Radically different phylogeographies and patterns of genetic variation in two European brown frogs, genus Rana

Vences M, Hauswaldt S, Steinfartz S, Rupp O, Goesmann A, Künzel S, Orozco-Terwengel P, Vieites DR, Nieto-Roman S, Haas S, Laugsch C, et al. (2013)
Molecular phylogenetics and evolution 68(3): 657-670.

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Abstract / Bemerkung
We reconstruct range-wide phylogeographies of two widespread and largely co-occurring Western Palearctic frogs, Rana temporaria and R. dalmatina. Based on tissue or saliva samples of over 1000 individuals, we compare a variety of genetic marker systems, including mitochondrial DNA, single-copy protein-coding nuclear genes, microsatellite loci, and single nucleotide polymorphisms (SNPs) of transcriptomes of both species. The two focal species differ radically in their phylogeographic structure, with R. temporaria being strongly variable among and within populations, and R. dalmatina homogeneous across Europe with a single strongly differentiated population in southern Italy. These differences were observed across the various markers studied, including microsatellites and SNP density, but especially in protein-coding nuclear genes where R. dalmatina had extremely low heterozygosity values across its range, including potential refugial areas. On the contrary, R. temporaria had comparably high range-wide values, including many areas of probable postglacial colonization. A phylogeny of R. temporaria based on various concatenated mtDNA genes revealed that two haplotype clades endemic to Iberia form a paraphyletic group at the base of the cladogram, and all other haplotypes form a monophyletic group, in agreement with an Iberian origin of the species. Demographic analysis suggests that R. temporaria and R. dalmatina have genealogies of roughly the same time to coalescence (TMRCA ∼3.5mya for both species), but R. temporaria might have been characterized by larger ancestral and current effective population sizes than R. dalmatina. The high genetic variation in R. temporaria can therefore be explained by its early range expansion out of Iberia, with subsequent cycles of differentiation in cryptic glacial refugial areas followed by admixture, while the range expansion of R. dalmatina into central Europe is a probably more recent event.
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Zeitschriftentitel
Molecular phylogenetics and evolution
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68
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3
Seite(n)
657-670
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Vences M, Hauswaldt S, Steinfartz S, et al. Radically different phylogeographies and patterns of genetic variation in two European brown frogs, genus Rana. Molecular phylogenetics and evolution. 2013;68(3):657-670.
Vences, M., Hauswaldt, S., Steinfartz, S., Rupp, O., Goesmann, A., Künzel, S., Orozco-Terwengel, P., et al. (2013). Radically different phylogeographies and patterns of genetic variation in two European brown frogs, genus Rana. Molecular phylogenetics and evolution, 68(3), 657-670. doi:10.1016/j.ympev.2013.04.014
Vences, M., Hauswaldt, S., Steinfartz, S., Rupp, O., Goesmann, A., Künzel, S., Orozco-Terwengel, P., Vieites, D. R., Nieto-Roman, S., Haas, S., et al. (2013). Radically different phylogeographies and patterns of genetic variation in two European brown frogs, genus Rana. Molecular phylogenetics and evolution 68, 657-670.
Vences, M., et al., 2013. Radically different phylogeographies and patterns of genetic variation in two European brown frogs, genus Rana. Molecular phylogenetics and evolution, 68(3), p 657-670.
M. Vences, et al., “Radically different phylogeographies and patterns of genetic variation in two European brown frogs, genus Rana”, Molecular phylogenetics and evolution, vol. 68, 2013, pp. 657-670.
Vences, M., Hauswaldt, S., Steinfartz, S., Rupp, O., Goesmann, A., Künzel, S., Orozco-Terwengel, P., Vieites, D.R., Nieto-Roman, S., Haas, S., Laugsch, C., Gehara, M., Bruchmann, S., Pabijan, M., Ludewig, A.-K., Rudert, D., Angelini, C., Borkin, L.J., Crochet, P.-A., Crottini, A., Dubois, A., Ficetola, G.F., Galán, P., Geniez, P., Hachtel, M., Jovanovic, O., Litvinchuk, S.N., Lymberakis, P., Ohler, A., Smirnov, N.A.: Radically different phylogeographies and patterns of genetic variation in two European brown frogs, genus Rana. Molecular phylogenetics and evolution. 68, 657-670 (2013).
Vences, Miguel, Hauswaldt, Susanne, Steinfartz, Sebastian, Rupp, Oliver, Goesmann, Alexander, Künzel, Sven, Orozco-Terwengel, Pablo, Vieites, David R, Nieto-Roman, Sandra, Haas, Sabrina, Laugsch, Clara, Gehara, Marcelo, Bruchmann, Sebastian, Pabijan, Maciej, Ludewig, Ann-Kathrin, Rudert, Dirk, Angelini, Claudio, Borkin, Leo J, Crochet, Pierre-André, Crottini, Angelica, Dubois, Alain, Ficetola, Gentile Francesco, Galán, Pedro, Geniez, Philippe, Hachtel, Monika, Jovanovic, Olga, Litvinchuk, Spartak N, Lymberakis, Petros, Ohler, Annemarie, and Smirnov, Nazar A. “Radically different phylogeographies and patterns of genetic variation in two European brown frogs, genus Rana”. Molecular phylogenetics and evolution 68.3 (2013): 657-670.

