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Mitogenomics of the jaguarundi (Puma yagouaroundi, Felidae, Carnivora): Disagreement between morphological subspecies and molecular data

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Abstract

We analyzed 80 mitogenomes of the elusive jaguarundi (Puma yagouaroundi, Felidae, Carnivora), representing seven of the eight putative morphological subspecies traditionally described. The mitochondrial genetic diversity levels were very high in this cat species and therefore similar to other Neotropical cats. Nonetheless, the number of significantly different molecular clusters did not align well with putative morphological subspecies. We detected three possible molecular subspecies: P. y. yagouaroundi (wide distribution in Central and South America), P. y. melantho (Central Andean, and their inter-valleys, Peruvian area) and P. y. eyra (Paraguay and northern Argentina). There were also small geographical clusters with no correspondence with the morphological subspecies, especially in Costa Rica, northern and eastern Colombia, and Pacific trans-Andean Colombia and Ecuador. Thus, the number of molecular subspecies in jaguarundi could be less than the number defined morphologically. However, well-differentiated mitochondrial lineages could exist in the area of the putative P. y. panamensis and correspond to undescribed subspecies. The temporal split of the ancestors of the puma and jaguarundi and the initial mitochondrial diversification within the jaguarundi occurred during the late Pliocene, but the major fraction of haplotype proliferation happened during the Pleistocene. All the procedures we used detected a strong population expansion for the jaguarundi during the Günz-Mindel interglacial period of the Pleistocene. The spatial genetic analyses showed that the isolation-by-distance patterns are not well developed in this species. In contrast, we detected a very significant circular cline with spatial autocorrelation. Therefore, from a molecular perspective some of the individuals far removed from each other geographically are also very similar. This new information may be very helpful to conservation ecologists and managers of jaguarundi habitats as we continue to improve our understanding of the evolutionary history of this cat species.

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References

  • Akaike, H., 1974. A new look at the statistical model identification. In: IEEE Transactions on Automatic Control. 1974; AC-19., pp. 716–723.

    Google Scholar 

  • Allen, J.A., 1904. Mammals of southern Mexico and Central and South America. Bull. Am. Mus. Nat. Hist. 20, 29–80.

    Google Scholar 

  • Allen, J.A., 1906. Mammals from the states of Sinaloa and Jalisco, Mexico, collected by J. H. Batty during 1904 and 1905. Bull. Am. Mus. Nat. Hist. 22, 191–262.

    Google Scholar 

  • Allen, J.A., 1919. Notes on the synonymy and nomenclature of the smaller spotted cats of Tropical America. Bull. Am. Mus. Nat. Hist. 41, 341–419.

    Google Scholar 

  • Allendorf, F.W., Luikart, G., 2007. Conservation and the Genetics of Populations. Blackwell, Malden, Massachusetts, USA.

    Google Scholar 

  • Anderson, S., 1997. Mammals of Bolivia: taxonomy and distribution. Bull. Am. Mus. Nat. Hist. 231, 1–652.

    Google Scholar 

  • Avise, J.C., Arnold, J., Ball, R.M., Bermingham, E., Lamb, T., Neigel, J.E., Reeb, C.A., Saunders, N.C., 1987. Intraspecific phylogeographic: the mitochondrial DNA bridge between population genetics and systematics. Ann. Rev. Ecol. Syst. 18, 489–522.

    Article  Google Scholar 

  • Azara, F., 1801. Essais sur l’histoire naturelle des quadrupeded de la province du Paraguay y Río de la Plata, 1. Charles Pougens, Paris, 1–366 + 80.

    Google Scholar 

  • Bagatharia, S.B., Joshi, M.N., Pandya, R.V., Pandit, A.S., Patel, R.P., Desai, S.M., Sharma, A., Panchal, O., Jasmani, F.P., Saxena, A.K., 2013. Complete mitogenome of Asiatic lion resolves phylogenetic status within Panthera. BMC Genomics 14, 572.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Bandelt, H.J., Forster, P., Rohl, A., 1999. Median-joining networks for inferring intraspecific phylogenies. Mol. Biol. Evol. 16, 37–48.

    Article  CAS  PubMed  Google Scholar 

  • Berlandier, L., 1859. In: Baird, S.F. (Ed.) Mammals of the Boundary. United States and Mexican Boundary Survey, 2, Washington, District of Columbia, 1–62 + 27 plates.

