Effects of landscape features and demographic history on the genetic structure of Testudo marginata populations in the southern Peloponnese and Sardinia

Biological Journal of the Linnean Society

Volumn 105, Issue 3, 2012, Pages 591-606

  Perez, Melanie ^a   Leblois, Raphael ^a   Livoreil, Barbara ^b   Bour, Roger ^a   Lambourdiere, Josie ^a   Samadi, Sarah ^a   Boisselier, Marie Catherine ^a  

^a MUSÉUM NATIONAL D'HISTOIRE NATURELLE   (France)

^b UMR 7205 MNHN/CNRS ^*  (France)

Author keywords

Bottleneck; Clustering method; Gene flow; Greece; Isolation by distance; Migration; Morphology; Phenotypic plasticity; Testudo weissingeri

Indexed keywords

CLUSTER ANALYSIS; CONSERVATION GENETICS; DEMOGRAPHIC HISTORY; GENE FLOW; GENETIC MARKER; GENETIC STRUCTURE; HABITAT FRAGMENTATION; HUMAN ACTIVITY; LANDSCAPE CHANGE; MIGRATORY BEHAVIOR; MORPHOLOGY; PHENOTYPIC PLASTICITY; POPULATION BOTTLENECK; TRADITIONAL AGRICULTURE; TURTLE;

GREECE; ITALY; PELOPONNESE; SARDINIA;

TESTUDINES; TESTUDINIDAE; TESTUDO MARGINATA; TESTUDO WEISSINGERI;

EID: 84856451562     PISSN: 00244066     EISSN: 10958312     Source Type: Journal    
DOI: 10.1111/j.1095-8312.2011.01805.x     Document Type: Article

References (60)

