Multilocus genotypes from Charles Darwins finches: Biodiversity lost since the voyage of the Beagle

Philosophical Transactions of the Royal Society B: Biological Sciences

Volumn 365, Issue 1543, 2010, Pages 1009-1018

  Petren, Kenneth ^a   Grant, Peter R ^b   Rosemary Grant, B ^b   Clack, Andrew A ^a,c   Lescano, Ninnia V ^a  

^a UNIVERSITY OF CINCINNATI   (United States)

^b PRINCETON UNIVERSITY   (United States)

^c MCMASTER UNIVERSITY   (Canada)

Author keywords

Ancient dna; Historical; Microsatellite; NHC; Population structure; SSR

Indexed keywords

DNA; GENETIC ANALYSIS; GENETIC MARKER; GENOTYPE; MUSEUM; POPULATION STRUCTURE; SONGBIRD; SPECIES DIVERSITY; SPECIMEN BANK;

ECUADOR; FLOREANA; GALAPAGOS ISLANDS; SAN CRISTOBAL [GALAPAGOS ISLANDS];

AVES; FRINGILLIDAE; GEOSPIZA DIFFICILIS; GEOSPIZA MAGNIROSTRIS;

EID: 77950851159     PISSN: 09628436     EISSN: 14712970     Source Type: Journal    
DOI: 10.1098/rstb.2009.0316     Document Type: Article

References (51)