  • Bianchi, R., Rosa, A.F., Gatti, A., Mendes, S.L., 2011. Diet of margay, Leopardus wiedii, and jaguarundi, Puma yagouaroundi, (Carnivora: Felidae) in Atlantic Rainforest, Brazil. Zoologia 28, 127–132.

    Article  Google Scholar 

  • Bininda-Emonds, O.R.P., Decker-Flum, D.M., Gittleman, J.L., 2001. The utility of chemical signals as phylogenetic characters: an example from the Felidae. Biol. J. Linn. Soc. 72, 1–15.

    Article  Google Scholar 

  • Bradley, R.D., Baker, R.J., 2001. A test of the genetic species concept: cytochrome-b sequences and mammals. J. Mammal. 82, 960–973.

    Article  Google Scholar 

  • Cabrera, A., 1957. Catálogo de los mamíferos de América del Sur. I (Metatheria, Unguiculata, Carnívora). Revista del Museo Argentino de Ciencias Naturales “Bernardo Rivadavia,”. Zoología 4, 1–307.

    Google Scholar 

  • Caso, A., Lopez-Gonzalez, C., Payan, E., Eizirik, E., de Oliveira, T., Leite-Pitman, R., Kelly, M., Valderrama, C., 2008. Puma yagouaroundi. In: IUCN Red List of Threatened Species, Accessed 25 Feb 2017 https://doi.org/www.iucnredlist.org.

    Google Scholar 

  • Castresana, J., 2000. Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. Mol. Biol. Evol. 17, 540–552.

    Article  CAS  PubMed  Google Scholar 

  • Cossíos, E.D., Lucherini, M., Ruiz-García, M., Angers, B., 2009. Influence of ancient glacial periods on the Andean fauna: the case of the Pampas cat (Leopardus colocolo). BMC Evol. Biol. 9, 68–79.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

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

    Article  CAS  PubMed  Google Scholar 

  • Currat, M., Ruedi, M., Petit, R.J., Excoffier, L., 2008. The hidden side of invasions: massive introgression by local genes. Evolution 62, 1908–1920.

    PubMed  Google Scholar 

  • DaSilva, L.G., de Oliveira, T.G., Kasper, C.B., Cherem, J.J., Moraes Jr, E.A., Paviolo, A., Eizirik, E., 2016. Biogeography of polymorphic phenotypes: mapping and ecological modelling of coat colour variants in an elusive Neotropical cat, the jaguarundi (Puma yagouaroundi). J. Zool. 299, 295–303.

    Article  Google Scholar 

  • De Oliveira, T.G., 1998. Herpailurus yagouaroundi. Mammal Species 578, 1–6.

    Google Scholar 

  • Derenko, M., Malyarchuk, B., Denisova, G., Perkova, M., Rogalla, U., Grzybowski, T., 2012. Complete Mitochondrial DNA Analysis of Eastern Eurasian Haplogroups Rarely Found in Populations of Northern Asia and Eastern Europe. PLoS ONE 7 (2), e32179, https://doi.org/10.1371/journal.pone.0032179.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Dobzhansky, T., 1971. Evolutionary oscillations in drosophilapseudoobscura. In: Ford, E.B. (Ed.) Ecological Genetics and Evolution. Blackwell Scientific, Oxford, pp. 109–133.

    Chapter  Google Scholar 

  • Drummond, A.J., Ho, S.Y.W., Phillips, M.J., Rambaut, A., 2006. Relaxed phylogenetics and dating with confidence. PLoS Biol. 4, e88.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Drummond, A.J., Suchard, M.A., Xie, D., Rambaut, A., 2012. Bayesian phylogenetics with BEAUti and the BEAST 1.7. Mol. Biol. Evol. 29, 1969–1973.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Eckert, C.G., Samis, K.E., Lougheed, S.C., 2008. Genetic variation across species’ geographic ranges: the central-marginal hypothesis and beyond. Mol. Ecol. 17, 1170–1188.

    Article  CAS  PubMed  Google Scholar 

  • Eizirik, E., Bonatto, S.L., Johnson, W.E., Crawshaw Jr., P.G., Vié, J.C., Brousset, D.M., O’Brien, S.J., Salzano, F.M., 1998. Phylogeographic patterns and evolution of the mitochondrial DNA control region in two Neotropical cats (Mammalia, Felidae). J. Mol. Evol. 47, 613–624.

