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

Yoshi Kawamoto,Jef Dupain,Mbangi N Mulavwa,John A Hart,Takeshi Furuichi,Tetsuya Sakamaki,Terese B Hart,Shoko Higuchi,Céline Devos,Kumugo Yangozene,Amy K Cobden,Nahoko Tokuyama,Patrick Guislain,Hiroyuki Takemoto,Gay E Reinartz,Serge Darroze,David Caramelli

doi:10.1371/journal.pone.0059660

Yoshi Kawamoto, Jef Dupain + Show 15 more

Open Access

https://doi.org/10.1371/journal.pone.0059660

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Journal: PLoS ONE	Publication Date: Mar 27, 2013
Citations: 53	License type: CC BY 4.0

Affiliation: Lukuru Foundation, Kyoto University, Emory University

Abstract

Bonobos (Pan paniscus) inhabit regions south of the Congo River including all areas between its southerly tributaries. To investigate the genetic diversity and evolutionary relationship among bonobo populations, we sequenced mitochondrial DNA from 376 fecal samples collected in seven study populations located within the eastern and western limits of the species’ range. In 136 effective samples from different individuals (range: 7–37 per population), we distinguished 54 haplotypes in six clades (A1, A2, B1, B2, C, D), which included a newly identified clade (D). MtDNA haplotypes were regionally clustered; 83 percent of haplotypes were locality-specific. The distribution of haplotypes across populations and the genetic diversity within populations thus showed highly geographical patterns. Using population distance measures, seven populations were categorized in three clusters: the east, central, and west cohorts. Although further elucidation of historical changes in the geological setting is required, the geographical patterns of genetic diversity seem to be shaped by paleoenvironmental changes during the Pleistocene. The present day riverine barriers appeared to have a weak effect on gene flow among populations, except for the Lomami River, which separates the TL2 population from the others. The central cohort preserves a high genetic diversity, and two unique clades of haplotypes were found in the Wamba/Iyondji populations in the central cohort and in the TL2 population in the eastern cohort respectively. This knowledge may contribute to the planning of bonobo conservation.

Highlights

Bonobos (Pan paniscus) live on the left bank of the Congo Basin and are separated from other Pan populations by the Congo River
In order to define the geographical distribution of haplotypes, we collected samples at seven sites that covered a broader range than was the case in previous studies of bonobos (Figure 1), and performed genetic assessments to characterize the molecular phylogenetic features among mitochondrial DNA (mtDNA) haplotypes and genetic differentiation within and among study populations
We investigated the evolutionary history of the genetic structure of bonobo populations by examining genetic differentiation by distance and rivers as a barrier to gene flow

Summary

Introduction

Bonobos (Pan paniscus) live on the left bank of the Congo Basin and are separated from other Pan populations by the Congo River. In order to define the geographical distribution of haplotypes, we collected samples at seven sites that covered a broader range than was the case in previous studies of bonobos (Figure 1), and performed genetic assessments to characterize the molecular phylogenetic features among mtDNA haplotypes and genetic differentiation within and among study populations. Genetic Diversity within Populations The diversity of mtDNA in terms of haplotype diversity, mean number of pairwise differences, and nucleotide diversity varied among populations (Table 1).

Results

Conclusion