1. Allendorf, F. W. & Luikart, G. 2007 Conservation and the genetics of populations. Maiden, MA: Blackwell.
2. Arandjelovic, M., Guschanski, K., Schubert, G., Harris, T. R., Thalmann, O., Siedel, H. & Vigilant, L. 2009 Two-step multiplex PCR improves the speed and accuracy of genotyping using DNA from noninvasive and museum samples. Mol. Ecol. Resour. 9, 28-36. (doi:10. 1111/j.1755-0998.2008.02387.x)
3. Bonin, A., Bellemain, E., Bronken, E. P., Pompanon, F., Brochmann, C. & Taberlet, P. 2004 How to track and assess genotyping errors in population genetics studies. Mol. Ecol. 13, 3261-3273. (doi:10.1111/j.1365-294X. 2004.02346.x) (Pubitemid 39415663)
4. Darwin, C. R. 1859 On the origin of species by means of natural selection. London, UK: John Murray.
5. Dvorak, M., Vargas, H., Fessl, B. & Tebbich, S. 2004 On the verge of extinction: a survey of the mangrove finch Cactospiza heliobates and its habitat on the Galápagos Islands. Oryx 38, 171-179. (doi:10.1017/ S0030605304000316) (Pubitemid 43142311)
6. Ellegren, H. 2004 Microsatellites: simple sequences with complex evolution. Nat. Rev. Genet 5, 435-445. (doi:10.1038/nrg1348) (Pubitemid 38915410)
7. Fessl, B., Kleindorfer, S. & Tebbich, S. 2006 An experimental study on the effects of an introduced parasite in Darwins finches. Biol. Conserv. 127, 55-61. (doi:10. 1016/jbiocon.2005.07.013) (Pubitemid 41560940)
8. Gilbert, M. T. P., Bandelt, H.-J., Hofreiter, M. & Barnes, I. 2005 Assessing ancient DNA studies. Trends Ecol. Evol. 20, 541-544. (doi:10.1016/j.tree.2005.07.005)
9. Grant, P. R. 1999 Ecology and evolution in Darwins finches. Princeton, NJ: Princeton University Press.
10. Grant, K. T. & Estes, G. B. 2009 Darwin in Galápagos: footsteps to a New World Princeton, NJ: Princeton University Press.
11. Grant, P. R. & Grant, B. R. 1997a The rarest of Darwins finches. Conserv. Biol. 11, 119-126. (doi:10.1046/j. 1523-1739.1997.95399.x)
12. Grant, P. R. & Grant, B. R. 1997b Mating patterns of Darwins finch hybrids determined by song and morphology. Biol. J. Linn. Soc. 60, 317-343. (doi:10.1111/j. 1095-8312.1997.tb01499.x)
13. Grant, P. R. & Grant, B. R. 2002 Unpredictable evolution in a 30-year study of Darwins finches. Science 296, 707-711. (doi:10.1126/science.1070315)
14. Grant, P. R. & Grant, B. R. 2006 Evolution of character displacement in Darwins finches. Science 313, 224-226. (doi:10.1126/science.1128374)
15. Grant, P. R. & Grant, B. R. 2009 The secondary contact phase of allopatric speciation in Darwins finches. Proc. Natl. Acad. Sci. USA 106, 20141-20148 (advanced online) (doi:10.1073/pnas.0911761106)
16. Grant, P. R., Grant, B. R. & Petren, K. 2000 The allopatric phase of speciation: The sharp-beaked ground finch (Geospiza difficilis) on the Galápagos Islands. Biol. J. Linn. Soc. 69, 287-317. (doi:10.1111/j.1095- 8312.2000.tb01207.x) (Pubitemid 30656632)
17. Grant, P. R., Grant, B. R., Keller, L. F., Marken, J. A. & Petren, K. 2003 Inbreeding and interbreeding in Darwins finches. Evolution 57, 2911-2916.
18. Grant, P. R., Grant, B. R., Markert, J. A., Keller, L. F. & Petren, K. 2004 Convergent evolution of Darwins finches caused by introgressive hybridization and selection. Evolution 58, 1588-1599. (Pubitemid 39027212)
19. Grant, P. R., Grant, B. R., Petren, K. & Keller, L. F. 2005a Extinction behind our backs: The possible fate of one of the Darwins finch species on Isla Floreana, Galápagos. Biol. Conserv. 122, 499-503. (doi:10.1016/j.biocon. 2004.09.001) (Pubitemid 39568657)
20. Grant, P. R., Grant, B. R. & Petren, K. 2005b Hybridization in the recent past. Am. Nat. 166,56-67. (doi:10.1086/430331)
21. Groombridge, J. J., Jones, C. G., Bruford, M. W. & Nichols, R. A. 2000 Ghost alleles of the Mauritius kestrel. Nature 403, 616. (doi:10.1038/35001148)
22. Hedrick, P. & Waits, L. 2005 What ancient DNA tells us. Heredity 94, 463-464. (doi:10.1038/sj.hdy.6800647)
23. Herrmann, B. & Hummel, S. 1994 Ancient DNA: recovery and analysis of genetic material from paleontological, archaeological, museum, medical and forensic specimens. New York, NY: Springer.
24. IUCN 2009 Red list of threatened species. See http://www. iucnredlist.org.
25. Lack, D. 1947 Darwins finches. Cambridge, UK: Cambridge University Press.
26. Lundh, J. P. 2001 Galapagos: a brief history. ISBN 82-92294-00-7. See http://www.lundh.no/jacob/Galapagos.
27. Mundy, N. I. & Woodruff, D. S. 1997 Skin from feet of museum specimens as a non-destructive source of DNA for avian genotyping. Auk 114, 126-129.