    Article  CAS  PubMed  Google Scholar 

  • Excoffier, L., Lischer, H.E.L., 2010. Arlequin suite ver3.5: a new series of programs to perform population genetics analyses under Linux and Windows. Mol. Ecol. Resour. 10, 564–567.

    Article  PubMed  Google Scholar 

  • Fischer, G., 1814. Zoognosia tabulis synopticis illustrate, inusum praelectionum Academiae imperialis medico-chirurgiae mosquensis edita. Typis Nicolai Sergeidis Vsevolozsky Mosquae 3, 1–694.

    Google Scholar 

  • Fu, Y.X., 1997. Statistical tests of neutrality against population growth, hitchhiking and background selection. Genetics 147, 915–925.

    CAS  PubMed  PubMed Central  Google Scholar 

  • Galtier, N., Enard, D., Radondy, Y., Bazin, E., Belkhir, K., 2006. Mutation hotspots in mammalian mitochondrial DNA. Genome Res. 16, 215–222.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Geoffroy Saint-Hilaire, E., 1803. Catalogue des mammiferes du Museum National d’Histoire Naturelle. Paris, 272.

    Google Scholar 

  • Gregory-Wodzicki, K.M., 2000. Uplift history of the central and northern Andes: a review. Geol. Soc. Am. Bull. 112, 1091–1105.

    Article  Google Scholar 

  • Guillot, F., Mortier, C., Estoup, A., 2005. Geneland: a computer package for landscape genetics. Mol. Ecol. Notes 5, 708–711.

    Article  CAS  Google Scholar 

  • Guschanski, K., Krause, J., Sawyer, S., Valente, L.M., Bailey, S., Finstermeier, K., Sabin, R., Gilissen, E., Sonet, G., Nagy, Z.T., Lenglet, G., Mayer, F., Savolainen, V., 2013. Next-generation museomics disentangles one of the largest primate radiations. Syst. Biol. 62, 539–554.

    Article  PubMed  PubMed Central  Google Scholar 

  • Hall, E.R., 1981. The Mammals of North America, second edition. John Wiley and Sons, New York.

    Google Scholar 

  • Haney, R.A., Sillimanb, B.R., Rand, D.M., 2010. Effects of selection and mutation on mitochondrial variation and inferences of historical population expansion in a Caribbean reef fish. Mol. Phylogenet. Evol. 57, 821–828.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Hasegawa, M., Kishino, H., Yano, T., 1985. Dating of the human-ape splitting by a molecular clock of mitochondrial DNA. J. Mol. Evol. 22, 160–174.

    Article  CAS  PubMed  Google Scholar 

  • Hebert, P.D.N., Cywinska, A., Ball, S.L., de Waard, J.R., 2003. Biological identifications through DNA barcodes. Proc. R. Soc. Lond. B 270, 313–321.

    Article  CAS  Google Scholar 

  • Hebert, P.D.N., Stoeckle, M.Y., Zemlak, T.S., Francis, C.M., 2004. Identification of birds through DNA barcodes. PLoS Biol. 2, 1657–1663.

    Article  CAS  Google Scholar 

  • Holbrook, J.D., Caso, A., DeYoung, R.W., Tewes, M.E., 2013. Population genetics of jaguarundis in Mexico: implications for future research and conservation. Wildl. Soc. Bull. 37, 1–6.

    Article  Google Scholar 

  • Holmberg, E.L., 1898. La fauna de la Republica Argentina.Segundo Censo Nacional, chapter I, part 6. Buenos Aires, 477–60.

    Google Scholar 

  • International Commission on Stratigraphy, 2007. International Stratigraphic Chart. https://doi.org/www.sratigraphy.org/chus.pdf.

    Google Scholar 

  • Janecka, J.E., Walker, C.W., Tewes, M.E., Caso, A., Laack, L.L., Honeycutt, R.L., 2007. Phylogenetic relationships of ocelot (Leopardus pardalis albescens) populations from the Tamaulipan biotic province and implications for recovery. Southwest. Nat. 52, 89–96.

    Article  Google Scholar 

  • Johnson, W.E., Pecon Slattery, J., Eizirik, E., et al., 1999. Disparate phylogeographic patterns of mitochondrial DNA variation in four closely related South American small cat species. Mol. Ecol. 8, S79–S94.

