diversity, distribution and conservation of land mammals in Mauritania, North-West Africa. PLoS One 2022; 17:e0269870. [PMID: 35913972 PMCID: PMC9342785 DOI: 10.1371/journal.pone.0269870] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2022] [Accepted: 05/27/2022] [Indexed: 11/18/2022] Open
Abstract
Detailed knowledge about biodiversity distribution is critical for monitoring the biological effects of global change processes. Biodiversity knowledge gaps hamper the monitoring of conservation trends and they are especially evident in the desert biome. Mauritania constitutes a remarkable example on how remoteness and regional insecurity affect current knowledge gaps. Mammals remain one of the least studied groups in this country, without a concerted species checklist, the mapping of regions concentrating mammal diversity, or a national assessment of their conservation status. This work assessed the diversity, distribution, and conservation of land mammals in Mauritania. A total of 6,718 published and original observations were assembled in a spatial database and used to update the occurrence status, distribution area, and conservation status. The updated taxonomic list comprises 107 species, including 93 extant, 12 Regionally Extinct, and 2 Extinct in the Wild. Mapping of species distributions allowed locating concentrations of extant mammal species richness in coastal areas, along the Senegal River valley, and in mountain plateaus. Recent regional extinction of large-sized Artiodactyla and Carnivora has been very high (11% extinct species). From the extant mammals, 11% are threatened, including flagship species (e.g., Addax nasomaculatus and Panthera pardus). Species richness is poorly represented by the current protected areas. Despite the strong advances made, 23% of species categorise as Data Deficient. Persisting systematics and distribution uncertainties require further research. Field surveys in currently unexplored areas (northern and south-eastern regions) are urgently needed to increase knowledge about threatened mammals. The long-term conservation of land mammals in Mauritania is embedded in a complex web of socioeconomic and environmental factors that call for collaborative action and investment in sustainable human development. The current work sets the baseline for the future development of detailed research studies and to address the general challenges faced by mammals and biodiversity in the country.
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Affiliation(s)
- José Carlos Brito
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Campus de Vairão, Universidade do Porto, Vairão, Portugal
- BIOPOLIS Program in Genomics, Biodiversity and Land Planning, CIBIO, Vairão, Portugal
- Departamento de Biologia, Faculdade de Ciências, Universidade do Porto, Porto, Portugal
- * E-mail:
| | - Andack Saad Sow
- Green Sahel Expertise: Bureau d’Études Spécialise en Environnement, Nouakchott, R.I. Mauritanie
| | - Cândida Gomes Vale
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Campus de Vairão, Universidade do Porto, Vairão, Portugal
| | - Cristian Pizzigalli
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Campus de Vairão, Universidade do Porto, Vairão, Portugal
- BIOPOLIS Program in Genomics, Biodiversity and Land Planning, CIBIO, Vairão, Portugal
- Departamento de Biologia, Faculdade de Ciências, Universidade do Porto, Porto, Portugal
| | - Dieng Hamidou
- Faculté des Sciences et Techniques, Université des Sciences, de Technologie et de Médecine de Nouakchott, Nouakchott, R.I. Mauritanie
| | - Duarte Vasconcelos Gonçalves
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Campus de Vairão, Universidade do Porto, Vairão, Portugal
| | - Fernando Martínez-Freiría
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Campus de Vairão, Universidade do Porto, Vairão, Portugal
- BIOPOLIS Program in Genomics, Biodiversity and Land Planning, CIBIO, Vairão, Portugal
| | - Frederico Santarém
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Campus de Vairão, Universidade do Porto, Vairão, Portugal
- BIOPOLIS Program in Genomics, Biodiversity and Land Planning, CIBIO, Vairão, Portugal
| | - Hugo Rebelo
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Campus de Vairão, Universidade do Porto, Vairão, Portugal
- BIOPOLIS Program in Genomics, Biodiversity and Land Planning, CIBIO, Vairão, Portugal
| | - João Carlos Campos
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Campus de Vairão, Universidade do Porto, Vairão, Portugal
- BIOPOLIS Program in Genomics, Biodiversity and Land Planning, CIBIO, Vairão, Portugal
| | | | - Maria Joana Ferreira da Silva
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Campus de Vairão, Universidade do Porto, Vairão, Portugal
- BIOPOLIS Program in Genomics, Biodiversity and Land Planning, CIBIO, Vairão, Portugal
| | - Marisa Naia
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Campus de Vairão, Universidade do Porto, Vairão, Portugal
| | - Pedro Tarroso
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Campus de Vairão, Universidade do Porto, Vairão, Portugal
- BIOPOLIS Program in Genomics, Biodiversity and Land Planning, CIBIO, Vairão, Portugal
| | - Raquel Godinho
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Campus de Vairão, Universidade do Porto, Vairão, Portugal
- BIOPOLIS Program in Genomics, Biodiversity and Land Planning, CIBIO, Vairão, Portugal
- Departamento de Biologia, Faculdade de Ciências, Universidade do Porto, Porto, Portugal
- Department of Zoology, University of Johannesburg, Johannesburg, South Africa
| | - Teresa Luísa Silva
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Campus de Vairão, Universidade do Porto, Vairão, Portugal
| | - Tiago Macedo
- Departamento de Biologia, Faculdade de Ciências, Universidade do Porto, Porto, Portugal
| | - Zbyszek Boratyński
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Campus de Vairão, Universidade do Porto, Vairão, Portugal
- BIOPOLIS Program in Genomics, Biodiversity and Land Planning, CIBIO, Vairão, Portugal
| | | | - Francisco Álvares
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Campus de Vairão, Universidade do Porto, Vairão, Portugal
- BIOPOLIS Program in Genomics, Biodiversity and Land Planning, CIBIO, Vairão, Portugal
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The saprotrophic Pleurotus ostreatus species complex: late Eocene origin in East Asia, multiple dispersal, and complex speciation. IMA Fungus 2020; 11:10. [PMID: 32617259 PMCID: PMC7325090 DOI: 10.1186/s43008-020-00031-1] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/13/2019] [Accepted: 03/31/2020] [Indexed: 12/02/2022] Open
Abstract
The Pleurotus ostreatus species complex is saprotrophic and of significant economic and ecological importance. However, species delimitation has long been problematic because of phenotypic plasticity and morphological stasis. In addition, the evolutionary history is poorly understood due to limited sampling and insufficient gene fragments employed for phylogenetic analyses. Comprehensive sampling from Asia, Europe, North and South America and Africa was used to run phylogenetic analyses of the P. ostreatus species complex based on 40 nuclear single-copy orthologous genes using maximum likelihood and Bayesian inference analyses. Here, we present a robust phylogeny of the P. ostreatus species complex, fully resolved from the deepest nodes to species level. The P. ostreatus species complex was strongly supported as monophyletic, and 20 phylogenetic species were recognized, with seven putatively new species. Data from our molecular clock analyses suggested that divergence of the genus Pleurotus probably occurred in the late Jurassic, while the most recent common ancestor of the P. ostreatus species complex diversified about 39 Ma in East Asia. Species of the P. ostreatus complex might migrate from the East Asia into North America across the North Atlantic Land Bridge or the Bering Land Bridge at different times during the late Oligocene, late Miocene and late Pliocene, and then diversified in the Old and New Worlds simultaneously through multiple dispersal and vicariance events. The dispersal from East Asia to South America in the middle Oligocene was probably achieved by a long-distance dispersal event. Intensification of aridity and climate cooling events in the late Miocene and Quaternary glacial cycling probably had a significant influence on diversification patterns of the complex. The disjunctions among East Asia, Europe, North America and Africa within Clade IIc are hypothesized to be a result of allopatric speciation. Substrate transitions to Apiaceae probably occurred no earlier than 6 Ma. Biogeographic analyses suggested that the global cooling of the late Eocene, intensification of aridity caused by rapid uplift of the QTP and retreat of the Tethys Sea in the late Miocene, climate cooling events in Quaternary glacial cycling, and substrate transitions have contributed jointly to diversification of the species complex.
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5
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The Highest Chromosome Number and First Chromosome Fluorescent in situ Hybridization in the velvet worms of the family Peripatidae. Zool Stud 2020; 59:e5. [PMID: 32346453 DOI: 10.6620/zs.2020.59-5] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2019] [Accepted: 01/22/2020] [Indexed: 11/18/2022]
Abstract
The diversity of Onychophora is poorly studied, despite there being nearly 200 described species divided in two families: Peripatidae and Peripatopsidae. Peripatid velvet worms are found mainly in the Neotropical region. The low morphological diversity in Peripatidae is an obstacle to determining its taxonomy, and chromosomal analyses can help clarify this. The aim of this work was to chromosomally analyze one species of Epiperipatus from Mato Grosso do Sul, Brazil. Conventional staining and telomeric fluorescent in situ hybridization (FISH) were performed with the gonads of three males of Epiperipatus sp. The specimens showed 2n♂ = 73, the largest diploid number found in Onychophora to date, with the majority of chromosomes acro/telocentrics and the largest element submetacentric. The FISH marked the telomeric region of all elements and revealed one Interstitial Telomeric Site (ITS) on the proximal region of the long arm large submetacentric chromosome. The absence of male meiosis and female cell division in the analyzed specimens prevented us from determining whether the unpaired large submetacentric is a sex chromosome, which could lead to the description of a rare sex chromosome system (SCS) in Onychophora, or a case of fusion between autosomes. In either case, the presence of ITS is a clear indication of chromosomal fusion.
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Liu X, Yu X, Xu Y, Du X, Huo X, Li C, Lv J, Guo M, Lu J, Chen Z. Development of an effective microsatellite marker system to determine the genetic structure of Meriones meridianus populations. Exp Anim 2020; 69:224-232. [PMID: 32062628 PMCID: PMC7220706 DOI: 10.1538/expanim.19-0077] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022] Open
Abstract
Understanding the genetic quality of the gerbil, Meriones meridianus,
plays an important role in the study of medical biology. However, no effective system has
been established for evaluating a population’s genetic diversity to date. In the present
study, we established a set of reasonable evaluative systems based on microsatellite
markers of the Mongolian gerbil by using the method of cross-amplification of species.