28. Nei, M. 1972 Genetic distance between populations. Am. Nat. 106, 283-292. (doi:10.1086/282771)
29. Paetkau, D., Slade, R., Burdens, M. & Estoup, A. 2004 Genetic assignment methods for the direct, real-time estimation of migration rate: a simulation based exploration of accuracy and power. Mol. Ecol. 13, 55-65. (doi:10.1046/j.1365-294X.2004.02008.x) (Pubitemid 38106473)
30. Peakall, R. & Smouse, P. E. 2006 Population genetic software for teaching and research (GENALEX 6.0). Mol. Ecol Notes 6, 288-295. (doi:10.1111/j.1471-8286.2005.01155.x)
31. Petren, K. 1998 Microsatellite primers from Geospiza fortis and cross-species amplification in Darwins finches. Mol. Ecol. 7, 1782-1784. (Pubitemid 28560329)
32. Petren, K., Grant, B. R. & Grant, P. R. 1999a A phylogeny of Darwins finches based on microsatellite DNA length variation. Proc. R Soc. Lond. B 266, 321-329. (doi: 10. 1098/rspb.1999.0641) (Pubitemid 29092568)
33. Petren, K., Grant, B. R. & Grant, P. R. 1999b Low extrapair paternity in the cactus finch (Geospiza scandens). Auk 116, 252-256.
34. Petren, K., Grant, P. R., Grant, B. R. & Keller, L. F. 2005 Comparative landscape genetics and the adaptive radiation of Darwins finches: The role of peripheral isolation. Mol. Ecol. 14, 2943-2957. (doi:10.1111/j. 1365-294X.2005.02632.x)
35. Petren, K., Farrington, H., Fessl, B., Vargas, H. & Clack, A. A. In preparation. A genetic signature of impending extinction in Darwins rarest finch.
36. Piry, S., Alapetite, A., Cornuet, J., Paetkau, D., Baudouin, L. & Estoup, A. 2004 GENECLASS2: a software for genetic assignment and first generation migrant detection. J. Hered. 95, 536-539. (doi:10.1093/jhered/ esh074) (Pubitemid 39383165)
37. Pritchard, J. K., Stephens, M. & Donnelly, P. 2000 Inference of population structure using multilocus genotype data. Genetics 155, 945-959. (Pubitemid 30397141)
38. Schluter, D. & Grant, P. R. 1982 The distribution of G. dijficilis in relation to G. fuliginosa in the Galápagos Islands: tests of three hypotheses. Evolution 36, 1213-1226. (doi: 10.2307/2408154) (Pubitemid 14273552)
39. Schluter, D., Ratcliffe, L. M. & Grant, P. R. 1991 The taxonomic status of the small Genovesa ground-finch in the Galápagos. Auk 108, 201-204.
40. Steadman, D. 1986 Holocene vertebrate fossils from Isla Floreana, Galápagos. Smithsonian Contrib. Zool. 413, 1-104.
41. Sulloway, F. J. 1982 The Beagle collections of Darwins finches [Geospizinae]. Bull. Br. Mus. [Nat. Hist.] Zool. Ser. 43, 49.
42. Sulloway, F. J. 1983a Darwin and his finches: The evolution of a legend. J. Hist. Biol. 15, 1-53. (doi:10.1007/ BF00132004)
43. Sulloway, F. J. 19836 The legend of Darwins finches. Nature 303, 372. (doi:10.1038/303372a0)
44. Swarth, H. S. 1931 The avifauna of the Galápagos Islands. Occ. Pap. Cal. Acad. Sci. 18, 1-299.
45. Taberlet, P., Griffin, S., Goossens, B., Questiau, S., Manceau, V., Escaravage, N., Waits, L. P. & Bouvet, J. 1996 Reliable genotyping of samples with very low DNA quantities using PCR. Nucleic Adds Res. 24, 3189-3194. (doi:10.1093/nar/24.16.3189) (Pubitemid 26278559)
46. Thiel, T., Whiteman, N. K., Tirape, A., Maquero, M. I., Cedeno, V., Walsh, T., Jimenez, G. & Parker, P. G. 2005 Characterization of Canarypox-like viruses infecting endemic birds in the Galápagos Islands. J. Wildl. Dis. 41, 342-353. (Pubitemid 41257976)
47. Tonnis, B., Grant, P. R., Grant, B. R. & Petren, K. 2005 Habitat selection and ecological speciation in Galápagos warbler finches (Certhidea olivacea and Certhidea fusca). Proc. R. Soc. B 272, 819-826. (doi:10.1098/rspb.2004. 3030) (Pubitemid 41411116)
48. Wandeler, P., Hoeck, P. A. E. & Keller, L. F. 2007 Back to the future: museum specimens in population genetics. Trends Ecol. Evol. 22, 634-642. (doi:10.1016/j.tree. 2007.08.017)
49. Watkins, G. & Cruz, F. 2007 Galápagos at risk: a socioeconomic analysis of the situation in the archipelago. Puerto Ayora, Ecuador: Charles Darwin Foundation.
50. Westemeier, R. L., Brawn, J. D., Simpson, S. A., Esker, T. L., Jansen, R. W., Walk, J. W., Kershner, E. L., Bouzat, J. L. & Paige, K. N. 1998 Tracking the longterm decline and recovery of an isolated population. Science 282, 1695-1698. (doi:10.1126/science.282. 5394.1695)
51. Wikelski, M., Foufopoulos, J., Vargas, H. & Snell, H. 2004 Galápagos birds and diseases: invasive pathogens as threats for island species. Ecol. Soc. 9, 5. (http://www. ecologyandsociety.org/vol9/iss1/art5)