Biodiversity Literature Repository
Published July 12, 2016 | Version v1
Journal article Restricted

Integrating multiple evidences in taxonomy: species diversity and phylogeny of mustached bats (Mormoopidae: Pteronotus)

Creators

Description

Pavan, Ana Carolina, Marroig, Gabriel (2016): Integrating multiple evidences in taxonomy: species diversity and phylogeny of mustached bats (Mormoopidae: Pteronotus). Molecular Phylogenetics and Evolution 103: 184-198, DOI: 10.1016/j.ympev.2016.07.011, URL: http://dx.doi.org/10.1016/j.ympev.2016.07.011

Files

Restricted

The record is publicly accessible, but files are restricted to users with access.

Linked records

Additional details

Identifiers

LSID
urn:lsid:plazi.org:pub:111DFFA1AE3A751FFF83FFE4D50B0F11

Has part
Figure: 10.5281/zenodo.3909285 (DOI)
Figure: 10.5281/zenodo.3909287 (DOI)
Figure: 10.5281/zenodo.3909289 (DOI)
Figure: 10.5281/zenodo.3909291 (DOI)
Figure: 10.5281/zenodo.3909293 (DOI)
Figure: 10.5281/zenodo.3909295 (DOI)
Figure: 10.5281/zenodo.3909297 (DOI)