Following electrophoresis analysis, short tandem repeat (STR) scanning, and sequencing, 11
microsatellite loci were identified by matching the criteria characteristics and were used
to evaluate the genetic diversity of two stocks of Meriones meridianus: Meriones
meridianus jei Wang, 1964 (M. m. jei) and Meriones
meridianus cryptorhinus Blanford, 1875 (M. m. cryptorhinus)
from Xinjiang, China. The microsatellite loci screened were highly polymorphic and were
suitable for genetic quality control of Meriones meridianus. In addition,
the quality of the non-bred M. m. jei and M. m.
cryptorhinus strains in our study is sufficient for them to be promising stocks
in the future for the farmed animal industry.
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Affiliation(s)
- Xin Liu
- Department of Medical Genetics and Developmental Biology, Capital Medical University, No. 10 Xitoutiao, Youanmen, Fengtai District, Beijing 100069, P.R. China
| | - Xiuyi Yu
- Department of Medical Genetics and Developmental Biology, Capital Medical University, No. 10 Xitoutiao, Youanmen, Fengtai District, Beijing 100069, P.R. China
| | - Yimei Xu
- Center for Laboratory Animal Research of Xinjiang, Center for Disease Control of Xinjiang, No. 138, Jianquan Yi Jie, Tianshan District, Urumqi City, Xinjiang Uygur Autonomous Region, 830011, P.R. China
| | - Xiaoyan Du
- Department of Medical Genetics and Developmental Biology, Capital Medical University, No. 10 Xitoutiao, Youanmen, Fengtai District, Beijing 100069, P.R. China
| | - Xueyun Huo
- Department of Medical Genetics and Developmental Biology, Capital Medical University, No. 10 Xitoutiao, Youanmen, Fengtai District, Beijing 100069, P.R. China
| | - Changlong Li
- Department of Medical Genetics and Developmental Biology, Capital Medical University, No. 10 Xitoutiao, Youanmen, Fengtai District, Beijing 100069, P.R. China
| | - Jianyi Lv
- Department of Medical Genetics and Developmental Biology, Capital Medical University, No. 10 Xitoutiao, Youanmen, Fengtai District, Beijing 100069, P.R. China
| | - Meng Guo
- Department of Medical Genetics and Developmental Biology, Capital Medical University, No. 10 Xitoutiao, Youanmen, Fengtai District, Beijing 100069, P.R. China
| | - Jing Lu
- Department of Medical Genetics and Developmental Biology, Capital Medical University, No. 10 Xitoutiao, Youanmen, Fengtai District, Beijing 100069, P.R. China
| | - Zhenwen Chen
- Department of Medical Genetics and Developmental Biology, Capital Medical University, No. 10 Xitoutiao, Youanmen, Fengtai District, Beijing 100069, P.R. China
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Mikula O, Nicolas V, Boratyński Z, Denys C, Dobigny G, Fichet-Calvet E, Gagaré S, Hutterer R, Nimo-Paintsil SC, Olayemi A, Bryja J. Commensalism outweighs phylogeographical structure in its effect on phenotype of a Sudanian savanna rodent. Biol J Linn Soc Lond 2020. [DOI: 10.1093/biolinnean/blz184] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]
Abstract
Abstract
The murid rodent Praomys daltoni is widespread in Sudanian savanna and woodlands of West Africa, and previous study of mitochondrial DNA variability suggested that it encompasses the phenotypically (small, grey-bellied) and ecologically (commensal) distinct form, Praomys derooi. Here, we comprehensively examined the genetic and morphological diversity within the complex. Six mitochondrial lineages showed a fine-scale phylogeographical pattern, whereas delimitation based on nuclear loci pooled four of them into a single widespread unit. A newly discovered lineage from southern Mauritania stands apart from the rest of the complex and might represent an unrecognized species. At the same time, the internal position of P. derooi (C2 mitochondrial lineage) was confirmed by the multilocus analysis. The magnitude of genetic distances between major phylogeographical lineages was typical for interspecific divergence in other clades of Praomys, despite the little differences among them in morphology (skull and upper molar row shapes). The most pronounced morphological shift was associated with a transition to commensalism, especially in P. derooi, but also in other lineages. This makes the whole complex a suitable model for the study of phenotypic novelty, the evolution of commensalism and conditions for ecological speciation.
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Affiliation(s)
- Ondřej Mikula
- Institute of Vertebrate Biology, Czech Academy of Sciences, Brno, Czech Republic
- Institute of Animal Physiology and Genetics, Czech Academy of Sciences, Brno, Czech Republic
- Faculty of Science, University of South Bohemia, České Budějovice, Czech Republic
| | - Violaine Nicolas
- Muséum National d’Histoire Naturelle, Institute of Systematics and Evolution of the Biodiversity, UMR7205 CNRS-MNHN-UPMC-EPHE-Sorbonne University, Paris, France
| | - Zbyszek Boratyński
- CIBIO-InBIO Associate Laboratory, Research Center in Biodiversity and Genetic Resources, University of Porto, Vairão, Portugal
| | - Christiane Denys
- Muséum National d’Histoire Naturelle, Institute of Systematics and Evolution of the Biodiversity, UMR7205 CNRS-MNHN-UPMC-EPHE-Sorbonne University, Paris, France
| | - Gauthier Dobigny
- CBGP, IRD, CIRAD, INRA, Montpellier SupAgro, University of Montpellier, Montpellier, France
- Ecole Polytechnique d’Abomey-Calavi, Abomey-Calavi University, Cotonou, Benin
| | | | - Sama Gagaré
- Centre Régional Agrhymet, Département Formation Recherche, Niamey, Niger
| | - Rainer Hutterer
- Zoologisches Forschungsinstitut und Museum Alexander Koenig, Bonn, Germany
| | | | - Ayodeji Olayemi
- Natural History Museum, Obafemi Awolowo University, Ile Ife, Osun State, Nigeria
| | - Josef Bryja
- Institute of Vertebrate Biology, Czech Academy of Sciences, Brno, Czech Republic
- Department of Botany and Zoology, Faculty of Science, Masaryk University, Brno, Czech Republic
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Bryja J, Meheretu Y, Šumbera R, Lavrenchenko LA. Annotated checklist, taxonomy and distribution of rodents in Ethiopia. FOLIA ZOOLOGICA 2019. [DOI: 10.25225/fozo.030.2019] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Affiliation(s)
- Josef Bryja
- Institute of Vertebrate Biology, Czech Academy of Sciences, Květná 8, 603 65 Brno, Czech Republic; e-mail:
| | - Yonas Meheretu
- Department of Biology and Institute of Mountain Research & Development, Mekelle University, Ethiopia; e-mail:
| | - Radim Šumbera
- Department of Zoology, Faculty of Science, University of South Bohemia, České Budějovice, Czech Republic; e-mail:
| | - Leonid A. Lavrenchenko
- A. N. Severtsov Institute of Ecology and Evolution of the Russian Academy of Sciences, Moscow, Russia; e-mail:
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Bryja J, Colangelo P, Lavrenchenko LA, Meheretu Y, Šumbera R, Bryjová A, Verheyen E, Leirs H, Castiglia R. Diversity and evolution of African Grass Rats (Muridae:
Arvicanthis
)—From radiation in East Africa to repeated colonization of northwestern and southeastern savannas. J ZOOL SYST EVOL RES 2019. [DOI: 10.1111/jzs.12290] [Citation(s) in RCA: 25] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
Affiliation(s)
- Josef Bryja
- Institute of Vertebrate Biology of the Czech Academy of Sciences Brno Czech Republic
- Department of Botany and Zoology, Faculty of Science Masaryk University Brno Czech Republic
| | - Paolo Colangelo
- National Research Council Institute of Agro‐environmental and Forest Biology (CNR‐IBAF) Rome Italy
| | - Leonid A. Lavrenchenko
- A.N.Severtsov Institute of Ecology and Evolution of the Russian Academy of Sciences Moscow Russia
| | - Yonas Meheretu
- Department of Biology, Institute of Mountain Research and Development Mekelle University Mekelle Ethiopia
| | - Radim Šumbera
- Department of Zoology, Faculty of Science University of South Bohemia České Budějovice Czech Republic
| | - Anna Bryjová
- Institute of Vertebrate Biology of the Czech Academy of Sciences Brno Czech Republic
| | - Erik Verheyen
- Operational Direction Taxonomy and Phylogeny Royal Belgian Institute for Natural Sciences Brussels Belgium
- Evolutionary Ecology Group, Biology Department University of Antwerp Antwerp Belgium
| | - Herwig Leirs
- Evolutionary Ecology Group, Biology Department University of Antwerp Antwerp Belgium
| | - Riccardo Castiglia
- Department of Biology and Biotechnology “Charles Darwin” Sapienza University of Rome Rome Italy
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10
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Intraspecific genetic diversity and distribution of North African hedgehogs (Mammalia: Erinaceidae). Biol J Linn Soc Lond 2019. [DOI: 10.1093/biolinnean/blz030] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]
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11
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Gonçalves DV, Martínez-Freiría F, Crochet PA, Geniez P, Carranza S, Brito JC. The role of climatic cycles and trans-Saharan migration corridors in species diversification: Biogeography of Psammophis schokari group in North Africa. Mol Phylogenet Evol 2018; 118:64-74. [DOI: 10.1016/j.ympev.2017.09.009] [Citation(s) in RCA: 27] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2016] [Revised: 09/06/2017] [Accepted: 09/13/2017] [Indexed: 11/27/2022]
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12
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Řezáč M, Arnedo MA, Opatova V, Musilová J, Řezáčová V, Král J. Taxonomic revision and insights into the speciation mode of the spider Dysdera erythrina species-complex (Araneae : Dysderidae): sibling species with sympatric distributions. INVERTEBR SYST 2018. [DOI: 10.1071/is16071] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
The genus Dysdera Latreille, 1804, a species-rich group of spiders that includes specialised predators of woodlice, contains several complexes of morphologically similar sibling species. Here we investigate species limits in the D. erythrina (Walckenaer, 1802) complex by integrating phenotypic, cytogenetic and molecular data, and use this information to gain further knowledge on its origin and evolution. We describe 16 new species and redescribe four poorly known species belonging to this clade. The distribution of most of the species in the complex is limited to southern France and the north-eastern Iberian Peninsula. The species studied do not show any obvious differences in habitat preference, and some of them even occur sympatrically at certain sites. They probably feed on the same type of prey as they readily capture woodlice. On the other hand, they differ in body size, mouthparts shape, sculpturing of carapace, morphology of the copulatory organs, karyotype and DNA sequences. Experimental interspecific mating showed a partial precopulatory behavioural barrier between D. erythrina and D. cechica, sp. nov. Our data suggest that karyotype evolution of the complex included chromosome fusions and fissions as well as translocations (between autosomes as well as autosomes and sex chromosomes). We hypothesise that chromosome rearrangements generating reproductive incompatibility played a primary role in speciation within Dysdera complexes. Dysdera spiders are poor dispersers, and their original distribution areas (forested areas in the Mediterranean) were repeatedly fragmented during Quarternary climatic oscillations, facilitating integration of chromosome rearrangements into karyotypes by genetic drift. Sympatric occurrence of closely related species may have been promoted by prey segregation as suggested by differentiation in body size in co-occurring species. The following new species are described: D. catalonica, sp. nov., D. cechica, D. dolanskyi, sp. nov., D. fabrorum, sp. nov., D. garrafensis, sp. nov., D. graia, sp. nov., D. kropfi, sp. nov., D. minairo, sp. nov., D. portsensis, sp. nov., D. pradesensis, sp. nov., D. pyrenaica, sp. nov., D. quindecima, sp. nov., D. septima, sp. nov., D. stahlavskyi, sp. nov., D. tredecima, sp. nov. and D. undecima, sp. nov.
