1
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Nikitin P, Sidorov S, Liehr T, Klimina K, Al-Rikabi A, Korchagin V, Kolomiets O, Arakelyan M, Spangenberg V. Variants of a major DNA satellite discriminate parental subgenomes in a hybrid parthenogenetic lizard Darevskia unisexualis (Darevsky, 1966). JOURNAL OF EXPERIMENTAL ZOOLOGY. PART B, MOLECULAR AND DEVELOPMENTAL EVOLUTION 2024; 342:368-379. [PMID: 38407543 DOI: 10.1002/jez.b.23244] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/31/2023] [Revised: 12/12/2023] [Accepted: 01/30/2024] [Indexed: 02/27/2024]
Abstract
Hybrid parthenogenetic animals are an exceptionally interesting model for studying the mechanisms and evolution of sexual and asexual reproduction. A diploid parthenogenetic lizard Darevskia unisexualis is a result of an ancestral cross between a maternal species Darevskia raddei nairensis and a paternal species Darevskia valentini and presents a unique opportunity for a cytogenetic and computational analysis of a hybrid karyotype. Our previous results demonstrated a significant divergence between the pericentromeric DNA sequences of the parental Darevskia species; however, an in-depth comparative study of their pericentromeres is still lacking. Here, using target sequencing of microdissected pericentromeric regions, we reveal and compare the repertoires of the pericentromeric tandem repeats of the parental Darevskia lizards. We found species-specific sequences of the major pericentromeric tandem repeat CLsat, which allowed computational prediction and experimental validation of fluorescent DNA probes discriminating parental chromosomes within the hybrid karyotype of D. unisexualis. Moreover, we have implemented a generalizable computational method, based on the optimization of the Levenshtein distance between tandem repeat monomers, for finding species-specific fluorescent probes for pericentromere staining. In total, we anticipate that our comparative analysis of Darevskia pericentromeric repeats, the species-specific fluorescent probes that we found and the pipeline that we developed will form a basis for the future detailed cytogenomic studies of a wide range of natural and laboratory hybrids.
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Affiliation(s)
- Pavel Nikitin
- Laboratory of Comparative Ethology and Biocommunication, Severtsov Institute of Ecology and Evolution RAS, Moscow, Russia
- Faculty of Bioengineering and Bioinformatics, Lomonosov Moscow State University, Moscow, Russia
| | - Sviatoslav Sidorov
- Computational Regulatory Genomics, MRC Laboratory of Medical Sciences, Hammersmith Hospital Campus, London, UK
| | - Thomas Liehr
- Jena University Hospital, Friedrich Schiller University, Institute of Human Genetics, Jena, Germany
| | - Ksenia Klimina
- Lopukhin Federal Research and Clinical Center of Physical-Chemical Medicine of Federal Medical Biological Agency, Moscow, Russia
| | - Ahmed Al-Rikabi
- Jena University Hospital, Friedrich Schiller University, Institute of Human Genetics, Jena, Germany
| | | | - Oxana Kolomiets
- Laboratory of Cytogenetics, Vavilov Institute of General Genetics RAS, Moscow, Russia
| | - Marine Arakelyan
- Department of Zoology, Yerevan State University, Yerevan, Armenia
| | - Victor Spangenberg
- Laboratory of Cytogenetics, Vavilov Institute of General Genetics RAS, Moscow, Russia
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2
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Tian L, Xu R, Chen D, Ananjeva NB, Brown RM, Min MS, Cai B, Mijidsuren B, Zhang B, Guo X. Range-Wide Phylogeography and Ecological Niche Modeling Provide Insights into the Evolutionary History of the Mongolian Racerunner ( Eremias argus) in Northeast Asia. Animals (Basel) 2024; 14:1124. [PMID: 38612363 PMCID: PMC11011046 DOI: 10.3390/ani14071124] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2024] [Revised: 04/03/2024] [Accepted: 04/04/2024] [Indexed: 04/14/2024] Open
Abstract
The Mongolian racerunner, Eremias argus, is a small lizard endemic to Northeast Asia that can serve as an excellent model for investigating how geography and past climate change have jointly influenced the evolution of biodiversity in this region. To elucidate the processes underlying its diversification and demography, we reconstructed the range-wide phylogeographic pattern and evolutionary trajectory, using phylogenetic, population genetic, landscape genetic, Bayesian phylogeographic reconstruction and ecological niche modeling approaches. Phylogenetic analyses of the mtDNA cyt b gene revealed eight lineages that were unbounded by geographic region. The genetic structure of E. argus was mainly determined by geographic distance. Divergence dating indicated that E. argus and E. brenchleyi diverged during the Mid-Pliocene Warm Period. E. argus was estimated to have coalesced at~0.4351 Ma (Marine Isotope Stage 19). Bayesian phylogeographic diffusion analysis revealed out-of-Inner Mongolia and rapid colonization events from the end of the Last Interglacial to the Last Glacial Maximum, which is consistent with the expanded suitable range of the Last Glacial Maximum. Pre-Last Glacial Maximum growth of population is presented for most lineages of E. argus. The Glacial Maximum contraction model and the previous multiple glacial refugia hypotheses are rejected. This may be due to an increase in the amount of climatically favorable habitats in Northeast Asia. Furthermore, E. argus barbouri most likely represents an invalid taxon. The present study is the first to report a range-wide phylogeography of reptiles over such a large region in Northeast Asia. Our results make a significant contribution towards understanding the biogeography of the entire Northeast Asia.