    Article  CAS  PubMed  Google Scholar 

  • Johnson, W.E., Eizirik, E., Pecon-Slattery, J., et al., 2006. The Late Miocene radiation of modern Felidae: a genetic assessment. Science 311, 73–77.

    Article  CAS  PubMed  Google Scholar 

  • Kimura, M., 1980. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J. Mol. Evol. 16, 111–120.

    Article  CAS  PubMed  Google Scholar 

  • Krause, J., Fu, Q., Good, J.M., Viola, B., Shunkov, M.V., Derevianko, A.P., Pääbo, S., 2010. The complete mitochondrial DNA genome of an unknown hominin from southern Siberia. Nature 464 (2010), 894–897.

    Article  CAS  PubMed  Google Scholar 

  • Lanfear, R., Calcott, B., Ho, S.Y.W., Guindon, S., 2012. Partitionfinder: combined selection of partitioning schemes and substitution models for phylogenetic analyses. Mol. Biol. Evol. 29, 1695–1701.

    Article  CAS  PubMed  Google Scholar 

  • Li, G., Davis, B.W., Eizirik, E., Murphy, W.J., 2016. Phylogenomic evidence for ancient hybridization in the genomes of living cats (Felidae). Genome Res. 26, 1–11.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Librado, P., Rozas, J., 2009. DnaSP v5: a software for comprehensive analysis of DNA polymorphism data. Bioinformatics 25, 1451–1452.

    Article  CAS  PubMed  Google Scholar 

  • Marshall, L.G., 1985. Geochronology and land-mammal biochronology of the transamerican faunal interchange. In: Stehli, F.G., Webb, S.D. (Eds.), The Great American Biotic Interchange. Topics in Geobiology, Vol. 4. Plenum Press, New York, pp. 49–85.

    Article  Google Scholar 

  • Marshall, L.G., 1988. Land mammals and the Great American interchange. Am. Sci. 76, 380–388.

    Google Scholar 

  • Martin, W., 1837. Description of a new species of the genus Felis. Proceedings of the Zoological Society of London 3, 3–4.

    Google Scholar 

  • Mason, V.C., Li, G., Helgen, K.M., Murphy, W.J., 2011. Efficient cross-species capture hybridization and next-generation sequencing of mitochondrial genomes from noninvasively sampled museum specimens. Genome Res. 21, 1695–1704.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Mattern, M.Y., McLennan, D., 2000. Phylogeny and speciation of Felids. Cladistics 16, 232–253.

    Article  PubMed  Google Scholar 

  • Mearns, E.A., 1901. wo new cats of the Eyra group from North America. Proc. Biol. Soc.Wash. 14, 149–151.

    Google Scholar 

  • Miller, M.P., 2005. Alleles in space: computer software forthe joint analysis of interindividual spatial and genetic information. J. Hered. 96, 722–724.

    Article  CAS  PubMed  Google Scholar 

  • Moore, W., 1995. Inferring phylogenies from mtDNA variation: mitochondrial-gene trees versus nuclear-gene trees. Evolution 49, 718–726.

    PubMed  Google Scholar 

  • Moreno, V.R., Grisolia, A.B., Campagnari, F., Milazzotto, M., Adania, C.H., Garcia, J.F., Souza, E.B., 2006. Genetic variability of Herpailurus yagouaroundi, Puma concolor and Panthera onca (Mammalia, Felidae) studied using Felis catus microsatellites. Genet. Mol. Biol. 29, 290–293.

    Article  CAS  Google Scholar 

  • Moritz, C., 1994. Defining evolutionary significant units for conservation. Trends Ecol. Evol. 9, 373–375.

    Article  CAS  PubMed  Google Scholar 

  • Morral, N., Bertrantpetit, J., Estivill, X., et al., 1994. The origin of the major cystic fibrosis mutation (delta F508) in European populations. Nat. Genet. 7, 169–175.

    Article  CAS  PubMed  Google Scholar 

  • Nabholz, B., Ellegren, H., Wolf, J.B., 2012. High levels of gene expression explain the strong evolutionary constraint of mitochondrial protein-coding genes. Mol. Biol. Evol. 30, 272–284.

