Low nucleotide diversity in chimpanzees and bonobos

Genetics

Volumn 164, Issue 4, 2003, Pages 1511-1518

  Yu, Ning ^a   Jensen Seaman, Michael I ^a,e   Chemnick, Leona ^b   Kidd, Judith R ^c   Deinard, Amos S ^d   Ryder, Oliver ^b   Kidd, Kenneth K ^c   Li, Wen Hsiung ^a  

^a UNIVERSITY OF CHICAGO   (United States)

^b ZOOLOGICAL SOCIETY OF SAN DIEGO   (United States)

^c YALE UNIVERSITY SCHOOL OF MEDICINE   (United States)

^d UNIVERSITY OF CALIFORNIA   (United States)

^e MEDICAL COLLEGE OF WISCONSIN   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CELL NUCLEUS DNA; MITOCHONDRIAL DNA;

ARTICLE; BONOBO; CHIMPANZEE; CONTROLLED STUDY; DNA POLYMORPHISM; GENETIC ANALYSIS; GENETIC VARIABILITY; GENOME; NONHUMAN; NUCLEOTIDE SEQUENCE; POPULATION SIZE; PRIORITY JOURNAL; SPECIES DIFFERENTIATION;

ANIMALS; BASE SEQUENCE; CELL NUCLEUS; DNA; DNA, MITOCHONDRIAL; EVOLUTION, MOLECULAR; GEOGRAPHY; HUMANS; MOLECULAR SEQUENCE DATA; PAN PANISCUS; PAN TROGLODYTES; POLYMORPHISM, SINGLE NUCLEOTIDE; SEQUENCE ANALYSIS, DNA; SPECIES SPECIFICITY; VARIATION (GENETICS);

PAN (APE); PAN PANISCUS; PAN TROGLODYTES; TRIXIS;

EID: 0041317002     PISSN: 00166731     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (42)