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13
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Lukhtanov VA, Shapoval NA. Chromosomal identification of cryptic species sharing their DNA barcodes: Polyommatus (Agrodiaetus) antidolus and P. (A.) morgani in Iran (Lepidoptera, Lycaenidae). COMPARATIVE CYTOGENETICS 2017; 11:759-768. [PMID: 29302296 PMCID: PMC5740395 DOI: 10.3897/compcytogen.v11i4.20876] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/08/2017] [Accepted: 11/08/2017] [Indexed: 05/26/2023]
Abstract
DNA barcoding has been suggested as a universal tool for molecular species identification; however, it cannot be applied in cases when morphologically similar species share their DNA barcodes due to the common ancestry or mitochondrial introgression. Here we analyze the karyotype of Polyommatus (Agrodiaetus) morgani (Le Cerf, 1909) from the region of its type locality in the southern Zagros Mountains in Iran, provide first chromosomal evidence for P. (A.) antidolus (Rebel, 1901) in Iran and demonstrate that these two species can be easily identified through analysis of their karyotypes whereas they share their mitochondrial barcodes.
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Affiliation(s)
- Vladimir A. Lukhtanov
- Department of Karyosystematics, Zoological Institute of Russian Academy of Sciences, Universitetskaya nab. 1, St. Petersburg 199034, Russia
- Department of Entomology, Faculty of Biology, St. Petersburg State University, Universitetskaya nab. 7/9, St. Petersburg 199034, Russia
| | - Nazar A. Shapoval
- Department of Karyosystematics, Zoological Institute of Russian Academy of Sciences, Universitetskaya nab. 1, St. Petersburg 199034, Russia
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Ben Faleh A, Allaya H, Aleem Basyouny Shahin AA. Geographic patterns of genetic variation in the greater Egyptian jerboa Jaculus orientalis (Dipodidae, Rodentia) from Tunisia. BIOCHEM SYST ECOL 2016. [DOI: 10.1016/j.bse.2016.06.015] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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15
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Dobigny G, Britton-Davidian J, Robinson TJ. Chromosomal polymorphism in mammals: an evolutionary perspective. Biol Rev Camb Philos Soc 2015; 92:1-21. [PMID: 26234165 DOI: 10.1111/brv.12213] [Citation(s) in RCA: 49] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2014] [Revised: 06/23/2015] [Accepted: 07/09/2015] [Indexed: 12/28/2022]
Abstract
Although chromosome rearrangements (CRs) are central to studies of genome evolution, our understanding of the evolutionary consequences of the early stages of karyotypic differentiation (i.e. polymorphism), especially the non-meiotic impacts, is surprisingly limited. We review the available data on chromosomal polymorphisms in mammals so as to identify taxa that hold promise for developing a more comprehensive understanding of chromosomal change. In doing so, we address several key questions: (i) to what extent are mammalian karyotypes polymorphic, and what types of rearrangements are principally involved? (ii) Are some mammalian lineages more prone to chromosomal polymorphism than others? More specifically, do (karyotypically) polymorphic mammalian species belong to lineages that are also characterized by past, extensive karyotype repatterning? (iii) How long can chromosomal polymorphisms persist in mammals? We discuss the evolutionary implications of these questions and propose several research avenues that may shed light on the role of chromosome change in the diversification of mammalian populations and species.
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Affiliation(s)
- Gauthier Dobigny
- Institut de Recherche pour le Développement, Centre de Biologie pour la Gestion des Populations (UMR IRD-INRA-Cirad-Montpellier SupAgro), Campus International de Baillarguet, CS30016, 34988, Montferrier-sur-Lez, France
| | - Janice Britton-Davidian
- Institut des Sciences de l'Evolution, Université de Montpellier, CNRS, IRD, EPHE, Cc065, Place Eugène Bataillon, 34095, Montpellier Cedex 5, France
| | - Terence J Robinson
- Evolutionary Genomics Group, Department of Botany and Zoology, Stellenbosch University, Private Bag X1, Matieland, Stellenbosch, 7062, South Africa
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16
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Jacquet F, Denys C, Verheyen E, Bryja J, Hutterer R, Kerbis Peterhans JC, Stanley WT, Goodman SM, Couloux A, Colyn M, Nicolas V. Phylogeography and evolutionary history of the Crocidura olivieri complex (Mammalia, Soricomorpha): from a forest origin to broad ecological expansion across Africa. BMC Evol Biol 2015; 15:71. [PMID: 25900417 PMCID: PMC4422046 DOI: 10.1186/s12862-015-0344-y] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/11/2014] [Accepted: 03/30/2015] [Indexed: 12/18/2022] Open
Abstract
Background This study aims to reconstruct the evolutionary history of African shrews referred to the Crocidura olivieri complex. We tested the respective role of forest retraction/expansion during the Pleistocene, rivers (allopatric models), ecological gradients (parapatric model) and anthropogenic factors in explaining the distribution and diversification within this species complex. We sequenced three mitochondrial and four nuclear markers from 565 specimens encompassing the known distribution of the complex, i.e. from Morocco to Egypt and south to Mozambique. We used Bayesian phylogenetic inference, genetic structure analyses and divergence time estimates to assess the phylogenetic relationships and evolutionary history of these animals. Results The C. olivieri complex (currently composed of C. olivieri, C. fulvastra, C. viaria and C. goliath) can be segregated into eight principal geographical clades, most exhibiting parapatric distributions. A decrease in genetic diversity was observed between central and western African clades and a marked signal of population expansion was detected for a broadly distributed clade occurring across central and eastern Africa and portions of Egypt (clade IV). The main cladogenesis events occurred within the complex between 1.37 and 0.48 Ma. Crocidura olivieri sensu stricto appears polyphyletic and C. viaria and C. fulvastra were not found to be monophyletic. Conclusions Climatic oscillations over the Pleistocene probably played a major role in shaping the genetic diversity within this species complex. Different factors can explain their diversification, including Pleistocene forest refuges, riverine barriers and differentiation along environmental gradients. The earliest postulated members of the complex originated in central/eastern Africa and the first radiations took place in rain forests of the Congo Basin. A dramatic shift in the ecological requirements in early members of the complex, in association with changing environments, took place sometime after 1.13 Ma. Some lineages then colonized a substantial portion of the African continent, including a variety of savannah and forest habitats. The low genetic divergence of certain populations, some in isolated localities, can be explained by their synanthropic habits. This study underlines the need to revise the taxonomy of the C. olivieri complex. Electronic supplementary material The online version of this article (doi:10.1186/s12862-015-0344-y) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- François Jacquet
- Institut de Systématique, Évolution, Biodiversité, ISYEB UMR 7205 - CNRS, MNHN, UPMC, EPHE, Muséum National d'Histoire Naturelle, Sorbonne Universités, 57 rue Cuvier, CP 51, 75005, Paris, France.
| | - Christiane Denys
- Institut de Systématique, Évolution, Biodiversité, ISYEB UMR 7205 - CNRS, MNHN, UPMC, EPHE, Muséum National d'Histoire Naturelle, Sorbonne Universités, 57 rue Cuvier, CP 51, 75005, Paris, France.
| | - Erik Verheyen
- Royal Belgian Institute of Natural Sciences, Operational Direction Taxonomy and Phylogeny, Molecular Laboratory, Vautierstraat 29, 1000, Brussels, Belgium. .,Biology Department, University of Antwerpen, Evolutionary Ecology Group, Groenenborgerlaan 171, 2020, Antwerpen, Belgium.
| | - Josef Bryja
- Institute of Vertebrate Biology ASCR, Academy of Sciences of the Czech Republic, Květná 8, 603 65, Brno, Czech Republic. .,Department of Botany and Zoology, Faculty of Science, Masaryk University, Kotlářská 2, 611 37, Brno, Czech Republic.
| | - Rainer Hutterer
- Zoologisches Forschungmuseum Alexander Koenig, Adenauerallee 160, D-53113, Bonn, Germany.
| | - Julian C Kerbis Peterhans
- College of Professional Studies, Roosevelt University, 430 S Michigan Avenue, Chicago, IL, 60605, USA. .,Field Museum of Natural History, 1400 South Lake Shore Drive, Chicago, IL, 60605, USA.
| | - William T Stanley
- Field Museum of Natural History, 1400 South Lake Shore Drive, Chicago, IL, 60605, USA.
| | - Steven M Goodman
- Field Museum of Natural History, 1400 South Lake Shore Drive, Chicago, IL, 60605, USA. .,Association Vahatra, BP 3972, Antananarivo, 101, Madagascar.
| | - Arnaud Couloux
- Génoscope, Centre National de Séquençage, 2 rue Gaston Crémieux, CP5706, 91057, Evry Cedex, France.
| | - Marc Colyn
- Université de Rennes 1, CNRS, UMR 6553 Ecobio, Station Biologique, 35380, Paimpont, France.
| | - Violaine Nicolas
- Institut de Systématique, Évolution, Biodiversité, ISYEB UMR 7205 - CNRS, MNHN, UPMC, EPHE, Muséum National d'Histoire Naturelle, Sorbonne Universités, 57 rue Cuvier, CP 51, 75005, Paris, France.
