Past bottlenecks and current population fragmentation of endangered huemul deer (Hippocamelus bisulcus): Implications for preservation of genetic diversity

Conservation Genetics

Volumn 12, Issue 1, 2011, Pages 119-128

  Corti, Paulo ^a,c   Shafer, Aaron B A ^b   Coltman, David W ^b   Festa Bianchet, Marco ^a  

^a UNIVERSITÉ DE SHERBROOKE   (Canada)

^b UNIVERSITY OF ALBERTA   (Canada)

^c UNIVERSIDAD AUSTRAL DE CHILE   (Chile)

Author keywords

Endangered; Genetic variability; Hippocamelus bisulcus; Huemul deer; Inbreeding; Ungulate

Indexed keywords

CONSERVATION GENETICS; DEER; ENDANGERED SPECIES; ENDEMIC SPECIES; GENETIC MARKER; HABITAT CONSERVATION; HABITAT CORRIDOR; HABITAT FRAGMENTATION; HUMAN SETTLEMENT; POPULATION DECLINE; POPULATION DISTRIBUTION; POPULATION ESTIMATION; POPULATION GENETICS; POPULATION SIZE; PROTECTED AREA;

ANDES; ARGENTINA; CHILE;

CERVIDAE; HIPPOCAMELUS BISULCUS; UNGULATA;

EID: 78650994357     PISSN: 15660621     EISSN: 15729737     Source Type: Journal    
DOI: 10.1007/s10592-009-9997-7     Document Type: Article

References (78)