References

  • Adams, D.C., Berns, C.M., Kozak, K.H., Wiens, J.J., 2009. Are rates of species diversification correlated with rates of morphological evolution? Proc. R. Soc. B: Biol. Sci. 276, 2729-2738.
  • Avise, J.C., Arnold, J., Ball, R.M., Bermingham, E., Lamb, T., Neigel, J.E., Reeb, C.A., Saunders, N.C., 1987. Intraspecific phylogeography the mitochondrial DNA bridge between population genetics and systematics. Ann. Rev. Ecol. Syst. 18, 489-522.
  • Baker, R., Bradley, R., 2006. Speciation in mammals and the Genetic Species Concept. J. Mammal. 87, 643-662.
  • Baker, R., Porter, C., Patton, J., Van Den Bussche, R., 2000. Systematics of bats of the family phyllostomidae based on RAG2 DNA sequences. Occas. Pap. Tex. Tech Univ. Mus. 202, 1-16.
  • Bickford, D., Lohman, D.J., Sodhi, N.S., Ng, P.K.L., Meier, R., Winker, K., Ingram, K.K., Das, I., 2007. Cryptic species as a window on diversity and conservation. Trends Ecol. Evolut. 22, 148-155.
  • Borisenko, A.V., Lim, B.K., Ivanova, N.V., Hanner, R.H., Hebert, P.D.N., 2008. DNA barcoding in surveys of small mammal communities: a field study in Suriname. Mol. Ecol. Resour. 8, 471-479.
  • Bradley, R.D., Baker, R.J., 2001. A test of the genetic species concept: cytochrome- b sequences and mammals. J. Mammal. 82, 960-973.
  • Bruford, M.W., Hanotte, O., Brookfield, J.F.Y., Burke, T., 1992. Single-locus and multilocus DNA fingerprinting. In: Hoelzel, A.R. (Ed.), Molecular Genetic Analyses of Populations. A Practical Approach. IRL Press, Oxford, pp. 225-269.
  • Cheverud, J.M., 1982. Phenotypic, genetic and environmental morphological integration in the cranium. Evolution 36, 499-516.
  • Cheverud, J.M., 1996. Developmental integration and the evolution of pleiotropy. Am. Zool. 36, 44-50.
  • Clare, E.L., 2011. Cryptic species? Patterns of maternal and paternal gene flow in 8 neotropical bats. PLoS ONE 6, e21460.
  • Clare, E.L., Adams, A.M., Maya-Simoes, A.Z., Eger, J.L., Hebert, P.D., Brock, F.M., 2013. Diversification and reproductive isolation: cryptic species in the only New World high-duty cycle bat, Pteronotus parnellii. BMC Evol. Biol. 13, 26.
  • Clare, E.L., Lim, B.K., Fenton, M.B., Hebert, P.D.N., 2011. Neotropical bats: estimating species diversity with DNA barcodes. PLoS ONE 6, e22648.
  • Corl, A., Ellegren, H., 2013. Sampling strategies for species trees: the effects on phylogenetic inference of the number of genes, number of individuals, and whether loci are mitochondrial, sex-linked, or autosomal. Mol. Phylogenet. Evol. 67, 358-366.
  • Coyne, J.A., Orr, H.A., 2004. Speciation. W.H. Freeman.
  • Dayrat, B., 2005. Towards integrative taxonomy. Biol. J. Linnean Soc. 85, 407-415.
  • de Queiroz, K., 1998. The general lineage concept of species, species criteria, and the process of speciation: a conceptual unification and terminological recommendations. In: Howard, D.J., Berlocher, S.H. (Eds.), Endless Forms. Species and Speciation. Oxford University Press, Oxford, England, UK, p. 470.
  • Degnan, J.H., Rosenberg, N.A., 2009. Gene tree discordance, phylogenetic inference and the multispecies coalescent. Trends Ecol. Evolut. 24, 332-340.
  • Drummond, A.J., Rambaut, A., 2007. BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evol. Biol., 7
  • Davalos, L.M., 2006. The geography of diversification in the mormoopids (Chiroptera: Mormoopidae). Biol. J. Linnean Soc. 88, 101-118.
  • Eick, G.N., Jacobs, D.S., Matthee, C.A., 2005. A nuclear DNA phylogenetic perspective on the evolution of echolocation and historical biogeography of extant bats (chiroptera). Mol. Biol. Evol. 22, 1869-1886.
  • Ewing, B., Green, P., 1998. Basecalling of automated sequencer traces using Phred II. Error probabilities. Genome Res. 8, 186-194.
  • Ewing, B., Hillier, L., Wendl, M., Green, P., 1998. Basecalling of automated sequencer traces using phred. I. Accuracy assessment. Genome Res. 8, 175-185.
  • Fenton, M.B., Faure, P.A., Ratcliffe, J.M., 2012. Evolution of duty cycle echolocation in bats. J. Exp. Biol. 215, 2935-2944.