    Article  CAS  PubMed  Google Scholar 

  • Napolitano, C., Sanderson, J., Johnson, W.E., O’Brien, S.J., Rus Hoelzel, A., Freer, R., Dunstone, N., Ritland, K., Poulin, E., 2013. Population genetics of the felid Lopardus guigna in Southern South America: identifying intraspecific units for conservation. In: Ruiz-García, M., Shostell, J.M. (Eds.), Molecular Population Genetics, Phylogenetics, Evolutionary Biology and Conservation of the Neotropical Carnivores. Nova Science Publishers, New York, pp. 159–186.

    Google Scholar 

  • Napolitano, C., Johnson, W.E., Sanderson, J., O’Brien, S.J., Hoelzel, A.R., Freer, R., Dunstone, N., Ritland, K., Ritland, C.E., Poulin, E., 2014. Phylogeography and population history of Leopardus guigna, the smallest American felid. Conserv. Genet. 15, 631–653.

    Article  Google Scholar 

  • Nowak, R.M., 1992. Walker’s Mammals of the World, fifth ed. The Johns Hopkins University Press, Baltimore, Maryland.

    Google Scholar 

  • Nylander, J.A., 2004. MrModeltest v2. Evolutionary Biology Center, Uppsala University.

    Google Scholar 

  • Ochoa, A., Onorato, D.P., Fitak, R.R., Roelke-Parker, M.E., Culver, M., 2017. Evolutionary and functional mitogenomics of the Florida panther. J. Hered. 108, 449–455.

    Article  CAS  PubMed  Google Scholar 

  • Oken, L., 1816. Lehrbuch der naturgeschichte, Zweite Abtheilung. Fleischthiere, Vol. 3. August Schmid und Comp., Jena, pp. 1–1270.

    Google Scholar 

  • Pääbo, S., 2014. Neanderthal Man: In search of lost genomes. Basic Books, New York.

    Google Scholar 

  • Pennington, R.T., Dick, C.W., 2010. Diversification of the Amazonian flora and its relation to key geological and environmental events: a molecular perspective. In: Hoorn, C., Wesselingh, F. (Eds.), Amazonia, Landscape and Species Evolution: A Look into the Past. Wiley-Blackwell, Oxford, pp. 373–385.

    Google Scholar 

  • Petit, R.J., Excoffier, L., 2009. Gene flow and species delimitation. Trends Ecol. Evol. 24, 386–393.

    Article  PubMed  Google Scholar 

  • Posada, D., Crandall, K.A., 2001. Intraspecific gene genealogies: trees grafting into networks. Trends Ecol. Evol. 16, 37–45.

    Article  CAS  PubMed  Google Scholar 

  • Posth, C., Wißing, C., Kitagawa, K., Pagani, L., van Holstein, L., Racimo, F., Wehrberger, K., Conard, N.J., Kind, C.J., Bocherens, H., Krause, J., 2017. Deeply divergent archaic mitochondrial genome provides lower time boundary for African gene flow into neanderthals. Nat. Commun. 4, 16046, https://doi.org/10.1038/ncomms16046.

    Article  CAS  Google Scholar 

  • Raaum, R.L., Sterner, K.N., Noviello, C.M., Stewart, C.B., Disotell, T.R., 2005. Catarrhine primate divergence dates estimated from complete mitochondrial genomes: concordance with fossil and nuclear DNA evidence. J. Hum. Evol. 48, 237–257.

    Article  PubMed  Google Scholar 

  • Rambaut, A., 2012. FigTree v1.4. https://doi.org/tree.bio.ed.ac.uk/software/figtree/.

    Google Scholar 

  • Rambaut, A., Drummond, A.J., 2013. TreeAnnotator v1.8.0. https://doi.org/beast.bio.ed.ac.uk/.

    Google Scholar 

  • Rambaut, A., Suchard, M.A., Xie, W., Drummond, A.J., 2013. Tracer v1.6. https://doi.org/tree.bio.ed.ac.uk/software/tracer/.

    Google Scholar 

  • Ramos-Onsins, S.E., Rozas, J., 2002. Statistical properties of new neutrality tests against population growth. Mol. Biol. Evol. 19, 2092–2100.

    Article  CAS  PubMed  Google Scholar 

  • Reyes, A., Gissi, C., Pesole, G., Saccone, C., 1998. Asymmetrical directional mutation pressure in the mitochondrial genome of mammals. Mol. Biol. Evol. 15, 957–966.