1. Anderson JD, Honeycutt RL, Gonzales RA, Gee KL, Skow LC, Gallagher RL, Honeycutt DA, DeYoung RW (2002) Development of microsatellite DNA markers for the automated genetic characterization of white-tailed deer populations. J Wildl Manag 66: 67-74.
2. Banks SC, Piggott MP, Stow AJ, Taylor AC (2007) Sex and sociality in a disconnected world: a review of the impacts of habitat fragmentation on animal social interactions. Can J Zool 85: 1065-1079.
3. Barendse W, Armitage SM, Kossarek LM et al (1994) A genetic-linkage map of the bovine genome. Nat Genet 6: 227-235.
4. Bishop MD, Kappes SM, Keele JW, Stone RT, Sunden SLF, Hawkins GA, Toldo SS, Fries R, Grosz MD, Yoo JY, Beattie CW (1994) A genetic-linkage map for cattle. Genetics 136: 619-639.
5. Brashares JS, Arcese P, Sam MK (2001) Human demography and reserve size predict wildlife extinction in West Africa. Proc R Soc Lond B Biol Sci 268: 2473-2478.
6. Brezinsky L, Kemp SJ, Teale AJ (1993) 5 Polymorphic bovine microsatellites (Ilsts010-014). Anim Genet 24: 75-76.
7. Buchanan FC, Crawford AM (1993) Ovine microsatellites at the OarFCB11, OarFCB128, OarFCB193, OarFCB266 and OarFCB304 loci. Anim Genet 24: 145.
8. Cabrera A, Yepes J (1960) Mamíferos sudamericanos, 2nd edn. Edian, Buenos Aires.
9. Caro TM, Laurenson MK (1994) Ecological and genetic factors in conservation: a cautionary tale. Science 263: 485-486.
10. Caughley G (1994) Directions in conservation biology. J Anim Ecol 63: 215-244.
11. Caughley G, Gunn A (1996) Conservation biology in theory and practice. Blackwell Science, Cambridge.
12. Cornuet JM, Luikart G (1996) Description and power analysis of two tests for detecting recent population bottlenecks from allele frequency data. Genetics 144: 2001-2014.
13. Corti P (2008) Organisation sociale, dynamique de population, et conservation du cerf huemul (Hippocamelus bisulcus) dans la Patagonie du Chili. Département de biologie, Université de Sherbrooke, Sherbrooke, p xv+143.
14. Corti P, Wittmer HU, Festa-Bianchet M (in press) Dynamics of a small population of endangered huemul deer (Hippocamelus bisulcus) in Chilean Patagonia. J Mamm.
15. Cosse M, Gonzalez S, Maldonado JE (2007) Cross amplification tests of ungulate primers in the endangered neotropical pampas deer (Ozotoceros bezoarticus). Genet Mol Res 6: 1118-1122.
16. Couvet D (2002) Deleterious effects of restricted gene flow in fragmented populations. Conserv Biol 16: 276-369.
17. Crawford AM, Dodds KG, Ede AJ et al (1995) An autosomal genetic-linkage map of the sheep genome. Genetics 140: 703-724.
18. Dewoody JA, Honeycutt RL, Skow LC (1995) Microsatellite markers in white-tailed deer. J Hered 86: 317-319.
19. Diaz NI, Smith-Flueck JAM (2000) El huemul patagónico: un misterioso cérvido al borde de la extinción. L. O. L. A. (Literature of Latin America), Buenos Aires.
20. Donoso PJ, Otero LA (2005) Towards a definition of a forest country: where is Chile located? Bosque 26: 5-18.
21. Dudash M, Fenster C (2000) Inbreeding and outbreeding depression in fragmented populations. In: Young AG, Clarke GM (eds) Genetics, demography and viability of fragmented populations. Cambridge University Press, New York, pp 35-53.
22. Estoup A, Angers B (1998) Microsatellites and minisatellites for molecular ecology: theoretical and empirical considerations. In: Carvalho G (ed) Advances in molecular ecology. IOS Press, Amsterdam, pp 55-86.
23. Fahrig L (2002) Effect of habitat fragmentation on the extinction threshold: a synthesis. Ecol Appl 12: 346-353.
24. Flueck WT, Smith-Flueck JM (2006) Predicaments of endangered huemul deer, Hippocamelus bisulcus, in Argentina: a review. Eur J Wildl Res 52: 69-80.
25. Forbes SH, Hogg JT (1999) Assessing population structure at high levels of differentiation: microsatellite comparisons of bighorn sheep and large carnivores. Anim Conserv 2: 223-233.
26. Frankham R, Briscoe DA, Ballou JD (2002) Introduction to conservation genetics. Cambridge University Press, Cambridge.
27. Frid A (1994) Observations on habitat use and social organization of a huemul Hippocamelus bisulcus coastal population in Chile. Biol Conserv 67: 13-19.