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Affiliation(s)
- Lili Tian
- Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu 610223, China; (L.T.); (R.X.); (B.C.)
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Rui Xu
- Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu 610223, China; (L.T.); (R.X.); (B.C.)
| | - Dali Chen
- Department of Pathogenic Biology, West China School of Basic Medical Sciences and Forensic Medicine, Sichuan University, Chengdu 610041, China;
| | - Natalia B. Ananjeva
- Zoological Institute, Russian Academy of Sciences, St. Petersburg 199034, Russia;
| | - Rafe M. Brown
- Biodiversity Institute, Department of Ecology and Evolutionary Biology, University of Kansas, Lawrence, KS 66045, USA;
| | - Mi-Sook Min
- Conservation Genome Resource Bank for Korean Wildlife, Research Institute for Veterinary Science, College of Veterinary Medicine, Seoul National University, Seoul 151-742, Republic of Korea;
| | - Bo Cai
- Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu 610223, China; (L.T.); (R.X.); (B.C.)
| | - Byambasuren Mijidsuren
- Plant Protection Research Institute, Mongolian University of Life Sciences, Ulaanbaatar 210153, Mongolia;
| | - Bin Zhang
- College of Life Sciences and Technology, Inner Mongolia Normal University, Hohhot 010022, China;
| | - Xianguang Guo
- Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu 610223, China; (L.T.); (R.X.); (B.C.)
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3
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Living apart together: Morphological, spatial, and genetic differentiation of three sympatric rock lizard species (Lacertidae: Darevskia) of the Caucasus. ZOOL ANZ 2023. [DOI: 10.1016/j.jcz.2023.01.010] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
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4
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Nikolaev OD, Belova DA, Novikov BA, Simis IB, Petrosyan RK, Arakelyan MS, Komarova VA, Galoyan EA. Peculiarities of Thermal Biology in Two Parthenogenetic Rock Lizard Species, Darevskia armeniaca and Darevskia unisexualis, and One Bisexual Species, Darevskia valentini (Lacertidae, Squamata). BIOL BULL+ 2022. [DOI: 10.1134/s1062359022080155] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
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5
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Kurnaz M, Şahin MK, Eroğlu Aİ. Hidden Diversity in a Narrow Valley: Description of New Endemic Palearctic Rock Lizard Darevskia (Squamata: Lacertidae) Species from Northeastern Turkey. Zool Stud 2022; 61:e44. [PMID: 36349087 PMCID: PMC9588457 DOI: 10.6620/zs.2022.61-44] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/19/2021] [Accepted: 05/23/2022] [Indexed: 06/16/2023]
Abstract
Darevskia is a particularly species-rich radiation of Palearctic rock lizards from the Caucasus region. Thanks to intense systematic and taxonomic research, the knowledge of species-level diversity within this genus has increased over the last quarter century. Here, we described a new species, Darevskia salihae sp. nov. from northeastern Turkey. The new taxon is differentiated from other nearby taxon by the low number of dorsal scales in the middle of the body, the shorter body length, and the absence of blue dots both on the lateral region above the forelimbs and on the margin of the ventral plates. In addition to their morphological differences, the new taxon is phylogenetically different from close groups. It is located in a separate subclade from the rudis-valentini-portschinskii subclade. This distinction is supported by both a high bootstrap value (100) and a high posterior probability value (1.00). These two subclades are separated from each other by a genetic distance of almost 4%. This separation is supported not only genetically and morphologically, but also geographically. Since the habitat of the new taxon is limited to a high mountain and a narrow valley, it does not provide an opportunity for a different Darevskia species to shelter because it creates geographical isolation. However, Darevskia parvula that live closest to the habitat of the new taxon live only at the habitat boundaries and do not enter areas where the new taxon is found. Therefore, it might be possible that while it was separated from the rudis-valentini-portschinskii group during the evolutionary transformation, it remained as a refuge and relict in a narrow area as a result of the collapse of the valleys and the partial uplift of the Kaçkar Mountains.