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17
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Barrientos R, Kvist L, Barbosa A, Valera F, Khoury F, Varela S, Moreno E. Refugia, colonization and diversification of an arid-adapted bird: coincident patterns between genetic data and ecological niche modelling. Mol Ecol 2013; 23:390-407. [PMID: 24215522 DOI: 10.1111/mec.12588] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2012] [Revised: 11/05/2013] [Accepted: 11/06/2013] [Indexed: 11/30/2022]
Abstract
Phylogeographical studies are common in boreal and temperate species from the Palaearctic, but scarce in arid-adapted species. We used nuclear and mitochondrial markers to investigate phylogeography and to estimate chronology of colonization events of the trumpeter finch Bucanetes githagineus, an arid-adapted bird. We used 271 samples from 16 populations, most of which were fresh samples but including some museum specimens. Microsatellite data showed no clear grouping according to the sampling locations. Microsatellite and mitochondrial data showed the clearest differentiation between Maghreb and Canary Islands and between Maghreb and Western Sahara. Mitochondrial data suggest differentiation between different Maghreb populations and among Maghreb and Near East populations, between Iberian Peninsula and Canary Islands, as well as between Western Sahara and Maghreb. Our coalescence analyses indicate that the trumpeter finch colonized North Africa during the humid Marine Isotope Stage 5 (MIS5) period of the Sahara region 125 000 years ago. We constructed an ecological niche model (ENM) to estimate the geographical distribution of climatically suitable habitats for the trumpeter finch. We tested whether changes in the species range in relation to glacial-interglacial cycles could be responsible for observed patterns of genetic diversity and structure. Modelling results matched with those from genetic data as the species' potential range increases in interglacial scenarios (in the present climatic scenario and during MIS5) and decreases in glacial climates (during the last glacial maximum, LGM, 21 000 years ago). Our results suggest that the trumpeter finch responded to Pleistocene climatic changes by expanding and contracting its range.
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Affiliation(s)
- Rafael Barrientos
- Estación Experimental de Zonas Áridas (EEZA-CSIC), Ctra. de Sacramento s/n, La Cañada de San Urbano, E-04120, Almería, Spain
| | - Laura Kvist
- Department of Biology, University of Oulu, POB 3000, FIN-90014, Oulu, Finland
| | - Andrés Barbosa
- Estación Experimental de Zonas Áridas (EEZA-CSIC), Ctra. de Sacramento s/n, La Cañada de San Urbano, E-04120, Almería, Spain
| | - Francisco Valera
- Estación Experimental de Zonas Áridas (EEZA-CSIC), Ctra. de Sacramento s/n, La Cañada de San Urbano, E-04120, Almería, Spain
| | - Fares Khoury
- Department of Biology and Biotechnology, American University of Madaba, Madaba, Jordan
| | - Sara Varela
- Department of Ecology, Faculty of Science, Charles University, Viničná, 7, 128 44, Praha 2, Praha, Czech Republic
| | - Eulalia Moreno
- Estación Experimental de Zonas Áridas (EEZA-CSIC), Ctra. de Sacramento s/n, La Cañada de San Urbano, E-04120, Almería, Spain
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18
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Trape JF, Diatta G, Arnathau C, Bitam I, Sarih M, Belghyti D, Bouattour A, Elguero E, Vial L, Mané Y, Baldé C, Pugnolle F, Chauvancy G, Mahé G, Granjon L, Duplantier JM, Durand P, Renaud F. The epidemiology and geographic distribution of relapsing fever borreliosis in West and North Africa, with a review of the Ornithodoros erraticus complex (Acari: Ixodida). PLoS One 2013; 8:e78473. [PMID: 24223812 PMCID: PMC3817255 DOI: 10.1371/journal.pone.0078473] [Citation(s) in RCA: 96] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2013] [Accepted: 09/06/2013] [Indexed: 12/02/2022] Open
Abstract
BACKGROUND Relapsing fever is the most frequent bacterial disease in Africa. Four main vector / pathogen complexes are classically recognized, with the louse Pediculus humanus acting as vector for B. recurrentis and the soft ticks Ornithodoros sonrai, O. erraticus and O. moubata acting as vectors for Borrelia crocidurae, B. hispanica and B. duttonii, respectively. Our aim was to investigate the epidemiology of the disease in West, North and Central Africa. METHODS AND FINDINGS From 2002 to 2012, we conducted field surveys in 17 African countries and in Spain. We investigated the occurrence of Ornithodoros ticks in rodent burrows in 282 study sites. We collected 1,629 small mammals that may act as reservoir for Borrelia infections. Using molecular methods we studied genetic diversity among Ornithodoros ticks and Borrelia infections in ticks and small mammals. Of 9,870 burrows investigated, 1,196 (12.1%) were inhabited by Ornithodoros ticks. In West Africa, the southern and eastern limits of the vectors and Borrelia infections in ticks and small mammals were 13°N and 01°E, respectively. Molecular studies revealed the occurrence of nine different Ornithodoros species, including five species new for science, with six of them harboring Borrelia infections. Only B. crocidurae was found in West Africa and three Borrelia species were identified in North Africa: B. crocidurae, B. hispanica, and B. merionesi. CONCLUSIONS Borrelia Spirochetes responsible for relapsing fever in humans are highly prevalent both in Ornithodoros ticks and small mammals in North and West Africa but Ornithodoros ticks seem absent south of 13°N and small mammals are not infected in these regions. The number of Ornithodoros species acting as vector of relapsing fever is much higher than previously known.
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Affiliation(s)
- Jean-François Trape
- Institut de recherche pour le développement, Laboratoire de Paludologie Et Zoologie Médicale, Dakar, Senegal
| | - Georges Diatta
- Institut de recherche pour le développement, Laboratoire de Paludologie Et Zoologie Médicale, Dakar, Senegal
| | - Céline Arnathau
- Institut de Recherche pour le Développement, UMR (CNRS IRD) MIVEGEC, Montpellier, France
| | - Idir Bitam
- Institut Pasteur d’Algérie, Laboratoire d’Écologie des Systèmes Vectoriels, Algiers, Algeria
| | - M’hammed Sarih
- Institut Pasteur du Maroc, Laboratoire des Maladies Vectorielles, Casablanca, Morocco
| | - Driss Belghyti
- Université Ibn Tofail, Département de Biologie, Faculté des Sciences, Kénitra, Morocco
| | - Ali Bouattour
- Institut Pasteur de Tunis, Service d’Entomologie Médicale, Tunis, Tunisia
| | - Eric Elguero
- Institut de Recherche pour le Développement, UMR (CNRS IRD) MIVEGEC, Montpellier, France
| | - Laurence Vial
- Institut de recherche pour le développement, Laboratoire de Paludologie Et Zoologie Médicale, Dakar, Senegal
- Institut de Recherche pour le Développement, UMR (CNRS IRD) MIVEGEC, Montpellier, France
| | - Youssouph Mané
- Institut de recherche pour le développement, Laboratoire de Paludologie Et Zoologie Médicale, Dakar, Senegal
| | - Cellou Baldé
- Institut Pasteur de Guinée, Laboratoire d’Entomologie Médicale et de Vénimologie, Kindia, Guinea
| | - Franck Pugnolle
- Institut de Recherche pour le Développement, UMR (CNRS IRD) MIVEGEC, Montpellier, France
| | - Gilles Chauvancy
- Institut de recherche pour le développement, Laboratoire de Paludologie Et Zoologie Médicale, Dakar, Senegal
| | - Gil Mahé
- Institut de Recherche pour le Développement, UMR Hydrosciences, Montpellier, France
| | - Laurent Granjon
- Institut de Recherche pour le Développement, Centre de Biologie et de Gestion des Populations, Dakar, Senegal
| | - Jean-Marc Duplantier
- Institut de Recherche pour le Développement, Centre de Biologie et de Gestion des Populations, Dakar, Senegal
| | - Patrick Durand
- Institut de Recherche pour le Développement, UMR (CNRS IRD) MIVEGEC, Montpellier, France
| | - François Renaud
- Institut de Recherche pour le Développement, UMR (CNRS IRD) MIVEGEC, Montpellier, France
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Dobigny G, Tatard C, Gauthier P, Ba K, Duplantier JM, Granjon L, Kergoat GJ. Mitochondrial and nuclear genes-based phylogeography of Arvicanthis niloticus (Murinae) and sub-Saharan open habitats pleistocene history. PLoS One 2013; 8:e77815. [PMID: 24223730 PMCID: PMC3815218 DOI: 10.1371/journal.pone.0077815] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2013] [Accepted: 09/05/2013] [Indexed: 11/19/2022] Open
Abstract
A phylogeographic study was conducted on the Nile grass rat, Arvicanthis niloticus, a rodent species that is tightly associated with open grasslands from the Sudano-Sahelian regions. Using one mitochondrial (cytochrome b) and one nuclear (intron 7 of Beta Fibrinogen) gene, robust patterns were retrieved that clearly show that (i) the species originated in East Africa concomitantly with expanding grasslands some 2 Ma, and (ii) four parapatric and genetically well-defined lineages differentiated essentially from East to West following Pleistocene bioclimatic cycles. This strongly points towards allopatric genetic divergence within savannah refuges during humid episodes, then dispersal during arid ones; secondary contact zones would have then stabilized around geographic barriers, namely, Niger River and Lake Chad basins. Our results pertinently add to those obtained for several other African rodent as well as non-rodent species that inhabit forests, humid zones, savannahs and deserts, all studies that now allow one to depict a more comprehensive picture of the Pleistocene history of the continent south of the Sahara. In particular, although their precise location remains to be determined, at least three Pleistocene refuges are identified within the West and Central African savannah biome.