    Article  CAS  PubMed  Google Scholar 

  • Ridley, M., 1996. Evolution. Blackwell Science, Oxford.

    Google Scholar 

  • Rieseberg, L.H., Whitton, J., Gardner, K., 1999. Hybrid zones and the genetic architecture of a barrier to gene flow between two sunflower species. Genetics 152, 713–727.

    CAS  PubMed  PubMed Central  Google Scholar 

  • Ruiz-García, M., 1993. Analysis of the evolution and genetic diversity within and between Balearic and Iberian cat populations. J. Hered. 84, 173–180.

    Article  PubMed  Google Scholar 

  • Ruiz-García, M., 1994. Genetic profiles from coat genes of natural Balearic cat populations: an Eastern Mediterranean and North-African origin. Genet. Sel. Evol. 26, 39–64.

    Article  PubMed Central  Google Scholar 

  • Ruiz-García, M., 1997. Genetic relationships among some new cat populations sampled in Europe: a spatial autocorrelation analysis. J. Genet. 76, 1–24.

    Article  Google Scholar 

  • Ruiz-García, M., 1999. Genetic structure of different cat populations in Europe and South America at a microgeographic level: importance of the choice of an adequate sampling level in the accuracy of population genetics interpretations. Genet. Mol. Biol. 22, 493–505.

    Article  Google Scholar 

  • Ruiz-García, M., 2001. Diversidad genética como herramienta de zonificación ambiental: udios moleculares (microsatélites) en el caso de Primates y Félidos neotropicales comportan una nueva perspectiva. In: Defler, T., Palacios, P.A. (Eds.), Zonificación Ambiental para el Ordenamiento Territorial en la Amazonía Colombiana. Instituto Amazónico de Investigaciones, Imani and Instituto de Ciencias Naturales, Universidad Nacional de Colombia, Bogotá DC, pp. 85–108.

    Google Scholar 

  • Ruiz-García, M., Alvarez, D., 2000. Genetic microstructure in two Spanish cat populations I: genic diversity, gene flow and selection. Genes Genet. Syst. 75, 269–280.

    Article  PubMed  Google Scholar 

  • Ruiz-García, M., Pinedo-Castro, M., 2013. Population genetics and phylogeography analyses of the jaguarundi (Puma yagouaroundi) by means of three mitochondrial markers: the first molecular population study of this species. In: Ruiz-Garcia, M., Shostell, J.M. (Eds.), Molecular Population Genetics, Evolutionary Biology and Biological Conservation of Neotropical Carnivores. Nova Publishers, New York, pp. 245–287.

    Google Scholar 

  • Ruiz-García, M., Cossíos, D., Lucherini, M., Yáñez, J., Pinedo, M., Angers, B., 2013a. Population genetics and spatial structure in two Andean cats (the Pampas cat, Leopardus pajeros and the Andean mountain cat, L. jacobita) by means of nuclear and mitochondrial markers and some notes on skull biometrics. In: Ruiz-García, M., Shostell, J.M. (Eds.), Molecular Population Genetics, Phylogenetics, Evolutionary Biology and Conservation of the Neotropical Carnivores. Nova Science Publishers, New York, pp. 187–244.

    Google Scholar 

  • Ruiz-García, M., Rivas-Sánchez, D., Lichilín-Ortiz, N., 2013b. Phylogenetics relationships among four putative taxa of foxes of the Pseudoalopex genus (Canidae, Carnivora) and molecular population genetics of Ps. culpaeus and Ps. sechurae. In: Ruiz-García, M., Shostell, J. (Eds.), Molecular Population Genetics, Phylogenetics, Evolutionary Biology and Conservation of the Neotropical Carnivores. Nova Science Publishers, New York. Pp, pp. 97–128.

    Google Scholar 

  • Ruiz-García, M., Vásquez, C., Murillo, M., Pinedo, M., Álvarez, D., 2013c. Population genetics and phylogeography of the largest wild cat in the Americas: an analysis of the jaguar by means of microsatellites and mitochondrial gene sequences. In: Ruiz-García, M., Shostell, J.M. (Eds.), Molecular Population Genetics, Phylogenetics, Evolutionary Biology and Conservation of the Neotropical Carnivores. Nova Science Publishers, New York, pp. 413–464.