  • Goloboff, P., Farris, S., Nixon, K., 2003. TNT (Tree Analysis Using New Technology). Available at: <http://www.lillo.org.ar/phylogeny/tnt/>.
  • Gordon, D., Abajian, C., Green, P., 1998. Consed: a graphical tool for sequence finishing. Genome Res. 8, 195-202.
  • Gutierrez, E.E., Molinari, J., 2008. Morphometrics and taxonomy of bats of the genus Pteronotus (subgenus Phyllodia) in Venezuela. J. Mammal. 89, 292-305.
  • Heled, J., Drummond, A.J., 2010. Bayesian inference of species trees from multilocus data. Mol. Biol. Evol. 27, 570-580.
  • Hutson, A.M., Mickleburgh, S.P., Racey, P.A., 2001. Microchiropteran Bats: Global Status Survey and Conservation Action Plan. IUCN/SSC Chiroptera Specialist Group., IUCN, Gland, Switzerland and Cambridge, UK.
  • Kingman, J.F.C., 1982. On the genealogy of large populations. J. Appl. Probab. 19A, 27-43.
  • Kingston, T., Lara, M.C., Jones, G., Akbar, Z., Kunz, T.H., Schneider, C.J., 2001. Acoustic divergence in two cryptic Hipposideros species: a role for social selection? Proc. R. Soc. B: Biol. Sci. 268, 1381-1386.
  • Kingston, T., Rossiter, S.J., 2004. Harmonic-hopping in Wallacea's bats. Nature 429, 654-657.
  • Klecka, W.R., 1980. Discriminant Analysis. Sage (ed. 19).
  • Knowles, L.L., Carstens, B.C., 2007. Delimiting species without monophyletic gene trees. Syst. Biol. 56, 887-895.
  • Kubatko, L.S., Degnan, J.H., 2007. Inconsistency of phylogenetic estimates from concatenated data under coalescence. Syst. Biol. 56, 17-24.
  • 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.
  • Lewis-Oritt, N., Porter, C.A., Baker, R.J., 2001. Molecular systematics of the family mormoopidae (chiroptera) based on cytochrome b and recombination activating gene 2 sequences. Mol. Phylogenet. Evol. 20, 426-436.
  • Lim, B.K., Engstrom, M.D., Bickham, J.W., Patton, J.C., 2008. Molecular phylogeny of New World sheath-tailed bats (Emballonuridae: Diclidurini) based on loci from the four genetic transmission systems in mammals. Biol. J. Linnean Soc. 93, 189-209.
  • Linares, O.J., Ojasti, J., 1974. Una nueva subespecie del murcielago Pteronotus parnellii, en las cuevas de la Peninsula de Paraguana, Venezuela (Chiroptera: Mormoopidae). Bol. Soc. Venezolana Espeleologia 5, 73-78.
  • Maddison, W.P., 1997. Gene Trees in Species Trees. Syst. Biol. 46, 523-536.
  • Mancina, C.A., Garcia-Rivera, L., Miller, B.W., 2012. Wing morphology, echolocation, and resource partitioning in syntopic Cuban mormoopid bats. J. Mammal. 93, 1308-1317.
  • Marroig, G., Cheverud, J.M., 2004. Cranial evolution in sakis (Pithecia, Platyrrhini) I: interspecific differentiation and allometric patterns. Am. J. Phys. Anthropol. 125, 266-278.
  • Martins, F.M., Ditchfield, A.D., Meyer, D., Morgante, J.S., 2007. Mitochondrial DNA phylogeography reveals marked population structure in the common vampire bat, Desmodus rotundus (Phyllostomidae). J. Zool. Syst. Evol. 45, 372-378.
  • Morgan, G.S., Czaplewski, N.J., 2012. Evolutionary history of the Neotropical Chiroptera: the fossil record. In: Gunnell, G.F., Simmons, N.B. (Eds.), Evolutionary History of Bats: Fossils, Molecules and Morphology. Cambridge University Press, New York, USA, pp. 105-161.
  • Nordborg, M., 2001. Coalescent Theory. Handbook of Statistical Genetics.
  • Novick, A., 1963. Orientation in neotropical bats. II. Phyllostomatidae and desmodontidae. J. Mammal. 44, 44-56.
  • Parlos, J.A., Timm, R.M., Swier, V.J., Zeballos, H., Baker, R.J., 2014. Evaluation of paraphyletic assemblages within Lonchophyllinae, with description of a new tribe and genus. Occas. Pap. Tex. Tech Univ. Mus., 320
  • Patton, J.L., Gardner, A.L., 2007. Family Mormoopidae. In: Gardner, A.L. (Ed.), Mammals of South America. University of Chicago Press, Chicago, Illinois, pp. 376-384.
  • Pavan, A.C., Martins, F.M., Morgante, J.S., 2013. Evolutionary history of bulldog bats (genus Noctilio): recent diversification and the role of the Caribbean in Neotropical biogeography. Biol. J. Linnean Soc. 108, 210-224.