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Affiliation(s)
- Gauthier Dobigny
- IRD, CBGP (IRD, Inra, CIRAD, Montpellier SupAgro), Campus de Baillarguet, Montferrier-sur-Lez, France
- Centre Régional Agrhymet, Rive Droite, Niamey, Niger
| | - Caroline Tatard
- Inra, CBGP (IRD, Inra, CIRAD, Montpellier SupAgro), Campus de Baillarguet, Montferrier-sur-Lez, France
| | - Philippe Gauthier
- IRD, CBGP (IRD, Inra, CIRAD, Montpellier SupAgro), Campus de Baillarguet, Montferrier-sur-Lez, France
| | - Khalilou Ba
- IRD, CBGP (IRD, Inra, CIRAD, Montpellier SupAgro), Dakar, Senegal
| | - Jean-Marc Duplantier
- IRD, CBGP (IRD, Inra, CIRAD, Montpellier SupAgro), Campus de Baillarguet, Montferrier-sur-Lez, France
| | - Laurent Granjon
- IRD, CBGP (IRD, Inra, CIRAD, Montpellier SupAgro), Campus de Baillarguet, Montferrier-sur-Lez, France
- IRD, CBGP (IRD, Inra, CIRAD, Montpellier SupAgro), Dakar, Senegal
| | - Gael J. Kergoat
- Inra, CBGP (IRD, Inra, CIRAD, Montpellier SupAgro), Campus de Baillarguet, Montferrier-sur-Lez, France
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20
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Jacquet F, Nicolas V, Colyn M, Kadjo B, Hutterer R, Decher J, Akpatou B, Cruaud C, Denys C. Forest refugia and riverine barriers promote diversification in the West African pygmy shrew (Crocidura obscuriorcomplex, Soricomorpha). ZOOL SCR 2013. [DOI: 10.1111/zsc.12039] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
Affiliation(s)
- François Jacquet
- Muséum National d'Histoire Naturelle, Département Systématique et Evolution, UMR 7205, Laboratoire Mammifères et Oiseaux; 55 rue Buffon 75005 Paris France
| | - Violaine Nicolas
- Muséum National d'Histoire Naturelle, Département Systématique et Evolution, UMR 7205, Laboratoire Mammifères et Oiseaux; 55 rue Buffon 75005 Paris France
| | - Marc Colyn
- Université de Rennes 1, CNRS, Ecobio UMR 6553, Station Biologique; 35380 Paimpont France
| | - Blaise Kadjo
- Université de Cocody-Abidjan-UFR Biosciences, Systématique, Biologie et Ecologie des Mammifères; 22 BP 582 Abidjan 22 Côte d'Ivoire
| | - Rainer Hutterer
- Zoologisches Forschungsmuseum A. Koenig, Section of Mammals; Adenauerallee 160 D-53113 Bonn Germany
| | - Jan Decher
- Zoologisches Forschungsmuseum A. Koenig, Section of Mammals; Adenauerallee 160 D-53113 Bonn Germany
| | - Bertin Akpatou
- Université de Cocody-Abidjan-UFR Biosciences, Systématique, Biologie et Ecologie des Mammifères; 22 BP 582 Abidjan 22 Côte d'Ivoire
| | - Corinne Cruaud
- Génoscope, Centre National de Séquençage; 2 rue Gaston Crémieux CP5706 91057 Evry Cedex France
| | - Christiane Denys
- Muséum National d'Histoire Naturelle, Département Systématique et Evolution, UMR 7205, Laboratoire Mammifères et Oiseaux; 55 rue Buffon 75005 Paris France
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21
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Brito JC, Godinho R, Martínez-Freiría F, Pleguezuelos JM, Rebelo H, Santos X, Vale CG, Velo-Antón G, Boratyński Z, Carvalho SB, Ferreira S, Gonçalves DV, Silva TL, Tarroso P, Campos JC, Leite JV, Nogueira J, Álvares F, Sillero N, Sow AS, Fahd S, Crochet PA, Carranza S. Unravelling biodiversity, evolution and threats to conservation in the Sahara-Sahel. Biol Rev Camb Philos Soc 2013; 89:215-31. [DOI: 10.1111/brv.12049] [Citation(s) in RCA: 142] [Impact Index Per Article: 12.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2012] [Revised: 05/28/2013] [Accepted: 06/19/2013] [Indexed: 11/28/2022]
Affiliation(s)
- José C. Brito
- CIBIO/InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos da Universidade do Porto; Vairão 4485-661 Portugal
- Departamento de Biologia da; Faculdade de Ciências da Universidade do Porto; Porto 4169-007 Portugal
| | - Raquel Godinho
- CIBIO/InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos da Universidade do Porto; Vairão 4485-661 Portugal
| | - Fernando Martínez-Freiría
- CIBIO/InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos da Universidade do Porto; Vairão 4485-661 Portugal
| | | | - Hugo Rebelo
- CIBIO/InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos da Universidade do Porto; Vairão 4485-661 Portugal
- School of Biological Sciences; University of Bristol; Bristol BS8 1UG U.K
| | - Xavier Santos
- CIBIO/InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos da Universidade do Porto; Vairão 4485-661 Portugal
| | - Cândida G. Vale
- CIBIO/InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos da Universidade do Porto; Vairão 4485-661 Portugal
- Departamento de Biologia da; Faculdade de Ciências da Universidade do Porto; Porto 4169-007 Portugal
| | - Guillermo Velo-Antón
- CIBIO/InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos da Universidade do Porto; Vairão 4485-661 Portugal
| | - Zbyszek Boratyński
- CIBIO/InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos da Universidade do Porto; Vairão 4485-661 Portugal
- Centre of Excellence in Evolutionary Research, Department of Biological and Environmental Science; University of Jyväskylä; Survontie 9 Finland
| | - Sílvia B. Carvalho
- CIBIO/InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos da Universidade do Porto; Vairão 4485-661 Portugal
| | - Sónia Ferreira
- CIBIO/InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos da Universidade do Porto; Vairão 4485-661 Portugal
- Departamento de Biologia da; Faculdade de Ciências da Universidade do Porto; Porto 4169-007 Portugal
| | - Duarte V. Gonçalves
- CIBIO/InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos da Universidade do Porto; Vairão 4485-661 Portugal
- Departamento de Biologia da; Faculdade de Ciências da Universidade do Porto; Porto 4169-007 Portugal
| | - Teresa L. Silva
- CIBIO/InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos da Universidade do Porto; Vairão 4485-661 Portugal
- Departamento de Biologia da; Faculdade de Ciências da Universidade do Porto; Porto 4169-007 Portugal
| | - Pedro Tarroso
- CIBIO/InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos da Universidade do Porto; Vairão 4485-661 Portugal
| | - João C. Campos
- CIBIO/InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos da Universidade do Porto; Vairão 4485-661 Portugal
- Departamento de Biologia da; Faculdade de Ciências da Universidade do Porto; Porto 4169-007 Portugal
| | - João V. Leite
- CIBIO/InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos da Universidade do Porto; Vairão 4485-661 Portugal
| | - Joana Nogueira
- CIBIO/InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos da Universidade do Porto; Vairão 4485-661 Portugal
- Departamento de Biologia da; Faculdade de Ciências da Universidade do Porto; Porto 4169-007 Portugal
| | - Francisco Álvares
- CIBIO/InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos da Universidade do Porto; Vairão 4485-661 Portugal
| | - Neftalí Sillero
- Centro de Investigação em Ciências Geo-Espaciais (CICGE) da Universidade do Porto; Porto 4169-007 Portugal
| | - Andack S. Sow
- Département de Biologie; Université Abdelmalek Essaâdi; Tétouan 93002 Morocco
| | - Soumia Fahd
- Département de Biologie; Université Abdelmalek Essaâdi; Tétouan 93002 Morocco
| | - Pierre-André Crochet
- EPHE-UMR 5175; Centre d'Ecologie Fonctionnelle et Evolutive; Montpellier F-34293 France
| | - Salvador Carranza
- Institute of Evolutionary Biology; CSIC-Universitat Pompeu Fabra; Barcelona E-08003 Spain
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22
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Knight LI, Ng BL, Cheng W, Fu B, Yang F, Rambau RV. Tracking chromosome evolution in southern African gerbils using flow-sorted chromosome paints. Cytogenet Genome Res 2013; 139:267-75. [PMID: 23652816 PMCID: PMC3721133 DOI: 10.1159/000350696] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 11/13/2012] [Indexed: 11/19/2022] Open
Abstract
Desmodillus and Gerbilliscus (formerly Tatera) comprise a monophyletic group of gerbils (subfamily Gerbillinae) which last shared an ancestor approximately 8 million years ago; diploid chromosome number variation among the species ranges from 2n = 36 to 2n = 50. In an attempt to shed more light on chromosome evolution and speciation in these rodents, we compared the karyotypes of 7 species, representing 3 genera, based on homology data revealed by chromosome painting with probes derived from flow-sorted chromosomes of the hairy footed gerbil, Gerbillurus paeba (2n = 36). The fluorescent in situ hybridization data revealed remarkable genome conservation: these species share a high proportion of conserved chromosomes, and differences are due to 10 Robertsonian (Rb) rearrangements (3 autapomorphies, 3 synapomorphies and 4 hemiplasies/homoplasies). Our data suggest that chromosome evolution in Desmodillus occurred at a rate of ~1.25 rearrangements per million years (Myr), and that the rate among Gerbilliscus over a time period spanning 8 Myr is also ~1.25 rearrangements/Myr. The recently diverged Gerbillurus (G. tytonis and G. paeba) share an identical karyotype, while Gerbilliscus kempi, G. afra and G. leucogaster differ by 6 Rb rearrangements (a rate of ~1 rearrangement/Myr). Thus, our data suggests a very slow rate of chromosomal evolution in Southern African gerbils.
