Alfonsi E, Hassani S, Carpentier F-G, et al,. (2012) A European melting pot of harbour porpoise in the French Atlantic coasts inferred from mitochondrial and nuclear data. PLoS ONE, 7, e44425.
Alheit J, Hagen E, (1997) Long-term climate forcing of European herring and sardine populations. Fisheries Oceanography, 6, 130-139.
Alter SE, Palumbi SR, (2009) Comparing evolutionary patterns and variability in the mitochondrial control region and cytochrome B in three species of baleen whales. Journal of Molecular Evolution, 68, 97-111.
Amaral AR, Beheregaray LB, Bilgmann K, et al,. (2012) Influences of past climatic changes on historical population structure and demography of a cosmopolitan marine predator, the common dolphin (genus Delphinus). Molecular Ecology, 21, 4854-4871.
Andersen LW, Ruzzante DE, Walton M, et al,. (2001) Conservation genetics of harbour porpoises, Phocoena phocoena, in eastern and central North Atlantic. Conservation Genetics, 2, 309-324.
Arístegui J, Barton ED, Álvarez-Salgado XA, et al,. (2009) Sub-regional ecosystem variability in the Canary Current upwelling. Progress in Oceanography, 83, 33-48.
Beaumont MA, (2010) Approximate Bayesian computation in evolution and ecology. Annual Review of Ecology, Evolution, and Systematics, 41, 379-406.
Beaumont MA, Zhang W, Balding DJ, (2002) Approximate Bayesian computation in population genetics. Genetics, 162, 2025-2035.
Beerli P, (2006) Comparison of Bayesian and maximum-likelihood inference of population genetic parameters. Bioinformatics, 22, 341-345.
Beerli P, (2009) How to use MIGRATE or why are Markov chain Monte Carlo programs difficult to use. In: Population Genetics for Animal Conservation (eds, Bertorelle G, Bruford MW, Hauffe HC, Rizzoli A, Vernesi C,), pp. 42-79. Cambridge University Press, Cambridge, UK.
Birkun Jr A, Frantzis A, (2008) Phocoena phocoena ssp. relicta. IUCN Red List of threatened species, version 2011.1. Available from www.iucnredlist.org (accessed 5 September 2011).
Calvert SE, Nielsen B, Fontugne MR, (1992) Evidence from nitrogen isotope ratios for enhanced productivity during formation of eastern Mediterranean sapropels. Nature, 359, 223-225.
Charpentier M, Fontaine MC, Cherel E, et al,. (2012) Genetic structure in a dynamic baboon hybrid zone corroborates behavioural observations in a hybrid population. Molecular Ecology, 21, 715-731.
Clark PU, Dyke AS, Shakun JD, et al,. (2009) The last glacial maximum. Science, 30, 1187-1189.
Cornuet J-M, Santos F, Beaumont MA, et al,. (2008) Inferring population history with DIYABC: a user-friendly approach to approximate Bayesian computation. Bioinformatics, 24, 2713-2719.
Cornuet J-M, Ravignie V, Estoup A, (2010) Inference on population history and model checking using DNA sequence and microsatellite data with the software DIYABC (v1.0). BMC Bioinformatics, 11, 401.
Cornuet J-M, Pudlo P, Veyssier J, et al,. (2014) DIYABC v2.0: a software to make approximate Bayesian computation inferences about population history using single nucleotide polymorphism, DNA sequence and microsatellite data. Bioinformatics, 30, 1187-1189.
Donovan GP, Bjørge A, (1995) Harbour porpoises in the North Atlantic: edited extract from the report of the IWC Scientific Committee, Dublin 1995. Reports of the International Whaling Commission, 16, 3-26.
Drummond AJ, Rambaut A, (2007) BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evolutionary Biology, 7, 214.
Drummond AJ, Rambaut A, Shapiro B, Pybus OG, (2005) Bayesian coalescent inference of past population dynamics from molecular sequences. Molecular Biology and Evolution, 22, 1185-1192.
Estoup A, Jarne P, Cornuet J-M, (2002) Homoplasy and mutation model at microsatellite loci and their consequences for population genetics analysis. Molecular Ecology, 11, 1591-1604.
Estoup A, Lombaert E, Marin J-M, et al,. (2012) Estimation of demo-genetic model probabilities with Approximate Bayesian Computation using linear discriminant analysis on summary statistics. Molecular Ecology Resources, 12, 846-855.
Falush D, Stephens M, Pritchard JK, (2003) Inference of population structure using multilocus genotype data: linked loci and correlated allele frequencies. Genetics, 164, 1567-1587.
Fontaine MC, Baird SJE, Piry S, et al,. (2007) Rise of oceanographic barriers in continuous populations of a cetacean: the genetic structure of harbour porpoises in Old World waters. BMC Biology, 5, 30.