    Google Scholar 

  • Ruiz-García, M., Pinedo-Castro, M., Shostell, J.M., 2017. Small spotted bodies with multiple specific mitochondrial DNAs: existence of diverse and differentiated tigrina species or lineages (Leopardus sp: Felidae, Carnivora) throughout Latin America. Mitochondrial DNA Part A 28, 1–22, https://doi.org/10.1080/24701394.2017.1404041.

    Article  CAS  Google Scholar 

  • Ruiz-García, M., Pinedo-Castro, M., Castellanos, A., Shostell, J.M., 2018a. Hierarchical genetic structure (nuclear and mitochondrial) of the ocelot (Leopardus pardalis, Felidae, Carnivora) throughout Latin America: more phylogeographic structure than in other Neotropical wild cats. Mol. Ecol. (in press).

    Google Scholar 

  • Ruiz-García, M., Pinedo-Castro, M., Shostell, J.M., 2018b. Mitogenomics of the margay (Leopardus wiedii, Felidae, Carnivora): some geographic regional clusters but low correspondence with putative morphological subspecies. J. Hered. (in press).

    Google Scholar 

  • Salazar-Bravo, J., Tarifa, T., Aguirre, L.F., Yensen, E., Yates, T.L., 2003. Revised Checklist of Bolivian Mammals, 220. Occasional Papers of the Museum of Texas Tech. University, pp. 1–27.

    Book  Google Scholar 

  • Sambrock, J., Fritsch, E., Maniatis, T., 1989. Molecular Cloning: A Laboratory Manual, 2nd edition. V1. Cold Spring Harbor Laboratory Press, New York.

    Google Scholar 

  • Sawyer, S., Renaud, G., Viola, B., Hublin, J.J., Gansauge, M.T., Shunkov, M.V., Derevianko, A.P., Prüfer, K., Kelso, J., Pääbo, S., 2015. Nuclear and mitochondrial DNA sequences from two Denisovan individuals. Proc. Natl. Acad. Sci. U. S. A. 112 (51), 15696–15700, https://doi.org/10.1073/pnas.1519905112, Epub 2015 Nov 16.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Silva-Pereira, J.E., Moro-Rios, R.F., Bilski, D.R., Passos, F.C., 2011. Diets ofthree sympatric Neotropical small cats: food niche overlap and interspecies differences in prey consumption. Mamm. Biol. 76, 308–312.

    Article  Google Scholar 

  • Simonsen, K.L., Churchill, G.A., Aquadro, C.F., 1995. Properties of statistical tests of neutrality for DNA polymorphism data. Genetics 141, 413–429.

    CAS  PubMed  PubMed Central  Google Scholar 

  • Skelton, P., 1993. Evolution. A Biological and Palaeontological Approach. Polish Academy of Sciences, Warsaw.

    Google Scholar 

  • Slon, V., Hopfe, C., Weiss, et al., 2017. Neandertal and Denisovan DNA from Pleistocene sediments. Science 9695, https://doi.org/10.1126/science.aam.

    Google Scholar 

  • Sokal, R.R., Smouse, P.E., Neel, J.V., 1986. The genetic structure of a tribal population, the Yanomama Indians. Genetics. XV. Patterns inferred by autocorrelation analysis. Genetics 114, 259–287.

    CAS  PubMed  Google Scholar 

  • Sokal, R.R., Oden, N.L., Barker, J.S.F., 1987. Spatial structure in Drosophila buzzatii populations: simple and directional spatial autocorrelation. Am. Nat. 129, 122–142.

    Article  Google Scholar 

  • Sokal, R.R., Harding, R.M., Oden, N.L., 1989. Spatial patterns of human gene frequencies in Europe. Am. J. Phys. Anthropol. 80, 267–294.

    Article  CAS  PubMed  Google Scholar 

  • Stamatakis, A., 2006. RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22, 2688–2690.

    Article  CAS  PubMed  Google Scholar 

  • Stamatakis, A., Hoover, P., Rougemont, J., 2008. A rapid bootstrap algorithm forthe RAxML web servers. Syst. Biol. 57, 758–771.

    Article  PubMed  Google Scholar 

  • Sunquist, M., Sunquist, F., 2002. Wild Cats of the World. Univ. of Chicago Press, Chicago.