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PMID: 30913279
Mitochondrial phylogeography of the Iberian endemic frog Rana iberica, with implications for its conservation.
Teixeira J, Gonçalves H, Ferrand N, García-París M, Recuero E., Curr Zool 64(6), 2018
PMID: 30538735
The dissection of a Pleistocene refugium: phylogeography of the smooth newt, Lissotriton vulgaris, in the Balkans
Pabijan M, Zieliński P, Dudek K, Chloupek M, Sotiropoulos K, Liana M, Babik W, Riddle B., J Biogeogr 42(4), 2015
PMID: IND601326040
Microevolution due to pollution in amphibians: A review on the genetic erosion hypothesis.
Fasola E, Ribeiro R, Lopes I., Environ Pollut 204(), 2015
PMID: 25969378
Genetic population structure and demographic history of an endangered frog, Babina holsti
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PMID: IND604394487
What triggers the rising of an intraspecific biodiversity hotspot? Hints from the agile frog.
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PMID: 24853644

105 References

Daten bereitgestellt von Europe PubMed Central.

A new look at the statistical model identification
Akaike, IEEE Trans. Automat. Contr. 19(), 1974
Global amphibian declines, loss of genetic diversity and fitness, a review
Allentoft, Diversity 2(), 2010

Avise, 2000
Speciation durations and Pleistocene effects on vertebrate phylogeography
Avise, Proc. Roy. Soc. Lond. B: Biol. Sci. 265(), 1998
Mitochondrial phylogeography of the moor frog, Rana arvalis.
Babik W, Branicki W, Sandera M, Litvinchuk S, Borkin LJ, Irwin JT, Rafinski J., Mol. Ecol. 13(6), 2004
PMID: 15140091
Long-term survival of a urodele amphibian despite depleted major histocompatibility complex variation.
Babik W, Pabijan M, Arntzen JW, Cogalniceanu D, Durka W, Radwan J., Mol. Ecol. 18(5), 2009
PMID: 19207255
The incomplete natural history of mitochondria.
Ballard JW, Whitlock MC., Mol. Ecol. 13(4), 2004
PMID: 15012752
Population size does not influence mitochondrial genetic diversity in animals.
Bazin E, Glemin S, Galtier N., Science 312(5773), 2006
PMID: 16645093
Neutral DNA markers fail to detect genetic divergence in an ecologically important trait
Bekessy, Biol. Cons. 110(), 2003
The oldest representative of a brown frog (Ranidae) from the Early Miocene of Germany
Böhme, Acta Pal. Polonica 46(), 2003
Diversity in protein, nuclear DNA, and mtDNA in South Amerinds--agreement or discrepancy?
Bortolini MC, Baptista C, Callegari-Jacques SM, Weimer TA, Salzano FM., Ann. Hum. Genet. 62(Pt 2), 1998
PMID: 9759475
High resolution of human evolutionary trees with polymorphic microsatellites.
Bowcock AM, Ruiz-Linares A, Tomfohrde J, Minch E, Kidd JR, Cavalli-Sforza LL., Nature 368(6470), 1994
PMID: 7510853