  • R Development Core Team, 2013. R: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing, Vienna, Austria.
  • Rambaut, A., 2012. FigTree. Institute of Evolutionary Biology, University of Edinburgh.
  • Rambaut, A., Suchard, M., Drummond, A., 2013. Tracer. Institute of Evolutionary Biology, University of Edinburgh.
  • Reig, S., 1996. Correspondence between interlandmark distances and caliper measurements. In: Marcus, L., Corti, M., Loy, A., Naylor, G.P., Slice, D. (Eds.), Advances in Morphometrics. Springer, US, pp. 371-385.
  • Ronquist, F., Huelsenbeck, J.P., 2003. MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19, 1572-1574.
  • Ronquist, F., Huelsenbeck, J.P., van der Mark, P., 2010. MrBayes 3.2 Manual.
  • Rosenberg, N.A., Nordborg, M., 2002. Genealogical trees, coalescent theory and the analysis of genetic polymorphisms. Nature 3, 380-390.
  • Schlick-Steiner, B.C., Steiner, F.M., Seifert, B., Stauffer, C., Christian, E., Crozier, R.H., 2010. Integrative taxonomy: a multisource approach to exploring biodiversity. Annu. Rev. Entomol. 55, 421-438.
  • Silva-Taboada, G., 1974. Fossil Chiroptera from cave deposits in central Cuba, with descriptions of two new species (genera Pteronotus and Mormoops) and the first West Indian record of Mormoops megalophylla. Acta Zool. Cracov. 19, 34-73.
  • Simmons, N.B., 2005. Order chiroptera. In: Wilson, D.E., Reeder, D.M. (Eds.), Mammal Species of the World: A Taxonomic and Geographic Reference. Johns Hopkins University Press, Baltimore, Maryland.
  • Simmons, N.B., Conway, T.M., 2001. Phylogenetic relationships of mormoopid bats (Chiroptera: Mormoopidae) based on morphological dataBull. Am. Mus. Nat. Hist. 258, 97.
  • Smith, J.D., 1972. Systematics of the Chiropteran Family Mormoopidae, vol. 56. Miscellaneous Publication, Mus. Nat. Hist., Univ. Kansas, pp. 1-132.
  • 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.
  • Thoisy, B.D., Pavan, A.C., Delaval, M., Lavergne, A., Luglia, T., Pineau, K., Ruedi, M., Rufray, V., Catzeflis, F., 2014. Cryptic diversity in common mustached bats Pteronotus cf. parnellii (Mormoopidae) in French Guiana and Brazilian Amapa. Acta Chiropterol 16, 1-13.
  • Van Den Bussche, R.A., Hoofer, S.R., Simmons, N.B., 2002. Phylogenetic relationships of mormoopid bats using mitochondrial gene sequences and morphology. J. Mammal. 83, 40-48.
  • Van Den Bussche, R.A., Weyandt, S.E., 2003. Mitochondrial and nuclear DNA sequence data provide resolution to sister-group relationships within Pteronotus (Chiroptera: Mormoopidae). Acta Chiropterol. 5, 1-13.
  • Velazco, P.M., Patterson, B.D., 2008. Phylogenetics and biogeography of the broadnosed bats, genus Platyrrhinus (Chiroptera: Phyllostomidae). Mol. Phylogenet. Evol. 49, 749-759.
  • Velazco, P.M., Patterson, B.D., 2013. Diversification of the yellow-shouldered bats, genus Sturnira (Chiroptera, Phyllostomidae), in the New World tropics. Mol. Phylogenet. Evol. 68, 683-698.
  • Wakeley, J., 2004. Inferences about the structure and history of populations: coalescents and intraspecific phylogeography. In: Singh, R.S., Uyenoyama, M.K. (Eds.), The Evolution of Population Biology. Cambridge University Press.
  • Weisrock, D.W., Rasoloarison, R.M., Fiorentino, I., Ralison, J.M., Goodman, S.M., Kappeler, P.M., Yoder, A.D., 2010. Delimiting species without nuclear monophyly in Madagascar's mouse lemurs. PLoS ONE 5, e9883.
  • Wiens, J.J., 2007. Species delimitation: new approaches for discovering diversity. Syst. Biol. 56, 875-878.
  • Will, K.W., Mishler, B.D., Wheeler, Q.D., 2005. The perils of DNA barcoding and the need for integrative taxonomy. Syst. Biol. 54, 844-851.
  • Xia, X., 2013. DAMBE5: a comprehensive software package for data analysis in molecular biology and evolution. Mol. Biol. Evol. 30, 1720-1728.
  • Zwickl, D.J., 2006. GARLI: Genetic Algorithm Approaches for the Phylogenetic Analysis of Large Biological Sequence Datasets Under the Maximum Likelihood Criterion. The University of Texas at Austin, Austin, Texas.