    Book  Google Scholar 

  • Szymura, J.M., 1993. Analysis of hybrid zones with Bombina. In: Harrison, R.G. (Ed.) Hybrid Zones and the Evolutionary Process. Oxford University Press, Oxford, pp. 261–289.

    Google Scholar 

  • Talavera, G., Castresana, J., 2007. Improvement of phylogenies after removing divergent and ambiguously aligned blocks from protein sequence alignments. Syst. Biol. 56, 564–577.

    Article  CAS  PubMed  Google Scholar 

  • Tamura, K., Stecher, G., Peterson, D., Filipski, A., Kumar, S., 2013. MEGA6: molecular evolutionary genetics analysis version 6.0. Mol. Biol. Evol. 30, 2725–2729.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Tewes, M.E., Everett, D.D., 1986. Status and distribution of the endangered ocelot andjaguarondi inTexas. In: Miller, S.D., Everett, D.D. (Eds.), Cats of the World: Biology, Conservation, and Management. National Wildlife Federation, Washington D.C, pp. 147–158.

    Google Scholar 

  • Thalmann, O., Hebler, J., Poinar, H.N., Paabo, S., Vigilant, L., 2004. Unreliable mtDNA data due to nuclear insertions: a cautionary tale from analysis of humans and other apes. Mol. Ecol. 13, 321–335.

    Article  CAS  PubMed  Google Scholar 

  • Thomas, O., 1914. On various South American mammals. Ann. Mag. Nat. Hist. Ser. 8 13, 345–362.

    Article  Google Scholar 

  • Trail, T.S., 1819. Description of a new species of Felis from Guyana. Memoirs of the Wernerian Natural History Society 3, 170–173.

    Google Scholar 

  • Trigo, T.C., Schneider, A., Oliveira, T.G., Lehugeur, L.M., Silveira, L., et al., 2013. Molecular data reveal complex hybridization and a cryptic species of Neotropical wild cat. Curr. Biol. 23, 2528–2533.

    Article  CAS  PubMed  Google Scholar 

  • Vaidya, G., Lohman, D.J., Meier, R., 2011. SequenceMatrix: concatenation software for the fast assembly of multi-gene datasets with character set and codon information. Cladistics 27, 171–180.

    Article  PubMed  Google Scholar 

  • Vander Hammen, T., 1992. La paleoecología de Suramérica Tropical. Cuarentaaños de investigación de la historia del medio ambiente y de la vegetación. In: Historia, Ecología y Vegetación. Corporación Colombiana para la Amazonía-Araracuara, Bogotá, Colombia, pp. 1–411.

    Google Scholar 

  • Walsh, P.S., Metzger, D.A., Higuchi, R., 1991. Chelex 100 as a medium for simple extraction of DNA for PCR-based typing from forensic material. BioTechniques 10, 506–513.

    CAS  PubMed  Google Scholar 

  • Webb, S.D., 1976. Mammalian faunal dynamics of the great American interchange. Paleobiology 2, 216–234.

    Article  Google Scholar 

  • Webb, D.S., 2006. The great American biotic interchange: patterns and processes. Ann. Mo. Bot. Gard. 93, 245–257.

    Article  Google Scholar 

  • Weigel, I., 1959. Das Fellmusterder wildlebenden Katzenarten und der Hauskatze in vergleichender und stammesgeschichtlicher Hinsicht. Saugetierkundliche Mitteilungen 23, 1–120.

    Google Scholar 

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Authors and Affiliations

  1. Laboratorio de Genética de Poblaciones Molecular-Biología Evolutiva, Departamento de Biología, Facultad de Ciencias, Pontificia Universidad Javeriana, Cra 7A, No. 43-82, Bogotá DC, Colombia

    Manuel Ruiz-García & Myreya Pinedo-Castro

  2. Math, Science and Technology Department, University of Minnesota Crookston, 2900 University Ave., Crookston, MN, 56716, USA

    Joseph Mark Shostell

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  1. Manuel Ruiz-García
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  2. Myreya Pinedo-Castro
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Correspondence to Manuel Ruiz-García.

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Ruiz-García, M., Pinedo-Castro, M. & Shostell, J.M. Mitogenomics of the jaguarundi (Puma yagouaroundi, Felidae, Carnivora): Disagreement between morphological subspecies and molecular data. Mamm Biol 93, 153–168 (2018). https://doi.org/10.1016/j.mambio.2018.09.004

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