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Affiliation(s)
- Muammer Kurnaz
- Gümüşhane University, Kelkit Vocational School of Health Services, Department of Medical Services and Techniques 29600, Kelkit /Gümüşhane, Turkey. E-mail: (Kurnaz)
| | - Mehmet Kürşat Şahin
- Department of Biology, Kamil Özdag Faculty of Science, Karamanoğlu Mehmetbey University, Karaman, Turkey. E-mail: (Şahin)
- Biodiversity Research Center, Karamanoğlu Mehmetbey University, Karaman, Turkey
| | - Ali İhsan Eroğlu
- Üniversite Neighborhood, Cengaver Street, No:5-C, Ay Yapı Bostancı Zirve Sites, 61080, Ortahisar /Trabzon, Turkey. E-mail: (Eroğlu)
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6
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Arakelyan M, Spangenberg V, Petrosyan V, Ryskov A, Kolomiets O, Galoyan E. Evolution of parthenogenetic reproduction in Caucasian rock lizards: A review. Curr Zool 2022; 69:128-135. [PMID: 37091994 PMCID: PMC10120964 DOI: 10.1093/cz/zoac036] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/26/2021] [Accepted: 04/30/2022] [Indexed: 11/13/2022] Open
Abstract
Abstract
Despite numerous works devoted to hybrid origin of parthenogenesis in reptiles, the causes of hybridization between different species, resulting in the origin of parthenogenetic forms, remain uncertain. Recent studies demonstrate that sexual species considered parental to parthenogenetic rock lizards (Darevskia spp) avoid interspecific mating in the secondary overlap areas. A specific combination of environmental factors during last glaciation period was critical for ectotherms, which led to a change in their distribution and sex ratio. Biased population structure (e.g., male bias) and limited available distributional range favoured the deviation of reproductive behaviour when species switched to interspecific mates. To date, at least seven diploid parthenogenetic species of rock lizards (Darevskia, Lacertidae) originated through interspecific hybridization in the past. The cytogenetic specifics of meiosis, in particular the weak checkpoints of prophase I, may have allowed the formation of hybrid karyotypes in rock lizards. Hybridization and polyploidization are two important evolutionary forces in the genus Darevskia. At present, throughout backcrossing between parthenogenetic and parental species, the triploid and tetraploid hybrid individuals appear annually, but no triploid species found among Darevskia spp on current stage of evolution. The speciation by hybridization with the long-term stage of diploid parthenogenetic species, non-distorted meiosis, together with the high ecological plasticity of Caucasian rock lizards provide us with a new model for considering the pathways and persistence of the evolution of parthenogenesis in vertebrates.