Fontaine MC, Tolley KA, Michaux JR, et al,. (2010) Genetic and historic evidence for climate-driven population fragmentation in a top cetacean predator: the harbour porpoises in European water. Proceedings of the Royal Society of London B: Biological Sciences, 277, 2829-2837.
Fontaine MC, Snirc A, Frantzis A, et al,. (2012) History of expansion and anthropogenic collapse in a top marine predator of the Black Sea estimated from genetic data. Proceedings of the National Academy of Sciences, 109, E2569-E2576.
Foote AD, Vilstrup JT, De Stephanis R, et al,. (2011) Genetic differentiation among North Atlantic killer whale populations. Molecular Ecology, 20, 629-641.
Frantzis A, Gordon J, Hassidis G, Komnenou A, (2001) The enigma of harbor porpoise presence in the Mediterranean Sea. Marine Mammal Science, 17, 937-944.
Fu YX, Li WH, (1993) Statistical tests of neutrality of mutations. Genetics, 133, 693-709.
Gaskin DE, (1984) The harbour porpoise Phocoena phocoena (L.): regional populations, status, and information on direct and indirect catches. Report of the International Whaling Commission, 34, 569-586.
Giosan L, Filip F, Constatinescu S, (2009) Was the Black Sea catastrophically flooded in the early Holocene? Quaternary Science Reviews, 28, 1-6.
Goudet J, (2001) FSTAT, a program to estimate and test gene diversities and fixation indices (version 2.9.3).
Grove JM, (2004) Little Ice Age. Routledge, London, New York, New York.
Guindon S, Gascuel O, (2003) A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Systematic Biology, 52, 696-704.
Hammond PS, Macleod K, Berggren P, et al,. (2013) Cetacean abundance and distribution in European Atlantic shelf waters to inform conservation and management. Biological Conservation, 164, 107-122.
Hartl DL, Clark AG, (2007) Principles of Population Genetics. Sinauer Associates, Sunderland, Massachusetts.
Hasegawa M, Kishino H, Yano T, (1985) Dating of the human-ape splitting by a molecular clock of mitochondrial DNA. Journal of Molecular Evolution, 22, 160-174.
Hewitt G, (2000) The genetic legacy of the Quaternary ice ages. Nature, 405, 907-913.
Ho SYW, Shapiro B, (2011) Skyline-plot methods for estimating demographic history from nucleotide sequences. Molecular Ecology Resources, 11, 423-434.
Hoelzel AR, (1998) Genetic structure of cetacean populations in sympatry, parapatry, and mixed assemblages: implications for conservation policy. Journal of Heredity, 89, 451-458.
Hubisz MJ, Falush D, Stephens M, Pritchard JK, (2009) Inferring weak population structure with the assistance of sample group information. Molecular Ecology Resources, 9, 1322-1332.
Hudson RR, (2000) A new statistic for detecting genetic differentiation. Genetics, 155, 2011-2014.
Hudson RR, Slatkin M, Maddison WP, (1992) Estimation of levels of gene flow from DNA sequence data. Genetics, 132, 583-589.
Jimenez-Espejo FJ, Martinez-Ruiz F, Sakamoto T, et al,. (2007) Paleoenvironmental changes in the western Mediterranean since the last glacial maximum: high resolution multiproxy record from the Algero-Balearic basin. Palaeogeography, Palaeoclimatology, Palaeoecology, 246, 292-306.
Librado P, Rozas J, (2009) DnaSP v5: a software for comprehensive analysis of DNA polymorphism data. Bioinformatics, 25, 1451-1452.
Lockyer C, (2007) All creatures great and smaller: a study in cetacean life history energetics. Journal of the Marine Biological Association of the UK, 87, 1035.
Louis M, Viricel A, Lucas T, et al,. (2014) Habitat-driven population structure of bottlenose dolphins, Tursiops truncatus, in the North-East Atlantic. Molecular Ecology, 23, 857-874.
Major CO, Goldstein SL, Ryan WB, et al,. (2006) The co-evolution of Black Sea level and composition through the last deglaciation and its paleoclimatic significance. Quaternary Science Reviews, 25, 2031-2047.
Marx FG, Uhen MD, (2010) Climate, critters, and cetaceans: Cenozoic drivers of the evolution of modern whales. Science, 327, 993-996.
Méndez-Fernandez P, Pierce GJ, Bustamante P, et al,. (2013) Ecological niche segregation among five toothed whale species off the NW Iberian Peninsula using ecological tracers as multi-approach. Marine Biology, 160, 2825-2840.
Moritz C, (2002) Strategies to protect biological diversity and the evolutionary processes that sustain it. Systematic Biology, 51, 238-254.
Nabholz B, Glemin S, Galtier N, (2007) Strong variations of mitochondrial mutation rate across mammals: the longevity hypothesis. Molecular Biology and Evolution, 25, 120-130.