1. Abdelkrim J, Pascal M, Samadi S. 2005. Island colonization and founder effects: the invasion of the Guadeloupe islands by ship rats (Rattus rattus). Molecular Ecology 14: 2923-2931.
2. Angelini G. 1899. Notizie de osservazioni intorno alla naturalizzazione della Testudo nemoralis 'Aldrov.' in Sardegna. Bollettino della Società Romana degli studi zoologici 8: 50-52.
3. Artner H. 1996. Beobachtungen an der Zwerg-Breitrandschildkröte Testudo weissingeri in Messenien/Griechenland und Diskussion über die Validität ihres Artstatus. Emys 3: 5-12.
4. Ballasina D. 1995. Distribuzione e situazione delle tartarughe terrestri in Italia. In: Ballasina D, ed. Data book on Mediterranean chelonians. Bologna: Edagricole-Edizioni Agricole, 147-160.
5. Beaumont MA. 1999. Detecting population expansion and decline using microsatellites. Genetics 153: 2013-2029.
6. Belkhir K, Borsa P, Chikhi L, Raufaste N, Bonhomme F. 19962004. Genetix 4.05.2, Logiciel sous Windows TM pour la Génétique des Populations. Laboratoire Génome, Populations, Interactions, CNRS, Université Montpellier II, France.
7. Bour R. 1995. Une nouvelle espèce de tortue terrestre dans le Péloponnèse (Grèce). Dumerilia 2: 23-54.
8. Bringsøe H, Buskirk JR, Willemsen RE. 2001. Testudo marginata Schoepff, 1792-Breitrandschildkröte. In: Fritz U, ed. Handbuch der Reptilien und Amphibien Europas. Band 3/IIIA. Wiebelsheim: Aula-Verlag, 291-334.
9. Bruno S. 1986. Guida a Tartarughe e Sauri d'Italia. Florence: Giunti Martello.
10. Chapuis MP, Estoup A. 2007. Microsatellite null alleles and estimation of population differentiation. Molecular Biology and Evolution 24: 621-631.
11. Chikhi L, Sousa V, Luisi P, Goossens B, Beaumont MA. 2010. The confounding effects of population structure, genetic diversity and the sampling scheme on the detection and quantification of population size changes. Genetics 186: 983-995.
12. Ciofi C, Beaumont MA, Swingland IR, Bruford MW. 1999. Genetic divergence and units for conservation in the Komodo dragon Varanus komodoensis. Proceedings of the Royal Society of London B 266: 2269-2274.
13. Cunningham J, Baard EHW, Harley EH, O'Ryan C. 2002. Investigation of genetic diversity in fragmented geometric tortoise (Psammobates geometricus) populations. Conservation Genetics 3: 215-223.
14. Evanno G, Regnaut S, Goudet J. 2005. Detecting the number of clusters of individuals using the software Structure: a simulation study. Molecular Ecology 14: 2611-2620.
15. Excoffier L, Laval G, Schneider S. 2005. Arlequin ver. 3.0: an integrated software package for population genetics data analysis. Evolutionary Bioinformatics Online 1: 47-50.
16. Excoffier L, Smouse P, Quattro J. 1992. Analysis of molecular variance inferred from metric distances among DNA haplotypes: application to human mitochondrial DNA restriction data. Genetics 131: 479-491.
17. Faubert P, Waples R, Gaggiotti O. 2007. Evaluating the performance of a multilocus Bayesian method for an estimation of migration rates. Molecular Ecology 16: 1149-1166.
18. Forlani A, Crestanello B, Mantovani S, Livoreil B, Zane L, Bertorelle G, Congiu L. 2005. Identification and characterization of microsatellite markers in Hermann's tortoise (Testudo hermanni, Testudinidae). Molecular Ecology Notes 5: 228-230.
19. Fritz U, Daniels SR, Hofmeyr MD, González J, Barrio-Amorós CL, Široký P, Hundsdörfer AK, Stuckas H. 2010. Mitochondrial phylogeography and subspecies of the wide-ranging sub-Saharan leopard tortoise Stigmochelys pardalis (Testudines: Testudinidae) - a case study for the pitfalls of pseudogenes and GenBank sequences. Journal of Zoological Systematics and Evolutionary Research 48: 348-359.
20. Fritz U, Peters G, Matzanke W, Matzanke M. 1995. Zur Schildkrötenfauna Nordsardiniens (1). Herpetofauna 99: 29-34.
21. Fritz U, Siroky P, Kami H, Wink M. 2005. Environmentally caused dwarfism or a valid species - Is Testudo weissingeri Bour, 1996 a distinct evolutionary lineage? New evidence from mitochondrial and nuclear genomic markers. Molecular Phylogenetics and Evolution 37: 389-401.
22. Fujii A, Forstner MRJ. 2010. Genetic variation and population structure of the Texas tortoise, Gopherus berlandieri (Testudinidae), with implications for conservation. Chelonian Conservation and Biology 9: 61-69.
23. Garza JC, Williamson EG. 2001. Detection of reduction in population size using data from microsatellite loci. Molecular Ecology 10: 305-318.
24. Geffen E, Mendelssohn H. 1988. Home range and seasonal movements of the Egyptian tortoise (Testudo kleinmanni) in the northwestern Negev, Israel. Herpetologica 44: 354-359.
25. Girod C, Vitalis R, Leblois R, Freville H. 2011. Inferring population decline and expansion from microsatellite data: a simulation-based evaluation of the MSVAR method. Genetics 188: 165-179.
26. Graciá E, Gimérez A, Anadón JD, Botella F, García-Martínez S, Marín M. 2011. Genetic patterns of a range expansion: the spur-thighed tortoise Testudo graeca graeca in southeastern Spain. Amphibia-Reptilia 32: 49-61.
27. Guillot G, Santos F, Estoup A. 2008. Analysing georeferenced population genetics data with Geneland: a new algorithm to deal with null alleles and a friendly graphical user interface. BioInformatics 24: 1406-1407.
28. Hagerty BE, Tracy CR. 2010. Defining population structure for the Mojave desert tortoise. Conservation genetics 11: 1795-1807.
