Expected coalescence times and segregating sites in a model of glacial cycles

Genetics and Molecular Research

Volumn 5, Issue 3, 2006, Pages 466-474

  Jesus, F F ^a   Wilkins, J F ^b   Solferini, V N ^a   Wakeley, J ^c  

^a UNIVERSITY OF CAMPINAS   (Brazil)

^b SANTA FE INSTITUTE   (United States)

^c HARVARD UNIVERSITY   (United States)

Author keywords

Coalescent theory; Pairwise differences; Population structure; Refugia

Indexed keywords

ARTICLE; CLIMATE CHANGE; DEMOGRAPHY; DNA SEQUENCE; GENE SEQUENCE; GENETIC VARIABILITY; NONHUMAN; POPULATION SIZE; POPULATION STRUCTURE;

ANIMALS; COLD CLIMATE; GENETIC VARIATION; HUMANS; ICE COVER; MODELS, GENETIC; POPULATION DENSITY; POPULATION DYNAMICS;

ANIMALIA;

EID: 33748628819     PISSN: 16765680     EISSN: 16765680     Source Type: Journal    
DOI: None     Document Type: Article

References (28)

1. Austerlitz F, Jung-Muller B, Godelle B and Gouyon P (1997). Evolution of coalescence times, genetic diversity and structure during colonization. Theor. Popul. Biol. 51: 148-164.
2. Burnham RJ and Graham A (1999). The history of Neotropical vegetation: new developments and status. Ann. MO Bot. Gard. 86: 546-589.
3. Charlesworth B, Charlesworth D and Barton NH (2003). The effects of genetic and geographic structure on neutral variation. Annu. Rev. Ecol. Evol. Syst. 34: 99-125.
4. Excoffier L (2004). Patterns of DNA sequence diversity and genetic structure after a range expansion: lessons from the infinite-island model. Mol. Ecol. 13: 853-864.
5. Fisher RA (1930). The genetical theory of natural selection. Clarendon, Oxford, England.
6. Hewitt G (2000). The genetic legacy of the Quaternary ice ages. Nature 405: 907-913.
7. Hewitt GM (2004). Genetic consequences of climatic oscillations in the Quaternary. Philos. Trans. R. Soc. Lond. B 359: 183-195.
8. Hudson RR (1983). Testing the constant rate neutral allele model with protein sequence data. Evolution 37: 203-217.
9. Hudson RR (1990). Gene genealogies and the coalescent process. In: Oxford surveys in evolutionary biology (Futuyma D and Antonovics J, eds.). Vol. 7. Oxford University Press, Oxford, England, 1-44.
10. Hugall A, Moritz C, Moussalli A and Stanisic J (2002). Reconciling paleodistribution models and comparative phylogeography in the wet tropics rainforest land snail Gnarosophia bellendenkerensis (Brazier 1875). Proc. Natl. Acad. Sci. USA 99: 6112-6117.
11. Jouzel J (2003). Past climate (the last 400 ka): from geological times to future climate change. C. R. Geoscience 335: 509-524.
12. Kimura M (1969). The number of heterozygous nucleotide sites maintained in a finite population due to steady flux of mutations. Genetics 61: 893-903.
13. Kingman JFC (1982a). The coalescent. Stochastic Processes Applications 13: 235-248.
14. Kingman JFC (1982b). On the genealogy of large populations. J. Appl. Probab. 19A: 27-43.
15. Lessa EP, Cook JA and Patton JL (2003). Genetic footprints of demographic expansion in North America, but not Amazonia, during the Late Quaternary. Proc. Natl. Acad. Sci. USA 100: 10331-10334.
16. Nei M and Takahata N (1993). Effective population size, genetic diversity, and coalescence time in subdivided populations. J. Mol. Evol. 37: 240-244.
17. Nei M, Maruyama T and Chakraborty R (1975). The bottleneck effect and genetic variability in populations. Evolution 29: 1-10.
18. Paulo OS, Dias C, Bruford MW, Jordan WC, et al. (2001). The persistence of Pliocene populations through the Pleistocene climatic cycles: evidence from the phylogeography of an Iberian lizard. Proc. R. Soc. Lond. B Biol. Sci. 268: 1625-1630.
19. Petit JR, Jouzel J, Raynaud D, Barkov NI, et al. (1999). Climate and atmospheric history of the past 420,000 years from the Vostok ice core, Antarctica. Nature 399: 429-436.
20. Petit RJ, Aguinagalde I, de Beaulieu JL, Bittkau C, et al. (2003). Glacial refugia: hotspots but not melting pots of genetic diversity. Science 300: 1563-1565.
21. Ray N, Currat M, Excoffier L (2003). Intra-deme molecular diversity in spatially expanding populations. Mol. Biol. Evol. 20: 76-86.
22. Slatkin M and Hudson RR (1991). Pairwise comparisons of mitochondrial DNA sequences in stable and exponentially growing populations. Genetics 129: 555-562.
23. Smith CI and Farrell BD (2005). Range expansions in the flightless longhorn cactus beetles, Moneilema gigas and Moneilema armatum, in response to Pleistocene climate changes. Mol. Ecol. 14: 1025-1044.
24. Tajima F (1983). Evolutionary relationship of DNA sequences in finite populations. Genetics 105: 437-460.
25. Webb T and Bartlein PJ (1992). Global changes during the last 3 million years - Climatic controls and biotic responses. Annu. Rev. Ecol. Syst. 23: 141-173.
26. Wright S (1931). Evolution in Mendelian populations. Genetics 16: 97-159.
27. Wright S (1938). Size of population and breeding structure in relation to evolution. Science 87: 430-431.
28. Wright S (1951). The genetical structure of populations. Ann. Eugen. 15: 323-354.