AUTHOR UNKNOWN, 0
Single-locus and multilocus DNA fingerprint
Bruford, 1992
Genetic uniformity of Rana pyrenaica Serra–Cobo, 1993 across its distribution range, a preliminary study with mtDNA sequences
Carranza, Amphibia–Reptilia 29(), 2008
Phylogeny of Raninae (Anura: Ranidae) inferred from mitochondrial and nuclear sequences.
Che J, Pang J, Zhao H, Wu GF, Zhao EM, Zhang YP., Mol. Phylogenet. Evol. 43(1), 2006
PMID: 17300963
TCS: a computer program to estimate gene genealogies.
Clement M, Posada D, Crandall KA., Mol. Ecol. 9(10), 2000
PMID: 11050560
Mitochondrial DNA reveals hidden diversity and an ancestral lineage of the bank vole in the Italian peninsula
Colangelo, J. Zool. 287(), 2012
Bayesian identification of admixture events using multilocus molecular markers.
Corander J, Marttinen P., Mol. Ecol. 15(10), 2006
PMID: 16911204

AUTHOR UNKNOWN, 0
A climatic basis for microrefugia: the influence of terrain on climate
DOBROWSKI SZ., Global change biology. 17(2), 2011
PMID: IND44479912
Bayesian coalescent inference of past population dynamics from molecular sequences.
Drummond AJ, Rambaut A, Shapiro B, Pybus OG., Mol. Biol. Evol. 22(5), 2005
PMID: 15703244
Bayesian phylogenetics with BEAUti and the BEAST 1.7.
Drummond AJ, Suchard MA, Xie D, Rambaut A., Mol. Biol. Evol. 29(8), 2012
PMID: 22367748
Genetic consequences of range expansions
Excoffier, Annu. Rev. Ecol. Evol. Syst. 40(), 2009

AUTHOR UNKNOWN, 0
A review of methods for the assessment of prediction errors in conservation presence/absence models
Fielding, Environ. Conserv. 24(), 1997
The amphibian tree of life
Frost, Bull. Amer. Mus. Nat. Hist. 297(), 2006
Mitochondrial DNA as a marker of molecular diversity: a reappraisal.
Galtier N, Nabholz B, Glemin S, Hurst GD., Mol. Ecol. 18(22), 2009
PMID: 19821901
The use of microsatellite variation to infer population structure and demographic history in a natural model system.
Goldstein DB, Roemer GW, Smith DA, Reich DE, Bergman A, Wayne RK., Genetics 151(2), 1999
PMID: 9927470

AUTHOR UNKNOWN, 0

AUTHOR UNKNOWN, 0

AUTHOR UNKNOWN, 0
Eight new tetranucleotide microsatellite loci for the agile frog (Rana dalmatina).
Hauswaldt JS, Fuessel J, Guenther J, Steinfartz S., Mol Ecol Resour 8(6), 2008
PMID: 21586075
Hybridization of two ancient salamander lineages, molecular evidence for endemic spectacled salamanders on the Apennine peninsula
Hauswaldt, J. Zool. 284(), 2011
Genetic consequences of climatic oscillations in the Quaternary
Hewitt, Philos. Trans. Roy. Soc. Lond. B: Biol. Sci. 359(), 2004
Post-glacial re-colonization of European biota
Hewitt, Biol. J. Linn. Soc. 68(), 2009
Very high resolution interpolated climate surfaces for global land areas
Hijmans, Int. J. Climatol. 25(), 2005

