Genetic Structure of Wild Bonobo Populations: Diversity of Mitochondrial DNA and Geographical Distribution

PLoS ONE

Volumn 8, Issue 3, 2013, Pages

  Kawamoto, Yoshi ^a   Takemoto, Hiroyuki ^a   Higuchi, Shoko ^a   Sakamaki, Tetsuya ^a   Hart, John A ^b   Hart, Terese B ^b   Tokuyama, Nahoko ^a   Reinartz, Gay E ^c   Guislain, Patrick ^c   Dupain, Jef ^d   Cobden, Amy K ^d,g   Mulavwa, Mbangi N ^e   Yangozene, Kumugo ^e   Darroze, Serge ^f   Devos, Céline ^f   Furuichi, Takeshi ^a  

^a KYOTO UNIVERSITY   (Japan)

^b Lukuru Wildlife Research Foundation   (Democratic Republic Congo)

^c Zoological Society of Milwaukee   (United States)

^d AFRICAN WILDLIFE FOUNDATION   (Kenya)

^e Ministry of High Education and Scientific Research   (Democratic Republic Congo)

^f World Wide Fund for Nature ^*  (Democratic Republic Congo)

^g EMORY UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

MITOCHONDRIAL DNA;

ARTICLE; CLADISTICS; CONTROLLED STUDY; DNA SEQUENCE; ENVIRONMENTAL CHANGE; GENE CLUSTER; GENE FLOW; GENETIC DISTANCE; GENETIC VARIABILITY; GEOGRAPHIC DISTRIBUTION; GEOGRAPHICAL VARIATION (SPECIES); HAPLOTYPE; NONHUMAN; NUCLEOTIDE SEQUENCE; PAN PANISCUS; PLEISTOCENE; POPULATION DISTRIBUTION; POPULATION GENETIC STRUCTURE;

ANIMALS; ANIMALS, WILD; CONGO; CONSERVATION OF NATURAL RESOURCES; DNA, MITOCHONDRIAL; GENETIC VARIATION; GENETICS, POPULATION; GEOGRAPHY; HAPLOTYPES; LINEAR MODELS; MODELS, GENETIC; PAN PANISCUS; PHYLOGENY; RIVERS;

PAN PANISCUS;

EID: 84875419317     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0059660     Document Type: Article

References (42)