1. BEADLE, L. C., 1981 The Inland Waters of Tropical Africa. Longman, London.
2. BIRKY, C. W., JR., P. FUERST and T. MARUYAMA, 1989 Organelle gene diversity under migration, mutation, and drift: equilibrium expectations, approach to equilibrium, effects of heteroplasmic cells, and comparison to nuclear genes. Genetics 121: 613-627.
3. BRUNET, M., F. GUY, D. PILBEAM, H. T. MACKAYE, A. LIKIUS et al., 2002 A new hominid from the Upper Miocene of Chad, Central Africa. Nature 418: 145-151.
4. CHEN, F. C., and W.-H. LI, 2001 Genomic divergences between humans and other hominoids and the effective population size of the common ancestor of humans and chimpanzees. Am. J. Hum. Genet. 68: 444-456.
5. CHEN, F. C., E. J. VALLENDER, H. WANG, C. S. TZENG and W.-H. LI, 2001 Genomic divergence between human and chimpanzee estimated from large-scale alignments of genomic sequences. J. Hered. 92: 481-489.
6. GROUAU-ROY, B., S. SERVICE, M. SLATKIN and N. FREIMER, 1996 A fine-scale comparison of the human and chimpanzee genomes: linkage, linkage disequilibrium and sequence analysis. Hum. Mol. Genet. 5: 1131-1137.
7. DEINARD, A. S., and K. K. KIDD. 1998 Evolution of a D2 dopamine receptor intron within the great apes and humans. DNA Seq. 8: 289-301.
8. DEINARD, A. S., and K. K. KIDD, 1999 Evolution of a HOXB6 intergenic region within the great apes and humans. J. Hum. Evol. 36: 687-703.
9. DEINARD, A. S., and K. K. KIDD. 2000 Identifying conservation units within captive chimpanzee populations. Am. J. Physiol. Anthropol. 111: 25-44.
10. DON, R. H., P. T. COX, B. J. WAINWRIGHT, K. BAKER and J. S. MATTICK, 1991 "Touchdown" PCR to circumvent spurious priming during gene amplification. Nucleic Acids Res. 19: 4008.
11. EBERSBERGER, I., D. METZLER, C. SCHWARZ and S. PAABO, 2002 Genomewide comparison of DNA sequences between humans and chimpanzees. Am. J. Hum. Genet. 70: 1490-1497.
12. ELLEGREN, H., C. R. PRIMMER and B. C. SHELDON, 1995 Microsatellite 'evolution': Directionality or bias? Nat. Genet. 11: 360-362.
13. FAY, J. C., and C.-I Wu, 1999 A human population bottleneck can account for the discordance between patterns of mitochondrial versus nuclear DNA variation. Mol. Biol. Evol. 16: 1003-1005.
14. FERRIS, S. D., W. M. BROWN, W. S. DAVIDSON and A. C. WILSON, 1981 Extensive polymorphism in the mitochondrial DNA of apes. Proc. Natl. Acad. Sci. USA 78: 6319-6323.
15. FUJIYAMA, A., H. WATANABE, A. TOYODA, T. D. TAYLOR, T. ITOH et al., 2002 Construction and analysis of a human-chimpanzee comparative clone map. Science 295: 131-134.
16. GAGNEUX, P., C. WILLS, U. GERLOFF, D. TAUTZ, P. A. MORIN et al., 1999 Mitochondrial sequences show diverse evolutionary histories of African hominoids. Proc. Natl. Acad. Sci. USA 96: 5077-5082.
17. GOLDBERG, T. L., and M. RUVOLO, 1997 The geographic apportionment of mitochondrial genetic diversity in East African chimpanzees, Pan troglodytes schweinfurthii. Mol. Biol. Evol. 14: 976-984.
18. GREENWOOD, P. J., 1980 Mating systems, philopatry and dispersal in birds and mammals. Anim. Behav. 28: 1140-1162.
19. HARPENDING, H. C., M. A. BATZER, M. GURVEN, L. B. JORDE, A. R. ROGERS et al., 1998 Genetic traces of ancient demography. Proc. Natl. Acad. Sci. USA 95: 1961-1967.
20. HORAI, S., Y. SATTA, K. HAYASAKA, R. KONDO, T. INOUE et al., 1992 Man's place in Hominoidea revealed by mitochondrial DNA genealogy. J. Mol. Evol. 35: 32-43.
21. JENSEN-SEAMAN, M. I., A. S. DEINARD and K. K. KIDD, 2001 Modern African ape populations as genetic and demographic models of the last common ancestor of humans, chimpanzees, and gorillas. J. Hered. 92: 475-480.
22. KAESSMANN, H., V. WIEBE and S. PÄÄBO, 1999 Extensive nuclear DNA sequence diversity among chimpanzees. Science 286: 1159-1162.
23. KAESSMANN, H., V. WIEBE, G. WEISS and S. PAABO, 2001 Great ape DNA sequences reveal a reduced diversity and an expansion in humans. Nat. Genet. 27 (2): 155-156.
24. INGMAN, M., H. KAESSMANN, S. PÄÄBO and U. GYLLENSTEN, 2000 Mitochondrial genome variation and the origin of modern humans. Nature 408: 708-713.
25. KING, M. C., and A. C. WILSON, 1975 Evolution at two levels in humans and chimpanzees. Science 188: 107-116.
26. LUCOTTE, G., 1983 Chimpanzees show less variation than man: electrophoretic evidence. J. Hum. Evol. 12: 419-424.
27. MORIN, P. A., J. J. MOORE, R. CHAKRABORTY, L. JIN, J. GOODALL, et al., 1994 Kin selection, social structure, gene flow, and the evolution of chimpanzees. Science 265: 1193-1201.
28. NEI, M., and D. GRAUR, 1984 Extent of protein polymorphism and the neutral mutation theory. Evol. Biol. 17: 73-118.
29. ROZAS, J., and R. ROZAS, 1999 DnaSP version 3: an integrated program for molecular population genetics and molecular evolution analysis. Bioinformatics 15: 174-175.
30. RUVOLO, M., 1997 Molecular phylogeny of the hominoids: inferences from multiple independent DNA sequence data sets. Mol. Biol. Evol. 14: 248-265.
31. SATTA, Y., 2001 Comparison of DNA and protein polymorphisms between humans and chimpanzees. Genes Genet. Syst. 76: 159-168.
32. STONE, A. C., R. C. GRIFFITHS, S. L. ZEGURA and M. F. HAMMER, 2002 High levels of Y-chromosome nucleotide diversity in the genus Pan. Proc. Natl. Acad. Sci. USA 99: 43-48.
33. TAJIMA, F., 1983 Evolution relationship of DNA sequences in finite populations. Genetics 105: 437-460.
34. TAKAHATA, N., 1993 Allelic genealogy and human evolution. Mol. Biol. Evol. 10: 2-22.
35. TAKAHATA, N., Y. SATTA and J. KLEIN, 1995 Divergence time and population size in the lineage leading to modern humans. Theor. Popul. Biol. 48: 198-221,
36. VIGNAUD, P., P. DURINGER, H. T. MACKAYE, A. LIKIUS, C. BLONDEL, et al., 2002 Geology and palaeontology of the upper Miocene Toros-Menalla hominid locality, Chad. Nature 418: 152-155.
37. VRBA, E. S., 1995 On the connection between paleoclimate and evolution, pp. 24-48 in Paleoclimate and Evolution, With Emphasis on Human Origins, edited by E. S. VRBA, G. H. DENTON, T. C. PARTRIDGE and L. H. BURCKLE. Yale University Press, New Haven, CT.
38. WATTERSON, G. A., 1976 On the number of segregation sites. Theor. Popul. Biol. 7: 256-276.
39. WISE, C. A., M. SRAML, D. C. RUBINSZTEIN and S. EASTEAL, 1997 Comparative nuclear and mitochondrial genome diversity in humans and chimpanzees. Mol. Biol. Evol. 14: 707-716.
40. XIA, X., and Z. XIE, 2001 DAMBE: Data analysis in molecular biology and evolution. J. Hered. 92: 371-373.
41. YU, N., F. C. CHES, S. OTA, L. JORDU, P. PAMILO et al., 2002 Larger genetic differences within Africans than between Africans and Eurasians. Genetics 161: 269-274.
42. ZHAO, Z., L. JIN, Y.-X. FU, M. RAMSAY, T. JENKINS et al., 2000 Worldwide DNA sequence variation in a 10 kilobase noncoding region on chromosome 22. Proc. Natl. Acad. Sci. USA 97: 11354-11358.