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Genetic diversity and population structure of pumas (Puma concolor) in southeastern Brazil: implications for conservation in a human-dominated landscape

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Abstract

São Paulo is the most populous, developed and industrialized state of Brazil. Despite of intensive human activities, large habitat loss and fragmentation of the native vegetation cover, pumas (Puma concolor) still inhabit remnant habitat fragments in the northeastern area of the state. We investigated the occurrence of genetic structure and levels of genetic variability on pumas to aggregate basic information for conservation efforts to maintain long term viable populations of this top-predator in the region. By analyzing microsatellite loci variation, we corroborated the hypothesis of absence of genetic structure, and estimated high levels of genetic diversity (expected heterozygosity of 0.79 and mean of 10 alleles per locus). In spite of the increasing number of roadkilling and puma-human conflicts in the area, apparently pumas still maintain some level of gene flow between protected areas of the region. The observed excess of heterozygotes suggests a recent bottleneck event in this population, probably a consequence of the profound landscape transformation of the studied area during the last century; another possibility is this may be due to the observed deviation in the population sex ratio, which may be influencing the pumas’ mating system. We propose that: (1) landscape management in the study area should be focused on increasing habitat connectivity, creating protected areas and structures to allow highway crossing of pumas; (2) educational actions should be undertaken to change community perception of large carnivores, and possibly the implementation of compensatory actions to ranchers.

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References

  • Anderson CR, Lindzey FG, McDonald DB (2004) Genetic structure of cougar populations across the Wyoming basin: metapopulation or megapopulation. J Mammal 85:1207–1214

    Article  Google Scholar 

  • Biota/Fapesp (2008) Diretrizes para a conservação e restauração da biodiversidade no estado de São Paulo. Instituto de Botânica, FAPESP—Fundação de Amparo à Pesquisa do Estado de São Paulo, Programa Biota/FAPESP, São Paulo, Brasil

  • Blouin M (2003) DNA-based methods for pedigree reconstruction and kinship analysis in natural populations. TREE 18:503–511

    Google Scholar 

  • Blouin MS, Parsons M, LaCaille V, Lotz S (1996) Use of microsatellite loci to classify individuals by relatedness. Mol Ecol 5:393–401

    Google Scholar 

  • Bouzat JL (2010) Conservation genetics of population bottlenecks: the role of chance, selection and history. Conserv Genet 11:463–478

    Article  Google Scholar 

  • Broquet T, Petit E (2004) Quantifying genotyping errors in noninvasive population genetics. Mol Ecol 13:3601–3608

    Article  PubMed  CAS  Google Scholar 

  • Chiarello AG (2000) Conservation value of a native forest fragment in a region of extensive agriculture. Braz J Zool 60:237–247

    Google Scholar 

  • 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

    PubMed  CAS  Google Scholar 

  • Culver M, Johnson WE, Pecon-Slattery J, O’Brien SJ (2000) Genomic ancestry of the American puma (Puma concolor). J Hered 91:186–197

    Article  PubMed  CAS  Google Scholar 

  • Dean W (1996) With broadax and firebrand: the destruction of the Brazilian Atlantic Forest. University of California Press, Berkeley

    Google Scholar 

  • Ernest HB, Boyce WM, Bleich VC, May B, Stiver SJ, Torres SG (2003) Genetic structure of mountain lion (Puma concolor) populations in California. Conserv Genet 4:353–366

    Article  CAS  Google Scholar 

  • Farrel LE, Roman J, Sunquist ME (2000) Dietary separation of sympatric carnivores identified by molecular analysis of scats. Mol Ecol 9:1583–1590

    Article  Google Scholar 

  • Goudet J (1995) FSTAT, a computer program to calculate F statistics. J Hered 86:485–486

    Google Scholar 

  • Guo S, Thompson E (1992) Performing exact test of Hardy–Weinberg proportion for multiple alleles. Biometrics 48:361–372

    Article  PubMed  CAS  Google Scholar 

  • Haag T, Santos AS, Sana DA, Morato RG, Cullen L Jr, Crawshaw PG Jr, De Angelo C, Di Bitetti MS, Salzano FM, Eizirik E (2010) The effect of habitat fragmentation on the genetic structure of a top predator: loss of diversity and high differentiation among remnant populations of Atlantic Forest jaguars (Panthera onca). Mol Ecol 19:4906–4921

    Article  PubMed  CAS  Google Scholar 

  • Haines AM, Janecka JE, Tewes ME, Grassman LI, Morton P (2006) The importance of private lands for ocelot Leopardus pardalis conservation in the United States. Oryx 40:1–5

    Article  Google Scholar 

  • IBGE (2009) Estimativas das populações residentes, segundo os municípios em 1 de julho de 2009. Instituto Brasileiro de Geografia e Estatística http://www.ibge.gov.br/home/estatistica/populacao/estimativa2009. Accessed 30 May 2010

  • Kalinowski ST, Wagner AP, Taper ML (2006) ML-Relate: a computer program for maximum likelihood estimation of relatedness and relationship. Mol Ecol Notes 6:576–579