28. Garza JC, Williamson EG (2001) Detection of reduction in population size using data from microsatellite loci. Mol Ecol 10: 305-318.
29. Gilbert C, Ropiquet A, Hassanin A (2006) Mitochondrial and nuclear phylogenies of Cervidae (Mammalia, Ruminantia): systematics, morphology, and biogeography. Mol Phylogenet Evol 40: 101-117.
30. Gill R, Saucedo C, Aldridge D, Morgan G (2008) Ranging behaviour of huemul in relation to habitat and landscape. J Zool 274: 254-260.
31. Goñi R, Barrientos G, Figuerero MJ, Mengoni GL, Mena F, Lucero V, Reyes O (2004) Distribución espacial de entierros en la cordillera de Patagonia centro-meridional (Lago salitroso-Paso Roballos Arg/Entrada Baker-Río Chacabuco Ch). Chungará 36: 1101-1107.
32. Goudet J (2000) FSTAT, a program to estimate and test gene diversities and fixation indices, version 2.9.1. Department of Ecology and Evolution, University of Lausanne, Lausanne, Switzerland. http://www. unil. ch/izea/softwares/fstat. html.
33. Grosz MD, Solinas Toldo S, Stone RT et al (1997) Chromosomal localization of six bovine microsatellite markers. Anim Genet 28: 39-40.
34. Guo SW, Thompson EA (1992) Performing the exact test of Hardy-Weinberg proportion for multiple alleles. Biometrics 48: 361-372.
35. Hailer F, Helander B, Folkestad AO, Ganusevich SA, Garstad S, Hauff P, Koren C, Nygård T, Volke V, Vilà C, Ellegren H (2006) Bottlenecked but long-lived: high genetic diversity retained in white-tailed eagles upon recovery from population decline. Biol Lett 2: 316-319.
36. Hanski I, Gilpin ME (eds) (1997) Metapopulation biology: ecology, genetics, and evolution. Academic Press, San Diego.
37. Hedrick PW (1994) Purging inbreeding depression and the probability of extinction: full-sib mating. Heredity 73: 363-372.
38. Hewitt G (2000) The genetic legacy of the quaternary ice ages. Nature 405: 907-913.
39. IUCN (2009) IUCN red list of threatened species. Version 2009. 1. http://www. iucnredlist. org. Accessed 12 Oct 2009.
40. Johansson M, Primmer CR, Merilä J (2007) Does habitat fragmentation reduce fitness and adaptability? A case study of the common frog (Rana temporaria). Mol Ecol 16: 2693-2700.
41. Jones KC, Levine KF, Banks JD (2000) DNA-based genetic markers in black-tailed and mule deer for forensic applications. Calif Fish Game 86: 115-126.
42. Kaeuffer R, Coltman DW, Chapuis JL, Pontier D, Réale D (2007) Unexpected heterozygosity in an island mouflon population founded by a single pair of individuals. Proc R Soc Lond B Biol Sci 274: 527-533.
43. Kalinowski ST, Taper ML, Marshall TC (2007) Revising how the computer program CERVUS accommodates genotyping error increases success in paternity assignment. Mol Ecol 16: 1099-1106.
44. Keller LF, Waller DM (2002) Inbreeding effects in wild populations. Trends Ecol Evol 17: 230-241.
45. Kirkpatrick M, Jarne P (2000) The effects of a bottleneck on inbreeding depression and the genetic load. Am Nat 155: 154-167.
46. Kuo CH, Janzen FJ (2003) BOTTLESIM: a bottleneck simulation program for long-lived species with overlapping generations. Mol Ecol Notes 3: 669-673.
47. Lande R (1988) Genetics and demography in biological conservation. Science 241: 1455-1460.
48. Leite KCE, Collevatti RG, Menegasso TR, Tomas WM, Duarte JMB (2007) Transferability of microsatellite loci from Cervidae species to the endangered Brazilian marsh deer, Blastocerus dichotomus. Genet Mol Res 6: 325-330.
49. Lippé C, Dumont P, Bernatchez L (2006) High genetic diversity and no inbreeding in the endangered copper redhorse, Moxostoma hubbsi (Catostomidae, Pisces): the positive sides of a long generation time. Mol Ecol 15: 1769-1780.
50. Luikart G, Cornuet JM (1999) Estimating the effective number of breeders from heterozygote excess in progeny. Genetics 151: 1211-1216.
51. Mainguy J, Llewellyn AS, Worsley K, Côté SD, Coltman DW (2005) Characterization of 29 polymorphic artiodactyl microsatellite markers for the mountain goat (Oreamnos americanus). Mol Ecol Notes 5: 809-811.