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Affiliation(s)
- L I Knight
- Evolutionary Genomics Group, Department of Botany and Zoology, University of Stellenbosch, Stellenbosch, South Africa
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23
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Colangelo P, Verheyen E, Leirs H, Tatard C, Denys C, Dobigny G, Duplantier JM, Brouat C, Granjon L, Lecompte E. A mitochondrial phylogeographic scenario for the most widespread African rodent,Mastomys natalensis. Biol J Linn Soc Lond 2013. [DOI: 10.1111/bij.12013] [Citation(s) in RCA: 50] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Paolo Colangelo
- Department of Biology and Biotechnologies; University of Rome ‘La Sapienza’; Via Borelli 50; 00161; Rome; Italy
| | | | | | - Caroline Tatard
- INRA; UMR1062 CBGP; Campus International de Baillarguet, CS 30016; 34988; Montferrier-sur-Lez cedex; France
| | - Christiane Denys
- UMR-CNRS 7205, Laboratoire Origine Structure Evolution de la Biodiversité (OSEB); Department of Systematics and Evolution, CP51; 55 rue Buffon; 75005; Paris; France
| | | | - Jean-Marc Duplantier
- IRD, CBGP (UMR IRD/INRA/CIRAD/MontpellierSupAgro); Campus International de Baillarguet; CS; 30016; 34988; Montferrier-sur-Lez cedex; France
| | - Carine Brouat
- IRD, CBGP (UMR IRD/INRA/CIRAD/MontpellierSupAgro); Campus International de Baillarguet; CS; 30016; 34988; Montferrier-sur-Lez cedex; France
| | - Laurent Granjon
- IRD, CBGP (UMR IRD/INRA/CIRAD/MontpellierSupAgro); Campus de Bel-Air, BP 1386; Dakar; CP; 18524; Sénégal
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24
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Yoshida K, Kitano J. The contribution of female meiotic drive to the evolution of neo-sex chromosomes. Evolution 2012; 66:3198-208. [PMID: 23025609 PMCID: PMC3494977 DOI: 10.1111/j.1558-5646.2012.01681.x] [Citation(s) in RCA: 55] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2012] [Accepted: 04/22/2012] [Indexed: 11/28/2022]
Abstract
Sex chromosomes undergo rapid turnover in certain taxonomic groups. One of the mechanisms of sex chromosome turnover involves fusions between sex chromosomes and autosomes. Sexual antagonism, heterozygote advantage, and genetic drift have been proposed as the drivers for the fixation of this evolutionary event. However, all empirical patterns of the prevalence of multiple sex chromosome systems across different taxa cannot be simply explained by these three mechanisms. In this study, we propose that female meiotic drive may contribute to the evolution of neo-sex chromosomes. The results of this study showed that in mammals, the XY(1) Y(2) sex chromosome system is more prevalent in species with karyotypes of more biarmed chromosomes, whereas the X(1) X(2) Y sex chromosome system is more prevalent in species with predominantly acrocentric chromosomes. In species where biarmed chromosomes are favored by female meiotic drive, X-autosome fusions (XY(1) Y(2) sex chromosome system) will be also favored by female meiotic drive. In contrast, in species with more acrocentric chromosomes, Y-autosome fusions (X(1) X(2) Y sex chromosome system) will be favored just because of the biased mutation rate toward chromosomal fusions. Further consideration should be given to female meiotic drive as a mechanism in the fixation of neo-sex chromosomes.
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Affiliation(s)
- Kohta Yoshida
- Ecological Genetics Laboratory, Center for Frontier Research, National Institute of GeneticsYata 1111, Mishima, Shizuoka 411–8540, Japan
| | - Jun Kitano
- Ecological Genetics Laboratory, Center for Frontier Research, National Institute of GeneticsYata 1111, Mishima, Shizuoka 411–8540, Japan
- PRESTO, Japan Science and Technology Agency, Honcho KawaguchiSaitama 332-0012, Japan
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25
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Phylogeny of North African Agama lizards (Reptilia: Agamidae) and the role of the Sahara desert in vertebrate speciation. Mol Phylogenet Evol 2012; 64:582-91. [DOI: 10.1016/j.ympev.2012.05.007] [Citation(s) in RCA: 44] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/16/2011] [Revised: 04/26/2012] [Accepted: 05/14/2012] [Indexed: 11/22/2022]
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26
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Systematics and evolution of the African pygmy mice, subgenus Nannomys: A review. ACTA OECOLOGICA-INTERNATIONAL JOURNAL OF ECOLOGY 2012. [DOI: 10.1016/j.actao.2012.01.001] [Citation(s) in RCA: 40] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
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27
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Romanenko SA, Volobouev V. Non-Sciuromorph rodent karyotypes in evolution. Cytogenet Genome Res 2012; 137:233-45. [PMID: 22699115 DOI: 10.1159/000339294] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022] Open
Abstract
Rodents are, taxonomically, the most species-rich mammalian order. They display a series of special genomic features including the highest karyotypic diversity, frequent occurrence of complex intraspecies chromosome variability, and a variety of unusual chromosomal sex determination mechanisms not encountered in other mammalian taxa. Rodents also have an abundance of cytochemically heterogeneous heterochromatin. There are also instances of extremely rapid karyotype reorganization and speciation not accompanied by significant genetic differentiation. All these peculiarities make it clear that a detailed study of rodent genomic evolution is indispensable to understand the mode and tempo of mammalian evolution. The aim of this review is to update the data obtained by classical and molecular cytogenetics as well as comparative genomics in order to outline the range of old and emerging problems that remain to be resolved.
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Affiliation(s)
- S A Romanenko
- Institute of Molecular and Cellular Biology, SB RAS, Novosibirsk, Russia.
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28
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Ndiaye A, Bâ K, Aniskin V, Benazzou T, Chevret P, Konečný A, Sembène M, Tatard C, Kergoat GJ, Granjon L. Evolutionary systematics and biogeography of endemic gerbils (Rodentia, Muridae) from Morocco: an integrative approach. ZOOL SCR 2011. [DOI: 10.1111/j.1463-6409.2011.00501.x] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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29
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Integrated analyses of chromosome, molecular and morphological variability in the Andean mice Eligmodontia puerulus and E. moreni (Rodentia, Cricetidae, Sigmodontinae). Mamm Biol 2011. [DOI: 10.1016/j.mambio.2011.02.008] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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30
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Chromosomal evolution in Rattini (Muridae, Rodentia). Chromosome Res 2011; 19:709-27. [PMID: 21850459 DOI: 10.1007/s10577-011-9227-2] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2011] [Revised: 07/28/2011] [Accepted: 07/29/2011] [Indexed: 10/17/2022]
Abstract
The Rattini (Muridae, Murinae) includes the biologically important model species Rattus norvegicus (RNO) and represents a group of rodents that are of clinical, agricultural and epidemiological importance. We present a comparative molecular cytogenetic investigation of ten Rattini species representative of the genera Maxomys, Leopoldamys, Niviventer, Berylmys, Bandicota and Rattus using chromosome banding, cross-species painting (Zoo-fluorescent in situ hybridization or FISH) and BAC-FISH mapping. Our results show that these taxa are characterised by slow to moderate rates of chromosome evolution that contrasts with the extensive chromosome restructuring identified in most other murid rodents, particularly the mouse lineage. This extends to genomic features such as NOR location (for example, NORs on RNO 3 are present on the corresponding chromosomes in all species except Bandicota savilei and Niviventer fulvescens, and the NORs on RNO 10 are conserved in all Rattini with the exception of Rattus). The satellite I DNA family detected and characterised herein appears to be taxon (Rattus) specific, and of recent origin (consistent with a feedback model of satellite evolution). BAC-mapping using clones that span regions responsible for the morphological variability exhibited by RNO 1, 12 and 13 (acrocentric/submetacentric) and their orthologues in Rattus species, demonstrated that the differences are most likely due to pericentric inversions as exemplified by data on Rattus tanezumi. Chromosomal characters detected using R. norvegicus and Maxomys surifer whole chromosome painting probes were mapped to a consensus sequence-based phylogenetic tree thus allowing an objective assessment of ancestral states for the reconstruction of the putative Rattini ancestral karyotype. This is thought to have comprised 46 chromosomes that, with the exception of a single pair of metacentric autosomes, were acrocentric in morphology.
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31
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32
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Engelbrecht A, Taylor PJ, Daniels SR, Rambau RV. Chromosomal polymorphisms in African vlei rats, Otomys irroratus (Muridae: Otomyini), detected by banding techniques and chromosome painting: inversions, centromeric shifts and diploid number variation. Cytogenet Genome Res 2011; 133:8-15. [PMID: 21228562 DOI: 10.1159/000323416] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 10/14/2010] [Indexed: 11/19/2022] Open
Abstract
Pericentric inversions are important for evolutionary biology because of their potential role in speciation. They may result in reproductive isolation due to illegitimate pairing of homologues at meiosis which leads to the production of aneuploid gametes (containing deletions or duplications of chromosomal segments), and consequently mediate chromosomal divergence. In this study, we describe the prevalence of pericentric inversions in the African vlei rat, Otomys irroratus (OIR). The species is characterized by intraspecific chromosomal variation (2n = 23-32) across its distribution in southern Africa. Here, we analyzed 55 individuals collected from 7 localities in South Africa by G- and C-banding and chromosome painting with flow sorts of Myotomys unisulcatus. Of the 55 specimens that were analyzed, 47% contained inversions or centromeric shifts on 4 autosomes (OIR1, 4, 6 and 10) which were present singly in specimens (i.e. none of the specimens contained all 4 inversions concurrently). These inversions were found in both homozygous and heterozygous state over a wide geographic range suggesting that they are floating polymorphisms. Given the potential role of inversions in post-mating isolation (through production of aneuploid gametes), the prevalence of inversions as floating polymorphisms in the vlei rats suggests that they are probably retained in the population through suppression of recombination in the inverted regions of the chromosomes.