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Affiliation(s)
- Marine Arakelyan
- Department of Zoology, Yerevan State University, Yerevan 0025, Armenia
| | | | - Varos Petrosyan
- Severtsov Institute of Ecology and Evolution RAS, Moscow, Russia
| | | | | | - Eduard Galoyan
- Severtsov Institute of Ecology and Evolution RAS, Moscow, Russia
- Zoological Museum of Moscow State University, Russia
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7
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Freitas S, Westram AM, Schwander T, Arakelyan M, Ilgaz Ç, Kumlutas Y, Harris DJ, Carretero MA, Butlin RK. Parthenogenesis in Darevskia lizards: A rare outcome of common hybridization, not a common outcome of rare hybridization. Evolution 2022; 76:899-914. [PMID: 35323995 PMCID: PMC9324800 DOI: 10.1111/evo.14462] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Abstract
Hybridization is a common evolutionary process with multiple possible outcomes. In vertebrates, interspecific hybridization has repeatedly generated parthenogenetic hybrid species. However, it is unknown whether the generation of parthenogenetic hybrids is a rare outcome of frequent hybridization between sexual species within a genus or the typical outcome of rare hybridization events. Darevskia is a genus of rock lizards with both hybrid parthenogenetic and sexual species. Using capture sequencing, we estimate phylogenetic relationships and gene flow among the sexual species, to determine how introgressive hybridization relates to the origins of parthenogenetic hybrids. We find evidence for widespread hybridization with gene flow, both between recently diverged species and deep branches. Surprisingly, we find no signal of gene flow between parental species of the parthenogenetic hybrids, suggesting that the parental pairs were either reproductively or geographically isolated early in their divergence. The generation of parthenogenetic hybrids in Darevskia is, then, a rare outcome of the total occurrence of hybridization within the genus, but the typical outcome when specific species pairs hybridize. Our results question the conventional view that parthenogenetic lineages are generated by hybridization in a window of divergence. Instead, they suggest that some lineages possess specific properties that underpin successful parthenogenetic reproduction.
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Affiliation(s)
- Susana Freitas
- Department of Ecology and EvolutionUniversity of LausanneLausanneCH‐1015Switzerland
| | - Anja Marie Westram
- IST AustriaKlosterneuburg3400Austria,Faculty of Biosciences and AquacultureNord UniversityBodøN‐8049Norway
| | - Tanja Schwander
- Department of Ecology and EvolutionUniversity of LausanneLausanneCH‐1015Switzerland
| | | | - Çetin Ilgaz
- Department of Biology, Faculty of ScienceDokuz Eylül Universityİzmir35400Turkey,Fauna and Flora Research CentreDokuz Eylül Universityİzmir35610Turkey
| | - Yusuf Kumlutas
- Department of Biology, Faculty of ScienceDokuz Eylül Universityİzmir35400Turkey,Fauna and Flora Research CentreDokuz Eylül Universityİzmir35610Turkey
| | - David James Harris
- CIBIO Research Centre in Biodiversity and Genetic Resources, InBIOUniversidade do PortoCampus de VairãoVairão4485–661Portugal
| | - Miguel A. Carretero
- CIBIO Research Centre in Biodiversity and Genetic Resources, InBIOUniversidade do PortoCampus de VairãoVairão4485–661Portugal,Departamento de Biologia, Faculdade de CiênciasUniversidade do PortoPorto4169‐007Portugal
| | - Roger K. Butlin
- Department of Animal and Plant SciencesThe University of SheffieldSheffieldS10 2TNUnited Kingdom,Department of Marine SciencesUniversity of GothenburgGothenburgSE‐40530Sweden
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8
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Complete Mitochondrial Genomes of Five Racerunners (Lacertidae: Eremias) and Comparison with Other Lacertids: Insights into the Structure and Evolution of the Control Region. Genes (Basel) 2022; 13:genes13050726. [PMID: 35627111 PMCID: PMC9141765 DOI: 10.3390/genes13050726] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2022] [Revised: 04/15/2022] [Accepted: 04/18/2022] [Indexed: 12/04/2022] Open
Abstract
Comparative studies on mitochondrial genomes (mitogenomes) as well as the structure and evolution of the mitochondrial control region are few in the Lacertidae family. Here, the complete mitogenomes of five individuals of Eremias scripta (2 individuals), Eremias nikolskii, Eremias szczerbaki, and Eremias yarkandensis were determined using next-generation sequencing and were compared with other lacertids available in GenBank. The circular mitogenomes comprised the standard set of 13 protein-coding genes (PCGs), 22 transfer RNA genes, 2 ribosomal RNA genes and a long non-coding control region (CR). The extent of purifying selection was less pronounced for the COIII and ND2 genes in comparison with the rest of the PCGs. The codons encoding Leucine (CUN), Threonine, and Isolecucine were the three most frequently present. The secondary structure of rRNA of Lacertidae (herein, E. scripta KZL15 as an example) comprised four domains and 28 helices for 12S rRNA, with six domains and 50 helices for 16S rRNA. Five types and twenty-one subtypes of CR in Lacertidae were described by following the criteria of the presence and position of tandem repeats (TR), termination-associated sequence 1 (TAS1), termination-associated sequence 2 (TAS2), conserved sequence block 1 (CBS1), conserved sequence block 2 (CSB2), and conserved sequence block 3 (CSB3). The compositions of conserved structural elements in four genera, Acanthodactylus, Darevskia, Eremias, and Takydromus, were further explored in detail. The base composition of TAS2 – TATACATTAT in Lacertidae was updated. In addition, the motif “TAGCGGCTTTTTTG” of tandem repeats in Eremias and the motif ”GCGGCTT” in Takydromus were presented. Nucleotide lengths between CSB2 and CSB3 remained 35 bp in Eremias and Darevskia. The phylogenetic analyses of Lacertidae recovered the higher-level relationships among the three subfamilies and corroborated a hard polytomy in the Lacertinae phylogeny. The phylogenetic position of E. nikolskii challenged the monophyly of the subgenus Pareremias within Eremias. Some mismatches between the types of CR and their phylogeny demonstrated the complicated evolutionary signals of CR such as convergent evolution. These findings will promote research on the structure and evolution of the CR and highlight the need for more mitogenomes in Lacertidae.