52. Moore SS, Byrne K, Berger KT et al (1994) Characterization of 65 bovine microsatellites. Mamm Genome 5: 84-90.
53. Newman D, Tallmon DA (2001) Experimental evidence for beneficial fitness effects of gene flow in recently isolated populations. Conserv Biol 15: 1054-1063.
54. Nunney L (1999) The effective size of a hierarchically structured population. Evolution 53: 1-10.
55. Pérez T, Albornoz J, Domínguez A (2002) Phylogeography of chamois (Rupicapra spp.) inferred from microsatellites. Mol Phylogenet Evol 25: 524-534.
56. Piry S, Luikart G, Cornuet JM (1999) BOTTLENECK: a computer program for detecting recent reductions in the effective population size using allele frequency data. J Hered 90: 502-503.
57. Poissant J, Shafer ABA, Mainguy J, Davis CS, Côté SD, Hogg JT, Coltman DW (2009) Genome-wide cross-amplification of domestic sheep microsatellite loci in bighorn sheep and mountain goats. Mol Ecol Resour 9: 1121-1126.
58. Povilitis A (1998) Characteristics and conservation of a fragmented population of huemul Hippocamelus bisulcus in central Chile. Biol Conserv 86: 97-104.
59. Raymond M, Rousset F (1995) GENEPOP (version 1. 2): population genetics software for exact tests and ecumenicism. J Hered 86: 248-249.
60. Redford KH, Eisenberg JF (1992) Mammals of the neotropics. Vol. 2. The southern cone: Chile, Argentina, Uruguay, Paraguay. University of Chicago Press, Chicago.
61. Rice WR (1989) Analyzing tables of statistical tests. Evolution 43: 223-225.
62. ® macro that aligns and converts output to binary. Biotechniques 37: 186-188.
63. Sarre SD, Georges A (2009) Genetics in conservation and wildlife management: a revolution since Caughley. Wildl Res 36: 70-80.
64. Sinclair ARE, Fryxell JM, Caughley G (2006) Wildlife ecology, conservation, and management, 2nd edn. Blackwell Pub, Malden.
65. Spielman D, Brook BW, Frankham R (2004) Most species are not driven to extinction before genetic factors impact them. Proc Natl Acad Sci USA 101: 15261-15264.
66. Steffen P, Eggen A, Dietz AB et al (1993) Isolation and mapping of polymorphic microsatellites in cattle. Anim Genet 24: 121-124.
67. Vaiman D, Osta R, Mercier D, Grohs C, Leveziel H (1992) Characterization of 5 new bovine dinucleotide repeats. Anim Genet 23: 537-541.
68. van Oosterhout C, Hutchinson WF, Wills DPM, Shipley P (2004) MICRO-CHECKER: software for identifying and correcting genotyping errors in microsatellite data. Mol Ecol Notes 4: 535-538.
69. Velásquez H, Mena F, Trejo V, Reyes O (2005) Historical and archaeological overview of XIX-XX centuries, transition at Aisen's mountain range. Werken 7: 5-20.
70. Vila AR, López R, Pastore H, Faúndez R, Serret A (2006) Current distribution and conservation of the huemul (Hippocamelus bisulcus) in Argentina and Chile. Mastozool Neotrop 13: 263-269.
71. Wang J, Hill WG, Charlesworth D, Charlesworth B (1999) Dynamics of inbreeding depression due to deleterious mutations in small populations: mutation parameters and inbreeding rate. Genet Res 74: 165-178.
72. Weir BS, Cockerman CC (1984) Estimating F-statistics for the analysis of population structure. Evolution 38: 1358-1370.
73. Wilson GA, Strobeck C (1999) The isolation and characterization of microsatellite loci in bison, and their usefulness in other artiodactyls. Anim Genet 30: 226-227.
74. Wilson GA, Strobeck C, Wu L, Coffin JW (1997) Characterization of microsatellite loci in caribou Rangifer tarandus, and their use in other artiodactyls. Mol Ecol 6: 697-699.
75. Wilson GA, Nishi JS, Elkin BT, Strobeck C (2005) Effects of a recent founding event and intrinsic population dynamics on genetic diversity in an ungulate population. Conserv Genet 6: 905-916.
76. Woodroffe R, Ginsberg JR (1998) Edge effects and the extinction of populations inside protected areas. Science 280: 2126-2128.
77. Worley K, Strobeck C, Arthur S, Carey J, Schwantje H, Veitch A, Coltman DW (2004) Population genetic structure of North American thinhorn sheep (Ovis dalli). Mol Ecol 13: 2545-2556.
78. Young AG, Clarke GM (2000) Genetics, demography, and viability of fragmented populations. Cambridge University Press, New York.