1. Zsurka G, Kudina T, Peeva V, Hallmann K, Elger CE, et al. (2010) Distinct patterns of mitochondrial genome diversity in bonobos (Pan paniscus) and humans. BMC Evol Biol 10: 270.
2. Fischer A, Prüfer K, Good JM, Halbwax M, Wiebe V, et al. (2011) Bonobos fall within the genomic variation of chimpanzees. PLoS ONE 6: e21605.
3. Hey J, (2010) The divergence of chimpanzee species and subspecies as revealed in multipopulation isolation-with-migration analyses. Mol Biol Evol 27: 921-933.
4. Caswell JL, Mallick S, Richter DJ, Neubauer J, Schirmer C, et al. (2008) Analysis of chimpanzee history based on genome sequence alignments. PLoS Genet 4: e1000057.
5. Won YJ, Hey J, (2005) Divergence population genetics of chimpanzees. Mol Biol Evol 22: 297-307.
6. Laporte ND, Stabach JA, Grosch R, Lin TS, Goetz SJ, (2007) Expansion of industrial logging in central Africa. Science 316: 1451.
7. Eriksson J, Hohmann G, Boesch C, Vigilant L, (2004) Rivers influence the population genetic structure of bonobos (Pan paniscus). Mol Ecol 13: 3425-3435.
8. Tosi AJ, (2008) Forest monkeys and Pleistocene refugia: a phylogeographic window onto the disjunct distribution of the Chlorocebus lhoesti species group. Zool J Linn Soc 154: 408-418.
9. Anthony NM, Johnson-Bawe M, Jeffery K, Clifford SL, Abernethy KA, et al. (2007) The role of Pleistocene refugia and rivers in shaping gorilla genetic diversity in central Africa. Proc Natl Acad Sci USA 104: 20432-20436.
10. Hashimoto C, Furuichi T, Takenaka O, (1996) Matrilineal kin relationship and social behavior of wild bonobos (Pan paniscus): sequencing the D-loop region of mitochondrial DNA. Primates 37: 305-318.
11. Gerloff U, Hartung B, Fruth B, Hohmann G, Tautz D, (1999) Intracommunity relationships, dispersal pattern and paternity success in a wild living community of Bonobos (Pan paniscus) determined from DNA analysis of fecal samples. Proc R Soc Lond [Biol] 266: 1189-1195.
12. Deinard AS, Kidd K, (2000) Identifying conservation units within captive chimpanzee populations. Am J Phys Anthropol 111: 25-44.
13. Eckert CG, Samis KE, Lougheed SC, (2008) Genetic variation across species' geographical ranges: the central-marginal hypothesis and beyond. Mol Ecol 17: 1170-1188.
14. Furuichi T, Idani G, Ihobe H, Hashimoto C, Tashiro Y, et al. (2012) Long-term studies on wild bonobos at Wamba, Luo Scientific Reserve, D.R. Congo: towards the understanding of female life history in a male-philopatric species. In: Kappler M, Watts DP, eds. Long-term field studies of primates. Berlin, Heidelberg: Springer-Verlag. 413-433.
15. Idani G, Mwanza N, Ihobe H, Hashimoto C, Tashiro Y, et al. (2008) Changes in the status of bonobos, their habitat, and the situation of humans at Wamba in the Luo Scientific Reserve, Democratic Republic Congo. In: Furuichi T, Thompson J, eds. The bonobos-behavior, ecology, and conservation. New York: Springer. 291-301.
16. Luikart G, Cornuet J-M, (1998) Empirical evaluation of a test for identifying recently bottlenecked populations from allele frequency data. Conserv Biol 12: 228-237.
17. Colyn M, Gautier Hion A, Verheyen W, (1991) A re-appraisal of paleoenvironmental history in central Africa: evidence for a major fluvial refuge in the Zaïre Basin. J Biogeogr 18: 403-407.
18. Anhuf D, Ledru M-P, Behling H, Da Cruz Jr FW, Cordeiro RC, et al. (2006) Paleo-environmental change in Amazonian and African rainforest during the LGM. Palaeogeogr Palaeoclimatol Palaeoecol 239: 510-527.
19. Kingdon JS, (1980) The role of visual signals and face patterns in African forest monkeys (guenons) of the genus Cercopithecus. Trans Zool Soc Lond 35: 425-475.
20. Maley J (2001) The impact of arid phases on the African rain forest through geological history. In: Weber W, White LJT, Vedder A, Naughton-Treves L, eds. African rain forest ecology and conservation. New Haven and London: Yale University Press. 68-87.
21. Rommerskirchen F, Eglinton G, Dupont L, Rullkötter J, (2006) Glacial/interglacial changes in southern Africa: compound specific D13C land plant biomarker and pollen records from southeast Atlantic continental margin sediments. Geochem Geophys Geosyst 7: Q08010.
22. Haffer J, (1997) Alternative models of vertebrate speciation in Amazonia: an overview. Biodiv Conserv 6: 451-476.
23. Grubb P (2001) Endemism in African rain forest mammals. In: Weber W, White LJT, Vedder A, Naughton-Treves L, eds. African rain forest ecology and conservation. New Haven and London: Yale University Press. 88-100.
24. Eriksson J, Siedel H, Lukas D, Kayser M, Erler A, et al. (2006) Y-chromosome analysis confirms highly sex-biased dispersal and suggests a low male effective population size in bonobos (Pan paniscus). Mol Ecol 15: 939-949.
25. Moritz C, (2002) Strategies to protect biological diversity and the evolutionary processes that sustain it. Syst Biol 51: 238-254.
26. Searching for bonobos in Congo. Available: http://www.bonoboincongo.com. Accessed Sep 2012.
27. Kano T (1992) The last ape: pygmy chimpanzee behavior and ecology. Stanford, CA: Stanford University Press. 248p.
28. Reinartz GE, Inogwabini BI, Ngamankosi M, Wema Wema L, (2006) Effects of forest type and human presence on bonobo (Pan paniscus) density in the Salonga National Park. Int J Primatol 27: 603-634.
29. Dupain J, Van Krunkelsven E, Van Elsacker L, Verheyen RF, (2000) Current status of the bonobo (Pan paniscus) in the proposed Lomako Reserve (Democratic Republic of Congo). Biol Conserv 94: 265-272.
30. Inogwabini BL, Matungila B, Mbende L, Abokome M, Tshimanga T, (2007) Great apes in the Lake Tumba landscape, Democratic Republic of Congo: newly described populations. Oryx 41: 532-538.
31. White PS, Densmore LD III (1992) Mitochondrial DNA isolation. In: Hoelzel AR, ed. Molecular genetic analysis of populations: a practical approach. Oxford: IRL Press, Oxford University Press. 29-58.
32. Zhang BW, Ming L, Ma LC, Wei FW, (2006) A widely applicable protocol for DNA isolation from fecal samples. Biochem Genet 44: 503-512.
33. Morin PA, Chambers KE, Boesch C, Vigilant L, (2001) Quantitative polymerase chain reaction analysis of DNA from noninvasive samples for accurate microsatellite genotyping of wild chimpanzees (Pan troglodytes). Mol Ecol 10: 1835-1844.
34. Castresana J, (2000) Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. Mol Biol Evol 17: 540-552.
35. Larkin MA, Blackshields G, Brown NP, Chenna R, McGettigan PA, et al. (2007) ClustalW and ClustalX version 2.0. Bioinformatics 23: 2947-2948.
36. Tamura K, Nei M, (1993) Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Mol Biol Evol 10: 512-526.
37. Tamura K, Peterson D, Peterson N, Stecher G, Nei M, et al. (2011) MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28: 2731-2739.
38. Nei M (1987) Molecular evolutionary genetics. New York: Columbia University Press. 448p.
39. Schneider S, Roessli D, Excoffier L (2000) Arlequin ver. 2.000: a software for population genetics data analysis. Genetics and Biometry Laboratory, University of Geneva, Switzerland.
40. Weir BS, Cockerham CC, (1984) Estimating F-statistics for the analysis of population structure. Evolution 38: 1358-1370.
41. Nicolas V, Missoup AD, Denys C, Kerbis Peterhans J, Katuala P, et al. (2011) The roles of rivers and Pleistocene refugia in shaping genetic diversity in Praomys misonnei in tropical Africa. J Biogeogr 38: 191-207.
42. Stankiewicz J, de Wit MJ, (2006) A proposed drainage evolution model for Central Africa-did the Congo flow east? J Afr Earth Sci 44: 75-84.