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9
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A new cryptic species of the Darevskia parvula group from NE Anatolia (Squamata, Lacertidae). ORG DIVERS EVOL 2022. [DOI: 10.1007/s13127-022-00540-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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10
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OUP accepted manuscript. Biol J Linn Soc Lond 2022. [DOI: 10.1093/biolinnean/blac023] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]
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11
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Neiber MT, Walther F, Kijashko PV, Mumladze L, Hausdorf B. The role of Anatolia in the origin of the Caucasus biodiversity hotspot illustrated by land snails in the genus
Oxychilus. Cladistics 2021; 38:83-102. [DOI: 10.1111/cla.12479] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 06/11/2021] [Indexed: 12/01/2022] Open
Affiliation(s)
- Marco T. Neiber
- Center for Natural History (CeNak) Universität Hamburg Martin‐Luther‐King‐Platz 3 Hamburg 20146 Germany
| | - Frank Walther
- Center for Natural History (CeNak) Universität Hamburg Martin‐Luther‐King‐Platz 3 Hamburg 20146 Germany
| | - Pavel V. Kijashko
- Zoological Institute of the Russian Academy of Sciences 1 Universitetskaya Emb. Saint Petersburg 199034 Russia
| | - Levan Mumladze
- Institute of Zoology Ilia State University Kakutsa Cholokashvili Av., 3/5 Tbilisi 0162 Georgia
| | - Bernhard Hausdorf
- Center for Natural History (CeNak) Universität Hamburg Martin‐Luther‐King‐Platz 3 Hamburg 20146 Germany
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12
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Kirchhof S, Lyra ML, Rodríguez A, Ineich I, Müller J, Rödel MO, Trape JF, Vences M, Boissinot S. Mitogenome analyses elucidate the evolutionary relationships of a probable Eocene wet tropics relic in the xerophile lizard genus Acanthodactylus. Sci Rep 2021; 11:4858. [PMID: 33649347 PMCID: PMC7921649 DOI: 10.1038/s41598-021-83422-7] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2020] [Accepted: 01/25/2021] [Indexed: 11/09/2022] Open
Abstract
Climate has a large impact on diversity and evolution of the world's biota. The Eocene-Oligocene transition from tropical climate to cooler, drier environments was accompanied by global species turnover. A large number of Old World lacertid lizard lineages have diversified after the Eocene-Oligocene boundary. One of the most speciose reptile genera in the arid Palearctic, Acanthodactylus, contains two sub-Saharan species with unresolved phylogenetic relationship and unknown climatic preferences. We here aim to understand how and when adaptation to arid conditions occurred in Acanthodactylus and when tropical habitats where entered. Using whole mitogenomes from fresh and archival DNA and published sequences we recovered a well-supported Acanthodactylus phylogeny and underpinned the timing of diversification with environmental niche analyses of the sub-Saharan species A. guineensis and A. boueti in comparison to all arid Acanthodactylus. We found that A. guineensis represents an old lineage that splits from a basal node in the Western clade, and A. boueti is a derived lineage and probably not its sister. Their long branches characterize them-and especially A. guineensis-as lineages that may have persisted for a long time without further diversification or have undergone multiple extinctions. Environmental niche models verified the occurrence of A. guineensis and A. boueti in hot humid environments different from the other 42 arid Acanthodactylus species. While A. guineensis probably remained in tropical habitat from periods prior to the Eocene-Oligocene boundary, A. boueti entered tropical environments independently at a later period. Our results provide an important baseline for studying adaptation and the transition from humid to arid environments in Lacertidae.