Holman, 1998
CAP3: A DNA sequence assembly program.
Huang X, Madan A., Genome Res. 9(9), 1999
PMID: 10508846
Ecological consequences of genetic diversity.
Hughes AR, Inouye BD, Johnson MT, Underwood N, Vellend M., Ecol. Lett. 11(6), 2008
PMID: 18400018
The distribution of human genetic diversity: a comparison of mitochondrial, autosomal, and Y-chromosome data.
Jorde LB, Watkins WS, Bamshad MJ, Dixon ME, Ricker CE, Seielstad MT, Batzer MA., Am. J. Hum. Genet. 66(3), 2000
PMID: 10712212
Common misconceptions in molecular ecology: echoes of the modern synthesis.
Karl SA, Toonen RJ, Grant WS, Bowen BW., Mol. Ecol. 21(17), 2012
PMID: 22574714
The importance of recent ice ages in speciation: a failed paradigm
Klicka, Science 277(), 1997
Statistical phylogeography
Knowles, Ann. Rev. Ecol. Syst. 40(), 2009
Genetic variability predicts common frog (Rana temporaria) size at metamorphosis in the wild.
Lesbarreres D, Schmeller DS, Primmer CR, Merila J., Heredity (Edinb) 99(1), 2007
PMID: 17473871
DnaSP v5: a software for comprehensive analysis of DNA polymorphism data.
Librado P, Rozas J., Bioinformatics 25(11), 2009
PMID: 19346325
Gene flow and selection on phenotypic plasticity in an island system of Rana temporaria.
Lind MI, Ingvarsson PK, Johansson H, Hall D, Johansson F., Evolution 65(3), 2010
PMID: 20825480
The role of propagule pressure in explaining species invasions.
Lockwood JL, Cassey P, Blackburn T., Trends Ecol. Evol. (Amst.) 20(5), 2005
PMID: 16701373
Positive and negative selection on the mitochondrial genome.
Meiklejohn CD, Montooth KL, Rand DM., Trends Genet. 23(6), 2007
PMID: 17418445

Nylander, 2004
AWTY (are we there yet?): a system for graphical exploration of MCMC convergence in Bayesian phylogenetics.
Nylander JA, Wilgenbusch JC, Warren DL, Swofford DL., Bioinformatics 24(4), 2007
PMID: 17766271
Last Glacial Maximum and Holocene climate in CCSM3
Otto-Bliesner, J. Clim. 19(), 2006
High degree of population subdivision in a widespread amphibian.
Palo JU, Schmeller DS, Laurila A, Primmer CR, Kuzmin SL, Merila J., Mol. Ecol. 13(9), 2004
PMID: 15315676
GENALEX 6: genetic analysis in Excel. Population genetic software for teaching and research
Peakall, Mol. Ecol. Res. 6(), 2006
Karyological divergence of a Moldovan population of Rana dalmatina Bonaparte 1838
Petraccioli, Amphibia–Reptilia 31(), 2010
Differences in spawning date between populations of common frog reveal local adaptation
Phillimore, Proc. Nat. Acad. Sci. USA 107(), 2010
Maximum entropy modeling of species geographic distribution
Phillips, Ecol. Modell. 190(), 2006
BOTTLENECK, a computer program for detecting recent reductions in the effective population size using allele frequency data
Piry, J. Hered. 90(), 1999
jModelTest: phylogenetic model averaging.
Posada D., Mol. Biol. Evol. 25(7), 2008
PMID: 18397919
Phylogeographic insights into cryptic glacial refugia.
Provan J, Bennett KD., Trends Ecol. Evol. (Amst.) 23(10), 2008
PMID: 18722689