    Article  CAS  Google Scholar 

  • Kurushima JD, Collins JW, Ernest HB (2006) Development of 21 microsatellite loci for puma (Puma concolor) ecology and forensics. Mol Ecol Notes 6:1260–1262

    Article  CAS  Google Scholar 

  • Lindzey FG, Van Sickle WD, Ackerman BB, Barnhurst D, Hemker TP, Laing SP (1994) Cougar population dynamics in southern Utah. J Wildl Manag 58:619–624

    Article  Google Scholar 

  • Logan KA, Sweanor LL (2001) Desert Puma: evolutionary ecology and conservation of an enduring carnivore. Island Press, Washington

    Google Scholar 

  • Luikart G, Sherwin WB, Steele BM, Allendorf FW (1998) Usefulness of molecular markers for detecting population bottlenecks via monitoring genetic change. Mol Ecol 7:963–974

    Article  PubMed  CAS  Google Scholar 

  • Lyra-Jorge MC, Ciocheti G, Pivello VR (2008) Carnivore mammals in a fragmented landscape in northeast of São Paulo state. Biodivers Conserv 17:1573–1580

    Article  Google Scholar 

  • Menotti-Raymond M, O’Brien SJ (1995) Evolutionary conservation of ten microsatellite loci in four species of Felidae. J Hered 86:319–322

    PubMed  CAS  Google Scholar 

  • Miotto RA, Rodrigues FP, Ciocheti G, Galetti Junior PM (2007) Determination of the minimum population size of pumas (Puma concolor) through faecal DNA analysis in two protected cerrado areas in the Brazilian Southeast. Biotropica 39:647–654

    Article  Google Scholar 

  • Miotto RA, Cervini M, Begotti RA, Galetti Junior PM (2011) Monitoring a puma (Puma concolor) population in a fragmented landscape in the Brazilian southeast. Biotropica. doi:10.1111/j.1744-7429.2011.00772.x

  • Paetkau D, Waits LP, Clarkson PL, Craibghead L, Vyse E, Ward R, Strobeck C (1998) Variation in genetic diversity across the range of North American brown bears. Conserv Biol 12:418–429

    Article  Google Scholar 

  • Pearse DE, Crandall KA (2004) Beyond FST: analysis of population genetic data for conservation. Conserv Genet 5:585–602

    Article  CAS  Google Scholar 

  • Pilgrim KL, McKelvey KS, Riddle AE, Schwartz MK (2005) Felid sex identification based on noninvasive genetic samples. Mol Ecol Notes 5:60–61

    Article  CAS  Google Scholar 

  • Piry SG, 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

    Article  Google Scholar 

  • Pritchard JK, Stephens P, Donnelly P (2000) Inference of population structure using multilocus genotype data. Genetics 155:945–959

    PubMed  CAS  Google Scholar 

  • Rabinowitz AR (1986) Jaguar predation on domestic livestock in Belize. Wildl Soc Bull 14:170–174

    Google Scholar 

  • Raymond M, Rousset F (1995) Genepop: population genetics software for exact tests and ecumenicism. J Hered 86:248–249

    Google Scholar 

  • Ribeiro MC, Metzger JP, Martensen AC, Ponzoni FJ, Hirota MM (2009) The Brazilian Atlantic Forest: How much is left, and how is the remaining forest distributed? Implications for conservation. Biol Conserv 142:1141–1153

    Article  Google Scholar 

  • Riley SPD, Pollinger JP, Sauvajot RM, York EC, Bromley C, Fuller TK, Wayne RK (2006) A southern California freeway is a physical and social barrier to gene flow in carnivores. Mol Ecol 15:1733–1741

    Article  PubMed  CAS  Google Scholar 

  • Ross PL, Jalkotzy MG (1992) Characteristics of a hunted population of cougars in southwestern Alberta. J Wildl Manag 56:417–426

    Article  Google Scholar 

  • Ruiz-Garcia M (2001) Diversidad genética como herramienta de zonificación ambiental: estudios moleculares (microsatélites) en el caso de primates y félidos neotropicales comportan una nueva perspectiva. In: Libro de memorias Defler TR, Palacios PA (eds) Zonificación Ambiental para el Ordenamiento territorial. Instituto Amazónico de Investigaciones Imani & Instituto de Ciencias Naturales. Universidad Nacional de Colombia, Bogotá

    Google Scholar 

  • Ruth TK, Logan KA, Sweanor L, Hornocker MG, Temple LJ (1998) Evaluating cougar translocation in New Mexico. J Wildl Manag 62:1264–1275

    Article  Google Scholar 

  • Sambrook J, Fritsch EF, Maniatis T (1989) Molecular cloning: a laboratory manual, 2nd edn. Cold Spring Harbor Press, New York

    Google Scholar 

  • Schuelke M (2000) An economic method for the fluorescent labeling of PCR fragments. Nat Biotechnol 18:233–234