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Affiliation(s)
- Sebastian Kirchhof
- New York University Abu Dhabi, Abu Dhabi, Saadiyat Island, United Arab Emirates.
| | - Mariana L Lyra
- Instituto de Biociências, Departamento de Biodiversidade and Centro de Aquicultura (CAUNESP), Universidade Estadual Paulista, Rio Claro, SP, CEP 13506-900, Brazil
| | - Ariel Rodríguez
- Institute of Zoology, University of Veterinary Medicine of Hannover, Bünteweg 17, 30559, Hannover, Germany
| | - Ivan Ineich
- Institut de Systématique, Évolution, Biodiversité (ISYEB), Muséum national d'Histoire naturelle, CNRS, Sorbonne Université, École Pratique des Hautes Études, Université des Antilles, CP 30, 57 rue Cuvier, 75005, Paris, France
| | - Johannes Müller
- Museum für Naturkunde, Leibniz Institute for Evolution and Biodiversity Science, Invalidenstr. 43, 10115, Berlin, Germany
| | - Mark-Oliver Rödel
- Museum für Naturkunde, Leibniz Institute for Evolution and Biodiversity Science, Invalidenstr. 43, 10115, Berlin, Germany
| | - Jean-François Trape
- Laboratoire de Paludologie et Zoologie médicale, IRD, UMR MIVEGEC, B. P. 1386, Dakar, Senegal
| | - Miguel Vences
- Zoological Institute, Technische Universität Braunschweig, Mendelssohnstr. 4, 38106, Braunschweig, Germany
| | - Stéphane Boissinot
- New York University Abu Dhabi, Abu Dhabi, Saadiyat Island, United Arab Emirates
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13
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Spangenberg V, Arakelyan M, Galoyan E, Martirosyan I, Bogomazova A, Martynova E, de Bello Cioffi M, Liehr T, Al-Rikabi A, Osipov F, Petrosyan V, Kolomiets O. Meiotic synapsis of homeologous chromosomes and mismatch repair protein detection in the parthenogenetic rock lizard Darevskia unisexualis. Mol Reprod Dev 2021; 88:119-127. [PMID: 33438277 DOI: 10.1002/mrd.23450] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2020] [Revised: 12/29/2020] [Accepted: 12/30/2020] [Indexed: 11/08/2022]
Abstract
Parthenogenetic species of Caucasian rock lizards of the genus Darevksia are important evidence for reticulate evolution and speciation by hybridization in vertebrates. Female-only lineages formed through interspecific hybridization have been discovered in many groups. Nevertheless, critical mechanisms of oogenesis and specifics of meiosis that provide long-term stability of parthenogenetic species are still unknown. Here we report cytogenetic characteristics of somatic karyotypes and meiotic prophase I nuclei in the diploid parthenogenetic species Darevskia unisexualis from the new population "Keti" in Armenia which contains an odd number of chromosomes 2n = 37, instead of the usual 2n = 38. We revealed 36 acrocentric chromosomes and a single metacentric autosomal chromosome, resulting from Robertsonian translocation. Comparative genomic hybridization revealed that chromosome fusion occurred between two chromosomes inherited from the maternal species, similar to another parthenogenetic species D. rostombekowi. To trace the chromosome behaviour in meiosis, we performed an immunocytochemical study of primary oocytes' spread nuclei and studied chromosome synapsis during meiotic prophase I in D. unisexualis based on analysis of synaptonemal complexes (SCs). We found meiotic SC-trivalent composed of one metacentric and two acrocentric chromosomes. We confirmed that the SC was assembled between homeologous chromosomes inherited from two parental species. Immunostaining of the pachytene and diplotene nuclei revealed a mismatch repair protein MLH1 loaded to all autosomal SC bivalents. Possible mechanisms of meiotic recombination between homeologous chromosomes are discussed.