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Affiliation(s)
- A Engelbrecht
- Evolutionary Genomics Group, Department of Botany and Zoology, Stellenbosch University, Matieland, South Africa
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33
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Kovalskaya Y, Aniskin V, Bogomolov P, Surov A, Tikhonov I, Tikhonova G, Robinson T, Volobouev V. Karyotype Reorganisation in the subtilis Group of Birch Mice (Rodentia, Dipodidae, Sicista): Unexpected Taxonomic Diversity within a Limited Distribution. Cytogenet Genome Res 2011; 132:271-88. [DOI: 10.1159/000322823] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 09/28/2010] [Indexed: 11/19/2022] Open
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34
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Caraballo DA, Belluscio PM, Rossi MS. The library model for satellite DNA evolution: a case study with the rodents of the genus Ctenomys (Octodontidae) from the Iberá marsh, Argentina. Genetica 2010; 138:1201-10. [PMID: 21072566 DOI: 10.1007/s10709-010-9516-2] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2010] [Accepted: 10/26/2010] [Indexed: 11/29/2022]
Abstract
On the basement of the library model of satellite DNA evolution is the differential amplification of subfamilies through lineages diversification. However, this idea has rarely been explored from an experimental point of view. In the present work, we analyzed copy number and sequence variability of RPCS (repetitive PvuII Ctenomys sequence), the major satellite DNA present in the genomes of the rodents of the genus Ctenomys, in a closely related group of species and forms inhabiting the Iberá marsh in Argentina. We studied the dependence of these two parameters at the intrapopulation level because in the case of interbreeding genomes, differences in RPCS copy number are due to recent amplification/contraction events. We found an inverse relationship among RPCS copy number and sequence variability: amplifications lead to a decrease in sequence variability, by means of biased homogenization of the overall satellite DNA, prevailing few variants. On the contrary, the contraction events that involve tandems of homogeneous monomers contribute-by default-minor variants to become "evident", which otherwise were undetectable. On the other hand, all the RPCS sequence variants are totally or partially shared by all the studied populations. As a whole, these results are comprehensible if these RPCS variants preexisted in the common ancestor of this Ctenomys group.
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Affiliation(s)
- Diego A Caraballo
- IFIBYNE-CONICET. Laboratorio de Fisiología y Biología Molecular, Departamento de Fisiología, Biología Molecular y Celular, Universidad de Buenos Aires, Ciudad Universitaria, Pabellón II, 2do piso, EHA1428 Buenos Aires, Argentina
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BRYJA J, GRANJON L, DOBIGNY G, PATZENHAUEROVÁ H, KONEČNÝ A, DUPLANTIER JM, GAUTHIER P, COLYN M, DURNEZ L, LALIS A, NICOLAS V. Plio‐Pleistocene history of West African Sudanian savanna and the phylogeography of the
Praomys daltoni
complex (Rodentia): the environment/geography/genetic interplay. Mol Ecol 2010; 19:4783-99. [DOI: 10.1111/j.1365-294x.2010.04847.x] [Citation(s) in RCA: 43] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- J. BRYJA
- Institute of Vertebrate Biology, Academy of Sciences of the Czech Republic, Květná 8, 603 65 Brno, Czech Republic
| | - L. GRANJON
- IRD, CBGP (UMR IRD / INRA / CIRAD / MontpellierSupAgro), Campus International de Baillarguet, CS 30016, 34988 Montferrier‐sur‐Lez Cedex, France
| | - G. DOBIGNY
- IRD, CBGP (UMR IRD / INRA / CIRAD / MontpellierSupAgro), Campus International de Baillarguet, CS 30016, 34988 Montferrier‐sur‐Lez Cedex, France
| | - H. PATZENHAUEROVÁ
- Institute of Vertebrate Biology, Academy of Sciences of the Czech Republic, Květná 8, 603 65 Brno, Czech Republic
| | - A. KONEČNÝ
- Institute of Vertebrate Biology, Academy of Sciences of the Czech Republic, Květná 8, 603 65 Brno, Czech Republic
- IRD, CBGP (UMR IRD / INRA / CIRAD / MontpellierSupAgro), Campus International de Baillarguet, CS 30016, 34988 Montferrier‐sur‐Lez Cedex, France
| | - J. M. DUPLANTIER
- IRD, CBGP (UMR IRD / INRA / CIRAD / MontpellierSupAgro), Campus International de Baillarguet, CS 30016, 34988 Montferrier‐sur‐Lez Cedex, France
| | - P. GAUTHIER
- IRD, CBGP (UMR IRD / INRA / CIRAD / MontpellierSupAgro), Campus International de Baillarguet, CS 30016, 34988 Montferrier‐sur‐Lez Cedex, France
| | - M. COLYN
- UMR CNRS 6553 Ecobio, Université de Rennes 1, Station Biologique, 35380 Paimpont, France
| | - L. DURNEZ
- Evolutionary Ecology Group, Department of Biology, University of Antwerp, Groenenborgerlaan 171, B‐2020 Antwerp, Belgium & Mycobacteriology Unit, Department of Microbiology, Institute of Tropical Medicine, Nationalestraat 155, B‐2000 Antwerp, Belgium
| | - A. LALIS
- Muséum National d’Histoire Naturelle, Département de Systématique et Evolution, UMR CNRS 7205, Laboratoire Mammifères et Oiseaux, 47 rue Cuvier, CP 51, 75005 Paris, France
| | - V. NICOLAS
- Muséum National d’Histoire Naturelle, Département de Systématique et Evolution, UMR CNRS 7205, Laboratoire Mammifères et Oiseaux, 47 rue Cuvier, CP 51, 75005 Paris, France
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36
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VILA ROGER, LUKHTANOV VLADIMIRA, TALAVERA GERARD, GIL-T. FELIPE, PIERCE NAOMIE. How common are dot-like distributions? Taxonomical oversplitting in western European Agrodiaetus (Lepidoptera: Lycaenidae) revealed by chromosomal and molecular markers. Biol J Linn Soc Lond 2010. [DOI: 10.1111/j.1095-8312.2010.01481.x] [Citation(s) in RCA: 37] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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37
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Martínez JJ, González-Ittig RE, Theiler GR, Ojeda R, Lanzone C, Ojeda A, Gardenal CN. Patterns of speciation in two sibling species ofGraomys(Rodentia, Cricetidae) based on mtDNA sequences. J ZOOL SYST EVOL RES 2010. [DOI: 10.1111/j.1439-0469.2009.00539.x] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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38
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Abiadh A, Chetoui M, Lamine-Cheniti T, Capanna E, Colangelo P. Molecular phylogenetics of the genus Gerbillus (Rodentia, Gerbillinae): Implications for systematics, taxonomy and chromosomal evolution. Mol Phylogenet Evol 2010; 56:513-8. [PMID: 20412863 DOI: 10.1016/j.ympev.2010.04.018] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/26/2009] [Revised: 12/25/2009] [Accepted: 04/12/2010] [Indexed: 10/19/2022]
Abstract
Although gerbils forms an important component of the mammalian fauna of arid and semi-arid area, the taxonomic and phylogenetic relationship within the species of the genus Gerbillus are still ambiguous. The present paper introduces findings based on the whole cytochrome b (1140 bp) mitochondrial genes of seven species (Gerbillus campestris, G. latastei, G. nanus, G. tarabuli, G. gerbillus, G. simoni and G. nigeriae) six of which are present in Tunisia. Our results show that all the Gerbillus species are monophyletic. Moreover, molecular phylogeny rejects the genus rank for the taxon Dipodillus. Gebillus nanus, a species belonging to the subgenus Hendecapleura, early diverged from the other species which are divided into two clades: the subgenus Dipodillus, including G. campestris and G. simoni and the subgenus Gerbillus including G. gerbillus, G. nigeriae, G. tarabuli and G. latastei. These results are congruent with morphological and karyological evidences. According to molecular clock, the appearance of the genus Gerbillus coincides with the Miocene-Pliocene expansion of African arid biomes. Extensive intraspecific chromosomal changes evolved in a relatively narrow lapse of time, like in the case of G. latastei, allowing the fixations of different chromosomal variants due to pericentric inversion.
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Affiliation(s)
- Awatef Abiadh
- Laboratoire d'Ecologie Animale, Faculté des Sciences de Tunis, FST Départment Biologie, Campus Universitaire, 2092 El Manar Tunis, Tunisia.
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Robertsonian fusions, pericentromeric repeat organization and evolution: a case study within a highly polymorphic rodent species, Gerbillus nigeriae. Chromosome Res 2010; 18:473-86. [DOI: 10.1007/s10577-010-9128-9] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2010] [Accepted: 03/11/2010] [Indexed: 10/19/2022]
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40
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NICOLAS VIOLAINE, GRANJON LAURENT, DUPLANTIER JEANMARC, CRUAUD CORINNE, DOBIGNY GAUTHIER. Phylogeography of spiny mice (genus Acomys, Rodentia: Muridae) from the south-western margin of the Sahara with taxonomic implications. Biol J Linn Soc Lond 2009. [DOI: 10.1111/j.1095-8312.2009.01273.x] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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41
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Nicolas V, Bryja J, Akpatou B, Konecny A, Lecompte E, Colyn M, Lalis A, Couloux A, Denys C, Granjon L. Comparative phylogeography of two sibling species of forest-dwelling rodent (Praomys rostratus and P. tullbergi) in West Africa: different reactions to past forest fragmentation. Mol Ecol 2009; 17:5118-34. [PMID: 19120992 DOI: 10.1111/j.1365-294x.2008.03974.x] [Citation(s) in RCA: 49] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Two sibling species of the rodent genus Praomys occur in West African forests: P. tullbergi and P. rostratus. By sampling across their geographical ranges (459 individuals from 77 localities), we test the hypothesis that climatic oscillations during the Quaternary made an impact on the observed pattern of cytochrome b sequence variation. We show that, although these two species have parapatric geographical distributions, their phylogeographical histories are dissimilar, which could be related to their distinct ecological requirements. Since the arid phases of the Pleistocene were characterized by isolated forest patches, and intervening wetter periods by forest expansion, these changes in forest cover may be the common mechanism responsible for the observed phylogeographical patterns in both of these species. For example, in both species, most clades had either allopatric or parapatric geographical distributions; however, genetic diversity was much lower in P. tullbergi than in P. rostratus. The genetic pattern of P. tullbergi fits the refuge hypothesis, indicating that a very small number of populations survived in distinct forest blocks during the arid phases, then expanded again with forest recovery. In contrast, a number of populations of P. rostratus appear to have survived during the dry periods in more fragmented forest habitats, with varying levels of gene flow between these patches depending on climatic conditions and forest extent. In addition, historical variations of the West African hydrographic network could also have contributed to the pattern of genetic differentiation observed in both species.
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Affiliation(s)
- V Nicolas
- Muséum National d'Histoire Naturelle, Département de Systématique et Evolution, UMR 5202, Laboratoire Mammifères et Oiseaux, 57 rue Cuvier, CP 51, 75005 Paris, France.