    Article  PubMed  CAS  Google Scholar 

  • Sergio F, Caro T, Brown D, Clucas B, Hunter J, Ketchum J, McHugh K, Hiraldo F (2008) Top predators as conservation tools: ecological rationale, assumptions, and efficacy. Annu Rev Ecol Evol Syst 39:1–19

    Article  Google Scholar 

  • Simberloff D (1998) Flagships, umbrellas, and keystones: Is single-species management passé in the landscape era? Biol Conserv 83:247–257

    Article  Google Scholar 

  • Sinclair EA, Swenson EL, Wolfe ML, Choate DC, Gates B, Cranall KA (2001) Gene flow estimates in Utah’s cougars implies management beyond Utah. Anim Conserv 4:257–264

    Article  Google Scholar 

  • Taberlet P, Griffin S, Goossens B, Questiau S, Manceau V, Escaravage N, Waits LP, Bouvet J (1996) Reliable genotyping of samples with very low DNA quantities using PCR. Nucleic Acids Res 24:3189–3194

    Article  PubMed  CAS  Google Scholar 

  • Terborgh J, Lopez L, Nuñez P, Rao M, Shahabuddin G, Orihuela G, Riveros M, Ascanio R, Adler GH, Lambert TD, Balbas L (2001) Ecological meltdown in predator-free forest fragments. Science 294:1923–1926

    Google Scholar 

  • Treves A, Karanth KU (2003) Human-carnivore conflict and perspectives on carnivore management worldwide. Conserv Biol 17:1491–1499

    Article  Google Scholar 

  • Valière N (2002) Gimlet: a computer program for analyzing genetic individual identification data. Mol Ecol Notes 2:377–379

    Google Scholar 

  • 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

    Article  Google Scholar 

  • Verdade LM, Campos CB (2004) How much is a puma worth? Economic compensation as an alternative for the conflict between wildlife conservation and livestock production in Brazil. Biota Neotrop 4:1–4

    Google Scholar 

  • Waits LP, Luikart G, Taberlet P (2001) Estimating the probability of identity among genotypes in natural populations: cautions and guidelines. Mol Ecol 10:249–256

    Article  PubMed  CAS  Google Scholar 

  • Walker CW, Harveson LA, Pittman MT, Tewes ME, Honeycutt RL (2000) Microsatellite variation in two populations of mountain lions (Puma concolor) in Texas. Southwest Nat 45:196–203

    Article  Google Scholar 

  • Waples RS (2006) A bias correction for estimates of effective population size based on linkage disequilibrium at unlinked gene loci. Conserv Genet 7:167–184

    Article  Google Scholar 

  • Waples RS, Do C (2008) LDNE: a program for estimating effective population size from data on linkage disequilibrium. Mol Ecol Res 8:753–756

    Google Scholar 

  • Weber W, Rabinowitz A (1996) A global perspective on large carnivore conservation. Conserv Biol 10:1046–1054

    Article  Google Scholar 

  • Weir BS, Cockerham CC (1984) Estimating F-statistics for the analysis of population structure. Evolution 38:1358–1370

    Article  Google Scholar 

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Acknowledgments

We are very grateful to Fapesp, CNPq and Capes agencies for their financial support; to the NGO Neotropical Grassland Conservancy for supplying laboratory reagents; to Dra. Karin Werther (UNESP/Jaboticabal), CENAP/IBAMA, Parque Ecológico de São Carlos and Polícia Ambiental do estado de São Paulo for given samples and informations on injured or dead animals in the study area; to the International Paper do Brasil for allowing and supporting field expeditions into private areas; to the ‘Radiotelemetria Digital’ team project for collecting samples; to Giordano Ciocheti for their help in field work and innumerous discussions on puma’s habits and conservation strategies.

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Authors and Affiliations

  1. Laboratório de Biodiversidade Molecular e Conservação, Departamento de Genética e Evolução, Universidade Federal de São Carlos, UFSCar, Rodovia Washington Luis, km 235, Monjolinho, São Carlos, SP, 13565-905, Brazil

    R. A. Miotto & P. M. Galetti Jr.

  2. Laboratório de Genética Molecular, Departamento de Ciências Biológicas, Universidade Estadual do Sudoeste da Bahia, UESB, Jequié, BA, Brazil

    M. Cervini

  3. Departamento de Zootecnia, Universidade Estadual Paulista ‘Julio de Mesquita Filho’ UNESP, Jaboticabal, SP, Brazil

    M. G. Figueiredo

  4. Departamento de Ciências Florestais, Escola Superior de Agricultura ‘Luiz de Queiroz’, ESALQ/USP, Piracicaba, SP, Brazil

    R. A. Begotti

Authors
  1. R. A. Miotto
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  2. M. Cervini
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  3. M. G. Figueiredo
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  4. R. A. Begotti
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  5. P. M. Galetti Jr.
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Correspondence to R. A. Miotto.

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Miotto, R.A., Cervini, M., Figueiredo, M.G. et al. Genetic diversity and population structure of pumas (Puma concolor) in southeastern Brazil: implications for conservation in a human-dominated landscape. Conserv Genet 12, 1447–1455 (2011). https://doi.org/10.1007/s10592-011-0243-8

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