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Affiliation(s)
| | - Marine Arakelyan
- Department of Zoology, Yerevan State University, Yerevan, Armenia
| | - Eduard Galoyan
- Severtsov Institute of Ecology and Evolution RAS, Moscow, Russia
| | | | - Alexandra Bogomazova
- Federal Research and Clinical Center of Physical-Chemical Medicine, Federal Medical Biological Agency, Moscow, Russia
| | - Elena Martynova
- Skolkovo Institute of Science and Technology, Moscow, Russia
| | - Marcelo de Bello Cioffi
- Laboratório de Citogenética de Peixes, UniversidadeFederal de São Carlos, São Carlos, SP, Brazil
| | - Thomas Liehr
- Institute of Human Genetics, Jena University Hospital, Friedrich Schiller University, Jena, Germany
| | - Ahmed Al-Rikabi
- Institute of Human Genetics, Jena University Hospital, Friedrich Schiller University, Jena, Germany
| | - Fedor Osipov
- Severtsov Institute of Ecology and Evolution RAS, Moscow, Russia
| | - Varos Petrosyan
- Severtsov Institute of Ecology and Evolution RAS, Moscow, Russia
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14
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Rato C, Stratakis M, Sousa‐Guedes D, Sillero N, Corti C, Freitas S, Harris DJ, Carretero MA. The more you search, the more you find: Cryptic diversity and admixture within the Anatolian rock lizards (Squamata,
Darevskia
). ZOOL SCR 2020. [DOI: 10.1111/zsc.12462] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
Affiliation(s)
- Catarina Rato
- CIBIO Research Centre in Biodiversity and Genetic Resources InBIO Universidade do Porto Vila do Conde Portugal
| | - Manos Stratakis
- Department of Biology School of Sciences and Engineering University of Crete Greece
- Natural History Museum of Crete School of Sciences and Engineering University of Crete Irakleio Greece
| | - Diana Sousa‐Guedes
- Centro de Investigação em Ciências Geo‐Espaciais (CICGE) Faculdade de Ciências da Universidade do Porto Vila Nova de Gaia Portugal
| | - Neftali Sillero
- Centro de Investigação em Ciências Geo‐Espaciais (CICGE) Faculdade de Ciências da Universidade do Porto Vila Nova de Gaia Portugal
| | - Claudia Corti
- Museo di Storia Naturale dell'Università di Firenze Firenze Italy
| | - Susana Freitas
- Department of Ecology and Evolution University of Lausanne Lausanne Switzerland
| | - D. James Harris
- CIBIO Research Centre in Biodiversity and Genetic Resources InBIO Universidade do Porto Vila do Conde Portugal
- Departamento de Biologia Faculdade de Ciências da Universidade do Porto Porto Portugal
| | - Miguel A. Carretero
- CIBIO Research Centre in Biodiversity and Genetic Resources InBIO Universidade do Porto Vila do Conde Portugal
- Departamento de Biologia Faculdade de Ciências da Universidade do Porto Porto Portugal
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15
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Tarkhnishvili D, Yanchukov A, Şahin MK, Gabelaia M, Murtskhvaladze M, Candan K, Galoyan E, Arakelyan M, Iankoshvili G, Kumlutaş Y, Ilgaz Ç, Matur F, Çolak F, Erdolu M, Kurdadze S, Barateli N, Anderson CL. Genotypic similarities among the parthenogenetic Darevskia rock lizards with different hybrid origins. BMC Evol Biol 2020; 20:122. [PMID: 32938384 PMCID: PMC7493426 DOI: 10.1186/s12862-020-01690-9] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2020] [Accepted: 09/10/2020] [Indexed: 01/13/2023] Open
Abstract
BACKGROUND The majority of parthenogenetic vertebrates derive from hybridization between sexually reproducing species, but the exact number of hybridization events ancestral to currently extant clonal lineages is difficult to determine. Usually, we do not know whether the parental species are able to contribute their genes to the parthenogenetic vertebrate lineages after the initial hybridization. In this paper, we address the hypothesis, whether some genotypes of seven phenotypically distinct parthenogenetic rock lizards (genus Darevskia) could have resulted from back-crosses of parthenogens with their presumed parental species. We also tried to identify, as precise as possible, the ancestral populations of all seven parthenogens. RESULTS We analysed partial mtDNA sequences and microsatellite genotypes of all seven parthenogens and their presumed ansectral species, sampled across the entire geographic range of parthenogenesis in this group. Our results confirm the previous designation of the parental species, but further specify the maternal populations that are likely ancestral to different parthenogenetic lineages. Contrary to the expectation of independent hybrid origins of the unisexual taxa, we found that genotypes at multiple loci were shared frequently between different parthenogenetic species. The highest proportions of shared genotypes were detected between (i) D. sapphirina and D. bendimahiensis and (ii) D. dahli and D. armeniaca, and less often between other parthenogens. In case (ii), genotypes at the remaining loci were notably distinct. CONCLUSIONS We suggest that both observations (i-ii) can be explained by two parthenogenetic forms tracing their origin to a single initial hybridization event. In case (ii), however, occasional gene exchange between the unisexual and the parental bisexual species could have taken place after the onset of parthenogenetic reproduction. Indeed, backcrossed polyploid hybrids are relatively frequent in Darevskia, although no direct evidence of recent gene flow has been previously documented. Our results further suggest that parthenogens are losing heterozygosity as a result of allelic conversion, hence their fitness is expected to decline over time as genetic diversity declines. Backcrosses with the parental species could be a rescue mechanism which might prevent this decline, and therefore increase the persistance of unisexual forms.