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42
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VÖLKER MARTIN, RÁB PETR, KULLMANN HARALD. Karyotype differentiation in Chromaphyosemion killifishes (Cyprinodontiformes, Nothobranchiidae): patterns, mechanisms, and evolutionary implications. Biol J Linn Soc Lond 2008. [DOI: 10.1111/j.1095-8312.2008.00967.x] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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43
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Trifonov VA, Stanyon R, Nesterenko AI, Fu B, Perelman PL, O’Brien PCM, Stone G, Rubtsova NV, Houck ML, Robinson TJ, Ferguson-Smith MA, Dobigny G, Graphodatsky AS, Yang F. Multidirectional cross-species painting illuminates the history of karyotypic evolution in Perissodactyla. Chromosome Res 2008; 16:89-107. [DOI: 10.1007/s10577-007-1201-7] [Citation(s) in RCA: 58] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
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44
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Tracking genome organization in rodents by Zoo-FISH. Chromosome Res 2008; 16:261-74. [PMID: 18266061 DOI: 10.1007/s10577-007-1191-5] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2007] [Revised: 11/20/2007] [Accepted: 11/20/2007] [Indexed: 10/22/2022]
Abstract
The number of rodent species examined by modern comparative genomic approaches, particularly chromosome painting, is limited. The use of human whole-chromosome painting probes to detect regions of homology in the karyotypes of the rodent index species, the mouse and rat, has been hindered by the highly rearranged nature of their genomes. In contrast, recent studies have demonstrated that non-murid rodents display more conserved genomes, underscoring their suitability for comparative genomic and higher-order systematic studies. Here we provide the first comparative chromosome maps between human and representative rodents of three major rodent lineages Castoridae, Pedetidae and Dipodidae. A comprehensive analysis of these data and those published for Sciuridae show (1) that Castoridae, Pedetidae and Dipodidae form a monophyletic group, and (2) that the European beaver Castor fiber (Castoridae) and the birch mouse Sicista betulina (Dipodidae) are sister species to the exclusion of the springhare Pedetes capensis (Pedetidae), thus resolving an enduring trifurcation in rodent higher-level systematics. Our results together with published data on the Sciuridae allow the formulation of a putative rodent ancestral karyotype (2n = 50) that is thought to comprise the following 26 human chromosomal segments and/or segmental associations: HSA1pq, 1q/10p, 2pq, 2q, 3a, 3b/19p, 3c/21, 4b, 5, 6, 7a, 7b/16p, 8p/4a/8p, 8q, 9/11, 10q, 12a/22a, 12b/22b, 13, 14/15, 16q/19q, 17, 18, 20, X and Y. These findings provide insights into the likely composition of the ancestral rodent karyotype and an improved understanding of placental genome evolution.
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MOULINE KARINE, GRANJON LAURENT, GALAN MAXIME, TATARD CAROLINE, ABDOULLAYE DOUKARY, ATTEYINE SOLIMANEAG, DUPLANTIER JEANMARC, COSSON JEANFRANÇOIS. Phylogeography of a Sahelian rodent species Mastomys huberti: a Plio-Pleistocene story of emergence and colonization of humid habitats. Mol Ecol 2008; 17:1036-53. [DOI: 10.1111/j.1365-294x.2007.03610.x] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
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Guillaumet A, Crochet PA, Pons JM. Climate-driven diversification in two widespread Galerida larks. BMC Evol Biol 2008; 8:32. [PMID: 18230151 PMCID: PMC2275783 DOI: 10.1186/1471-2148-8-32] [Citation(s) in RCA: 44] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2007] [Accepted: 01/29/2008] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND The major impact of Plio-Pleistocene climatic oscillations on the current genetic structure of many species is widely recognised but their importance in driving speciation remains a matter of controversies. In addition, since most studies focused on Europe and North America, the influence of many other biogeographic barriers such as the Sahara remains poorly understood. In this paper, climate-driven diversification was investigated by using a comparative phylogeographic approach in combination with phenotypic data in two avian species groups distributed on both sides of the deserts belt of Africa and Asia. In particular, we tested whether: 1) vicariance diversification events are concomitant with past climatic events; and 2) current ecological factors (using climate and competition as proxies) contribute to phenotypic divergence between allopatric populations. RESULTS Mitochondrial and nuclear sequence data indicated that the crested and Thekla lark species groups diverged in the early Pliocene and that subsequent speciation events were congruent with major late Pliocene and Pleistocene climatic events. In particular, steep increase in aridity in Africa near 2.8 and 1.7 million years ago were coincident with two north-south vicariance speciation events mediated by the Sahara. Subsequent glacial cycles of the last million years seem to have shaped patterns of genetic variation within the two widespread species (G. cristata and G. theklae). The Sahara appears to have allowed dispersal from the tropical areas during climatic optima but to have isolated populations north and south of it during more arid phases. Phenotypic variation did not correlate with the history of populations, but was strongly influenced by current ecological conditions. In particular, our results suggested that (i) desert-adapted plumage evolved at least three times and (ii) variation in body size was mainly driven by interspecific competition, but the response to competition was stronger in more arid areas. CONCLUSION Climatic fluctuations of the Plio-Pleistocene strongly impacted diversification patterns in the Galerida larks. Firstly, we found that cladogenesis coincides with major climatic changes, and the Sahara appears to have played a key role in driving speciation events. Secondly, we found that morphology and plumage were strongly determined by ecological factors (interspecific competition, climate) following vicariance.
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Affiliation(s)
- Alban Guillaumet
- Institut des Sciences de l'Evolution, C.C. 63, Université de Montpellier II, Place E. BATAILLON, 34095 Montpellier Cedex, France.
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Chromosomal evolution in tenrecs (Microgale and Oryzorictes, Tenrecidae) from the Central Highlands of Madagascar. Chromosome Res 2007; 15:1075-91. [DOI: 10.1007/s10577-007-1182-6] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2007] [Revised: 10/02/2007] [Accepted: 10/02/2007] [Indexed: 01/24/2023]
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Pardini A, O'Brien P, Fu B, Bonde R, Elder F, Ferguson-Smith M, Yang F, Robinson T. Chromosome painting among Proboscidea, Hyracoidea and Sirenia: support for Paenungulata (Afrotheria, Mammalia) but not Tethytheria. Proc Biol Sci 2007; 274:1333-40. [PMID: 17374594 PMCID: PMC1914331 DOI: 10.1098/rspb.2007.0088] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022] Open
Abstract
Despite marked improvements in the interpretation of systematic relationships within Eutheria, particular nodes, including Paenungulata (Hyracoidea, Sirenia and Proboscidea), remain ambiguous. The combination of a rapid radiation, a deep divergence and an extensive morphological diversification has resulted in a limited phylogenetic signal confounding resolution within this clade both at the morphological and nucleotide levels. Cross-species chromosome painting was used to delineate regions of homology between Loxodonta africana (2n=56), Procavia capensis (2n=54), Trichechus manatus latirostris (2n=48) and an outgroup taxon, the aardvark (Orycteropus afer, 2n=20). Changes specific to each lineage were identified and although the presence of a minimum of 11 synapomorphies confirmed the monophyly of Paenungulata, no change characterizing intrapaenungulate relationships was evident. The reconstruction of an ancestral paenungulate karyotype and the estimation of rates of chromosomal evolution indicate a reduced rate of genomic repatterning following the paenungulate radiation. In comparison to data available for other mammalian taxa, the paenungulate rate of chromosomal evolution is slow to moderate. As a consequence, the absence of a chromosomal character uniting two paenungulates (at the level of resolution characterized in this study) may be due to a reduced rate of chromosomal change relative to the length of time separating successive divergence events.
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Affiliation(s)
- A.T Pardini
- Evolutionary Genomics Group, Department of Botany and Zoology, University of StellenboschPrivate Bag X1, Matieland, 7602 Stellenbosch, South Africa
| | - P.C.M O'Brien
- Centre for Veterinary Science, University of CambridgeCambridge CB3 0ES, UK
| | - B Fu
- Centre for Veterinary Science, University of CambridgeCambridge CB3 0ES, UK
| | - R.K Bonde
- U.S. Geological Survey, Florida Integrated Science CentreGainesville, FL 32605-3574, USA
| | - F.F.B Elder
- Department of Pathology, Cytogenetics LaboratoryUT Southwestern Medical Centre, Dallas, TX 75235, USA
| | - M.A Ferguson-Smith
- Centre for Veterinary Science, University of CambridgeCambridge CB3 0ES, UK
| | - F Yang
- Centre for Veterinary Science, University of CambridgeCambridge CB3 0ES, UK
| | - T.J Robinson
- Evolutionary Genomics Group, Department of Botany and Zoology, University of StellenboschPrivate Bag X1, Matieland, 7602 Stellenbosch, South Africa
- Author for correspondence ()
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Volobouev V, Aniskin VM, Sicard B, Dobigny G, Granjon L. Systematics and phylogeny of West African gerbils of the genus Gerbilliscus (Muridae: Gerbillinae) inferred from comparative G- and C-banding chromosomal analyses. Cytogenet Genome Res 2007; 116:269-81. [PMID: 17431325 DOI: 10.1159/000100411] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/24/2006] [Accepted: 12/15/2006] [Indexed: 11/19/2022] Open
Abstract
Comparative analysis of the G- and C-banding patterns in six morphologically similar species of the genus Gerbilliscus(G. gambianus, G. guineae, G. kempi, Gerbilliscus sp., G. robustus and G. leucogaster) and one belonging to the genus Gerbillurus (G. tytonis) from 27 West, East and South African localities was carried out. Our study revealed that 17 rearrangements comprising seven fissions, five translocations and five inversions occurred in the evolution of this group, with 1-13 rearrangements differentiating the various species. In addition the unusually large sex chromosomes appear to be species-specific as judged by size and morphology reflecting structural rearrangements as well as the variable presence of a large amount of C-heterochromatin found in each species at a particular chromosomal location. These karyotypic features allow us to recognize five distinct species in West Africa (compared to the two recognized in recent taxonomic lists) and to roughly delimit their geographical distributions. The pattern of phylogenetic relationships inferred from a cladistic analysis of the chromosomal data is in good agreement with recent molecular phylogenetic studies that recognize a West African species group within the genus Gerbilliscus, and the monophyly of both Gerbilliscus and Gerbillurus.
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Affiliation(s)
- V Volobouev
- Muséum National d'Histoire Naturelle, UMR 5202 Origine, Structure et Evolution de la Biodiversité, Paris, France.
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