29. Hey J, Nielsen R. 2004. Multilocus methods for estimating population sizes, migration rates and divergence time, with applications to the divergence of Drosophila pseudoobscura and D.persimilis. Genetics 167: 747-760.
30. Howeth JG, McGaugh SE, Hendrickson DA. 2008. Contrasting demographic and genetic estimates of dispersal in the endangered Coahuilan box turtle: a contemporary approach to conservation. Molecular Ecology 17: 4209-4221.
31. IUCN. 2010. IUCN Red List of Threatened Species. Version-2010.1. Available at:
32. Kalinowski ST. 2005. hp-rare 1.0: a computer program for performing rarefaction on measures of allelic richness. Molecular Ecology Notes 5: 187-189.
33. Lagarde F, Bonnet X, Henen B, Legrand A, Corbin J, Nagy K, Naulleau G. 2003. Sex divergence in space utilisation in the steppe tortoise (Testudo horsfieldi). Canadian Journal of Zoology 81: 380-387.
34. Leblois R, Estoup A, Streiff R. 2006. Genetics of recent habitat contraction and reduction in population size: does isolation by distance matter? Molecular Ecology 15: 3601-3615.
35. Martel C, Re'jasse A, Rousset F, Bethenod MT, Bourget D. 2003. Host-plant associated genetic differentiation in northern French populations of the European corn borer. Heredity 90: 141-149.
36. Mayer R. 1992. Europäische landschildkröten. Kempten, Allgäu: Leben-Haltung-Zucht.
37. Moritz C. 1999. Conservation units and translocations: strategies for conserving evolutionary processes. Hereditas 130: 217-228.
38. Nougarède JP. 1998. Principaux Traits d'Histoire Naturelle d'une Population de Tortue d'Hermann (Testudo hermanni) dans le Sud de la Corse. D. Phil. Thesis, École Pratique des Hautes Études, Montpellier, France.
39. Perälä J. 2002. Biodiversity relatively neglected taxa of Testudo L., 1758 S. L. Chelonii 3: 40-53.
40. Perez M. 2007. Etude génétique, morphologique et éco-éthologique de populations de tortues du complexe 'Testudo marginata ' en Grèce et en Sardaigne: existe-t-il plusieurs espèces? D. Phil. Thesis, MNHN, France.
41. Perez M, Bour R, Lambourdiere J, Samadi S, Boisselier MC. 2006. Isolation and characterization of eight microsatellite loci for the study of gene flow between Testudo marginata and Testudo weissingeri (Testudines: Testudinidae). Molecular Ecology Notes 6: 1096-1098.
42. Piry S, Luikart G, Cornuet J. 1999. Bottleneck: a computer program for detecting recent reductions in the effective population size using allele frequency data. Journal of Heredity 90: 502-503.
43. Pritchard JK, Stephens M, Donnelly P. 2000. Inference of population structure using multilocus genotype data. Genetics 155: 945-959.
44. R Development Core Team. 2007. A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. ISBN 3-900051-07-0, URL
45. Rhodin AGJ, van Dijk PP, Iverson JB, Shaffer HB. 2010. Turtles of the World, 2010 Update: annotated checklist of taxonomy, synonymy, distribution, and conservation status. Chelonian Research Monographs 5: 85-164. Available at:
46. Rice WR. 1989. Analysing tables of statistical tests. Evolution 43: 223-225.
47. Rioux Paquette S, Behncke SM, O'Brien SH, Brenneman RA, Louis JEE, Lapointe FJ. 2007. Riverbeds demarcate distinct conservation units of the radiated tortoise (Geochelone radiata) in southern Madagascar. Conservation Genetics 8: 797-807.
48. Rousset F. 1997. Genetic differentiation and estimation of gene flow from F-statistics under isolation by distance. Genetics 145: 1219-1228.
49. Rousset F. 1999. Genetic differentiation within and between two habitats. Genetics 151: 397-407.
50. Rousset F. 2000. Genetic differentiation between individuals. Journal of Evolutionary Biology 13: 58-62.
51. Rousset F. 2004. Genetic structure and selection in subdivided populations. Princeton, NJ: Princeton University Press.
52. Rousset F. 2008. genepop'007: a complete re-implementation of the genepop software for Windows and Linux. Molecular Ecology Resources 8: 103-106.
53. Stiner MC, Munro ND, Surovell TA, Tchernov E, Bar-Yosef O. 1999. Paleolithic population growth pulses evidenced by small animal exploitation. Science 283: 190-194.
54. Storz JF, Beaumont MA. 2002. Testing for genetic evidence of population expansion and contraction: an empirical analysis of microsatellite DNA variation using a hierarchical Bayesian model. Evolution 56: 156-166.
55. Stuart BL, Rhodin AGJ, Grismer LL, Hansel T. 2006. Scientific description can imperil species. Science 312: 1137.
56. Tiedemann F. 1978. Herpetologische Aufsammlungen in Nordsardinien. Annalen des Naturhistorischen Museums in Wien 81: 447-463.
57. Van der Kuyl AC, Ballasina DLP, Dekker JT, Maas H, Willemsen RE, Goudsmit J. 2002. Phylogenetic relationship among the species of the genus Testudo (Testudines: Testudinidae) inferred from mitochondrial 12S RRNA gene sequences. Molecular Phylogentics and Evolution 22: 174-183.
58. Van Oosterhout C, Hutchinson WF, Wills DPM, Shipley PF. 2004. Microchecker: software for identifying and correcting genotyping errors in microsatellite data. Molecular Ecology Notes 4: 535-538.
59. Weir BS, Cockerham CC. 1984. Estimating F-statistics for the analysis of population structure. Evolution 38: 1358-1370.
60. Wilson GA, Rannala B. 2003. Bayesian inference of recent migration rates using multilocus genotypes. Genetics 163: 1177-1191.