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Affiliation(s)
| | | | - Mehmet Kürşat Şahin
- Faculty of Science, Department of Biology, Hacettepe University, Ankara, Turkey
| | - Mariam Gabelaia
- Institute of Ecology, Ilia State University, Tbilisi, Georgia
| | | | - Kamil Candan
- Faculty of Science, Department of Biology, Dokuz Eylül University, İzmir, Turkey
| | | | | | | | - Yusuf Kumlutaş
- Faculty of Science, Department of Biology, Dokuz Eylül University, İzmir, Turkey
| | - Çetin Ilgaz
- Faculty of Science, Department of Biology, Dokuz Eylül University, İzmir, Turkey
| | - Ferhat Matur
- Faculty of Science, Department of Biology, Dokuz Eylül University, İzmir, Turkey
| | - Faruk Çolak
- Zonguldak Bülent Ecevit University, Zonguldak, Turkey
| | - Meriç Erdolu
- Middle East Technical University, Faculty of Science, Department of Biology, Ankara, Turkey
| | - Sofiko Kurdadze
- Institute of Ecology, Ilia State University, Tbilisi, Georgia
| | - Natia Barateli
- Institute of Ecology, Ilia State University, Tbilisi, Georgia
| | - Cort L Anderson
- Institute of Ecology, Ilia State University, Tbilisi, Georgia
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16
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Tarkhnishvili D, Gabelaia M, Adriaens D. Phenotypic divergence, convergence and evolution of Caucasian rock lizards (Darevskia). Biol J Linn Soc Lond 2020. [DOI: 10.1093/biolinnean/blaa021] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
AbstractPhenotypic evolution can cause either divergent or convergent phenotypic patterns. Even adaptation to the same environment may result in divergence of some elements of phenotype, whereas for other morphological traits it could cause phenotypic convergence. We hypothesize that at least some phenotypic characters diverge monotonically, hence they evolve irreversibly even in very closely related species, and this happens in spite of multiple convergent adaptive patterns. We studied the evolution of phenotype in 13 closely related Caucasian rock lizards (Darevskia), whose phylogenetic relationships are well known. We used head shape and the outlines of three important scales, using geometric morphometrics. We studied the association of the overall head shape, individual principal components of head shape and scale outlines with four predictors: phylogeny, habitat, sex and size. The overall head shape was not correlated with any of these predictors, whereas some principal components were correlated with habitat or phylogeny. Habitat type explained the highest fraction of variation in head shape and anal scale area. The relatedness inferred from the components of phenotype not correlated with habitat was congruent with the phylogenetic tree inferred from molecular data. Although adaptation to local environments may obscure the phylogenetic signal present in phenotype, there are components of phenotype whose evolution is irreversible.
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Affiliation(s)
- David Tarkhnishvili
- Ilia State University, Institute of Ecology, School of Natural Sciences and Engineering, Kakutsa Cholokashvili Ave 3/5, Tbilisi, Georgia
| | - Mariam Gabelaia
- Ilia State University, Institute of Ecology, School of Natural Sciences and Engineering, Kakutsa Cholokashvili Ave 3/5, Tbilisi, Georgia
| | - Dominique Adriaens
- Ghent University, Evolutionary Morphology of Vertebrates, K. L. Ledeganckstraat 35, Gent, Belgium
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