AUTHOR UNKNOWN, 0
Local selection modifies phenotypic divergence among Rana temporaria populations in the presence of gene flow.
Richter-Boix A, Teplitsky C, Rogell B, Laurila A., Mol. Ecol. 19(4), 2010
PMID: 20089126
MrBayes 3: Bayesian phylogenetic inference under mixed models.
Ronquist F, Huelsenbeck JP., Bioinformatics 19(12), 2003
PMID: 12912839
Lusitania revisited: a phylogeographic analysis of the natterjack toad Bufo calamita across its entire biogeographical range
Rowe, Mol. Phyl. Evol. 39(), 2006
RAD in the realm of next-generation sequencing technologies.
Rowe HC, Renaut S, Guggisberg A., Mol. Ecol. 20(17), 2011
PMID: 21991593
Population structure and genetic diversity of Rana dalmatina in the Iberian Peninsula
Sarasola-Puente V, Madeira MJ, Gosa A, Lizana M, Gomez-Moliner B., Conserv. Genet. 13(1), 2012
PMID: IND44762269
Modelling species’ climatic distributions under habitat constraints, a case study with Coturnix coturnix
Sardà-Palomera, Ann. Zool. Fenn. 48(), 2011
Extra-Mediterranean refugia: The rule and not the exception?
Schmitt T, Varga Z., Front. Zool. 9(1), 2012
PMID: 22953783
The role of propagule pressure in biological invasions
Simberloff, Annu. Rev. Ecol. Evol. Syst. 40(), 2009
Refugia within refugia as a key to disentangle the genetic pattern of a highly variable species: the case of Rana temporaria Linnaeus, 1758 (Anura, Ranidae).
Stefani F, Gentilli A, Sacchi R, Razzetti E, Pellitteri-Rosa D, Pupin F, Galli P., Mol. Phylogenet. Evol. 65(2), 2012
PMID: 22874474
Refugia revisited: individualistic responses of species in space and time
Stewart, Proc. Roy. Soc. B Biol. Sci. 277(), 2010
Comparative phylogeography and postglacial colonization routes in Europe.
Taberlet P, Fumagalli L, Wust-Saucy AG, Cosson JF., Mol. Ecol. 7(4), 1998
PMID: 9628000
MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods.
Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S., Mol. Biol. Evol. 28(10), 2011
PMID: 21546353
Impact of introduced fish on Common frog (Rana temporaria) close to its altitudinal limit in alpine lakes
Tiberti, Amphibia–Reptilia 33(), 2012
MICRO-CHECKER: software for identifying and correcting genotyping errors in microsatellite data
van, Mol. Ecol. Res. 4(), 2004
Genetic differentiation and population structure within the Spanish common frogs (Rana temporaria complex; Ranidae, Amphibia)
Veith, Folia Zool. 51(), 2002
Discordant patterns of nuclear and mitochondrial introgression in Iberian populations of the European common frog (Rana temporaria).
Veith M, Baumgart A, Dubois A, Ohler A, Galan P, Vieites DR, Nieto-Roman S, Vences M., J. Hered. 103(2), 2012
PMID: 22319097
Connections between species diversity and genetic diversity
Vellend, Ecol. Lett. 8(), 2005
The Cambalès fairy tale, elevational limits of Rana temporaria (Amphibia, Ranidae) and other European amphibians revisited
Vences, Folia Zool. 52(), 2003
Post-mating clutch piracy in an amphibian.
Vieites DR, Nieto-Roman S, Barluenga M, Palanca A, Vences M, Meyer A., Nature 431(7006), 2004
PMID: 15372032
Reconstruction of the climate envelopes of salamanders and their evolution through time.
Vieites DR, Nieto-Roman S, Wake DB., Proc. Natl. Acad. Sci. U.S.A. 106 Suppl 2(), 2009
PMID: 19887643
Locating pleistocene refugia: comparing phylogeographic and ecological niche model predictions.
Waltari E, Hijmans RJ, Peterson AT, Nyari AS, Perkins SL, Guralnick RP., PLoS ONE 2(6), 2007
PMID: 17622339

Weiss, 2007
The role of Quaternary environmental change in plant macroevolution: the exception or the rule?
Willis, Philos. Trans. Roy. Soc. Lond. B: Biol. Sci. 359(), 2004

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