Nei M, Li WH, (1979) Mathematical model for studying genetic variation in terms of restriction endonucleases. Proceedings of the National Academy of Sciences, 76, 5269-5273.
Nosil P, Harmon LJ, Seehausen O, (2009) Ecological explanations for (incomplete) speciation. Trends in Ecology & Evolution, 24, 145-156.
Osborn TJ, Briffa KR, (2006) The spatial extent of 20th-century warmth in the context of the past 1200 years. Science, 311, 841-844.
Palumbi SR, (1994) Genetic divergence, reproductive isolation, and marine speciation. Annual Review of Ecology and Systematics, 25, 547-572.
Pastene LA, Goto M, Kanda N, et al,. (2007) Radiation and speciation of pelagic organisms during periods of global warming: the case of the common minke whale, Balaenoptera acutorostrata. Molecular Ecology, 16, 1481-1495.
Pierce GJ, Caldas M, Cedeira J, et al,. (2010) Trends in cetacean sightings along the Galician coast, north-west Spain, 2003-2007, and inferences about cetacean habitat preferences. Journal of the Marine Biological Association of the UK, 90, 1547-1560.
Pilot M, Dahlheim ME, Hoelzel AR, (2010) Social cohesion among kin, gene flow without dispersal and the evolution of population genetic structure in the killer whale (Orcinus orca). Journal of Evolutionary Biology, 23, 20-31.
Pinela AM, Borrell A, Cardona L, Aguilar A, (2010) Stable isotope analysis reveals habitat partitioning among marine mammals off the NW African coast and unique trophic niches for two globally threatened species. Marine Ecology Progress Series, 416, 295-306.
Pritchard JK, Stephens M, Donnelly P, (2000) Inference of population structure using multilocus genotype data. Genetics, 155, 945-959.
Rambaut A, (2007) Tracers v1.5. Available from http://tree.bio.ed.ac.uk/ software/tracer/.
Roberts N, Brayshaw D, Kuzucuoglu C, Perez R, Sadori L, (2011) The mid-Holocene climatic transition in the Mediterranean: causes and consequences. The Holocene, 21, 3-13.
Rohling EJ, Abu-Zied R, Casford C, Hayes A, Hoogakker B, (2009) The marine environment: present and past. In: The Physical Geography of the Mediterranean (ed., Woodward JC,), pp. 33-67. Oxford University Press, Oxford.
Rosel PE, Dizon AE, Haygood MG, (1995) Variability of the mitochondrial control region in populations of the harbour porpoise, Phocoena phocoena, on interoceanic and regional scales. Canadian Journal of Fisheries and Aquatic Sciences, 52, 1210-1219.
Rousset F, (2008) genepop'007: a complete re-implementation of the genepop software for Windows and Linux. Molecular Ecology Resources, 8, 103-106.
Santos M, Pierce G, (2003) The diet of harbour porpoise (Phocoena phocoena) in the northeast Atlantic. Oceanography and Marine Biology: An Annual Review, 41, 355-390.
Smeenk C, Leopold MF, Addink MJ, (1992) Note on the harbour porpoise Phocoena phocoena in Mauritania, West Africa. Lutra, 35, 98-104.
Spitz J, Rousseau Y, Ridoux V, (2006) Diet overlap between harbour porpoise and bottlenose dolphin: an argument in favour of interference competition for food? Estuarine, Coastal and Shelf Science, 70, 259-270.
Spötl C, Nicolussi K, Patzelt G, Boch R, Team D (2010) Humid climate during deposition of sapropel 1 in the Mediterranean Sea: assessing the influence on the Alps. Global and Planetary Change, 71, 242-248.
Szpiech ZA, Jakobsson M, Rosenberg NA, (2008) ADZE: a rarefaction approach for counting alleles private to combinations of populations. Bioinformatics, 24, 2498-2504.
Tajima F, (1983) Evolutionary relationship of DNA sequences in finite populations. Genetics, 105, 437-460.
Tolley KA, Rosel PE, (2006) Population structure and historical demography of eastern North Atlantic harbour porpoises inferred through mtDNA sequences. Marine Ecology Progress Series, 327, 297.
Wakeley J, (1994) Substitution-rate variation among sites and the estimation of transition bias. Molecular Biology and Evolution, 11, 436-442.
Watterson GA, (1975) On the number of segregating sites in genetical models without recombination. Theoretical Population Biology, 7, 256-276.
Weir BS, Cockerham CC, (1984) Estimating F-statistics for the analysis of population structure. Evolution, 38, 1358-1370.
Wiemann A, Andersen LW, Berggren P, et al,. (2010) Mitochondrial control region and microsatellite analyses on harbour porpoise (Phocoena phocoena) unravel population differentiation in the Baltic Sea and adjacent waters. Conservation Genetics, 11, 195-211.
Wiley EO, (1988) Vicariance biogeography. Annual Review of Ecology and Systematics, 19, 513-542.