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The evolutionary dynamics of the lion Panthera leo revealed by host and viral population genomics.

Antunes A, Troyer JL, Roelke ME, Pecon-Slattery J, Packer C, Winterbach C, Winterbach H, Hemson G, Frank L, Stander P, Siefert L, Driciru M, Funston PJ, Alexander KA, Prager KC, Mills G, Wildt D, Bush M, O'Brien SJ, Johnson WE - PLoS Genet. (2008)

Bottom Line: In spite of the ability of lions to disperse long distances, patterns of lion genetic diversity suggest substantial population subdivision (mtDNA Phi(ST) = 0.92; nDNA F(ST) = 0.18), and reduced gene flow, which, along with large differences in sero-prevalence of six distinct FIV(Ple) subtypes among lion populations, refute the hypothesis that African lions consist of a single panmictic population.Our results suggest that extant lion populations derive from several Pleistocene refugia in East and Southern Africa ( approximately 324,000-169,000 years ago), which expanded during the Late Pleistocene ( approximately 100,000 years ago) into Central and North Africa and into Asia.In particular, lion and FIV(Ple) variation affirms that the large, well-studied lion population occupying the greater Serengeti Ecosystem is derived from three distinct populations that admixed recently.

View Article: PubMed Central - PubMed

Affiliation: Laboratory of Genomic Diversity, National Cancer Institute, Frederick, Maryland, United States of America.

ABSTRACT
The lion Panthera leo is one of the world's most charismatic carnivores and is one of Africa's key predators. Here, we used a large dataset from 357 lions comprehending 1.13 megabases of sequence data and genotypes from 22 microsatellite loci to characterize its recent evolutionary history. Patterns of molecular genetic variation in multiple maternal (mtDNA), paternal (Y-chromosome), and biparental nuclear (nDNA) genetic markers were compared with patterns of sequence and subtype variation of the lion feline immunodeficiency virus (FIV(Ple)), a lentivirus analogous to human immunodeficiency virus (HIV). In spite of the ability of lions to disperse long distances, patterns of lion genetic diversity suggest substantial population subdivision (mtDNA Phi(ST) = 0.92; nDNA F(ST) = 0.18), and reduced gene flow, which, along with large differences in sero-prevalence of six distinct FIV(Ple) subtypes among lion populations, refute the hypothesis that African lions consist of a single panmictic population. Our results suggest that extant lion populations derive from several Pleistocene refugia in East and Southern Africa ( approximately 324,000-169,000 years ago), which expanded during the Late Pleistocene ( approximately 100,000 years ago) into Central and North Africa and into Asia. During the Pleistocene/Holocene transition ( approximately 14,000-7,000 years), another expansion occurred from southern refugia northwards towards East Africa, causing population interbreeding. In particular, lion and FIV(Ple) variation affirms that the large, well-studied lion population occupying the greater Serengeti Ecosystem is derived from three distinct populations that admixed recently.

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Genetic differentiation of host and viral genetic markers with geographic distance.Regression of lion pairwise FST (nDNA and mtDNA) and FIVPle (pol-RT) on geographic distance.
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pgen-1000251-g003: Genetic differentiation of host and viral genetic markers with geographic distance.Regression of lion pairwise FST (nDNA and mtDNA) and FIVPle (pol-RT) on geographic distance.

Mentions: Both nDNA and mtDNA pairwise genetic distances among the 11 lion populations showed a significant relationship with geographic distance (R2 = 0.75; Mantel's test, P = 0.0097; and R2 = 0.15; Mantel's test, P = 0.0369; respectively) (Figure 3). The significant positive and monotonic correlation across all the scatterplot pairwise comparisons for the nDNA markers (bi-parental) was consistent with isolation-by-distance across the sampled region. However, the correlation between nDNA FST and geographic distance considerably decreased when the Asian Gir population was removed (R2 = 0.19; Mantel's test, P = 0.0065) suggesting that caution should be taken in interpreting the pattern of isolation-by-distance in lions. We further compared linearized FST estimates [24] plotted both against the geographic distance (model assuming habitat to be arrayed in an infinite one-dimensional lattice) and the log geographic distance (model assuming an infinite two-dimensional lattice). The broad distribution of lions might suggest a priori that a two-dimensional isolation-by-distance model would provide the best fit for the nDNA data (R2 = 0.25; Mantel's test, P = 0.0022), but instead the one-dimensional isolation-by-distance model performed better (R2 = 0.71; Mantel's test, P = 0.0476) (Figure S2).


The evolutionary dynamics of the lion Panthera leo revealed by host and viral population genomics.

Antunes A, Troyer JL, Roelke ME, Pecon-Slattery J, Packer C, Winterbach C, Winterbach H, Hemson G, Frank L, Stander P, Siefert L, Driciru M, Funston PJ, Alexander KA, Prager KC, Mills G, Wildt D, Bush M, O'Brien SJ, Johnson WE - PLoS Genet. (2008)

Genetic differentiation of host and viral genetic markers with geographic distance.Regression of lion pairwise FST (nDNA and mtDNA) and FIVPle (pol-RT) on geographic distance.
© Copyright Policy
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC2572142&req=5

pgen-1000251-g003: Genetic differentiation of host and viral genetic markers with geographic distance.Regression of lion pairwise FST (nDNA and mtDNA) and FIVPle (pol-RT) on geographic distance.
Mentions: Both nDNA and mtDNA pairwise genetic distances among the 11 lion populations showed a significant relationship with geographic distance (R2 = 0.75; Mantel's test, P = 0.0097; and R2 = 0.15; Mantel's test, P = 0.0369; respectively) (Figure 3). The significant positive and monotonic correlation across all the scatterplot pairwise comparisons for the nDNA markers (bi-parental) was consistent with isolation-by-distance across the sampled region. However, the correlation between nDNA FST and geographic distance considerably decreased when the Asian Gir population was removed (R2 = 0.19; Mantel's test, P = 0.0065) suggesting that caution should be taken in interpreting the pattern of isolation-by-distance in lions. We further compared linearized FST estimates [24] plotted both against the geographic distance (model assuming habitat to be arrayed in an infinite one-dimensional lattice) and the log geographic distance (model assuming an infinite two-dimensional lattice). The broad distribution of lions might suggest a priori that a two-dimensional isolation-by-distance model would provide the best fit for the nDNA data (R2 = 0.25; Mantel's test, P = 0.0022), but instead the one-dimensional isolation-by-distance model performed better (R2 = 0.71; Mantel's test, P = 0.0476) (Figure S2).

Bottom Line: In spite of the ability of lions to disperse long distances, patterns of lion genetic diversity suggest substantial population subdivision (mtDNA Phi(ST) = 0.92; nDNA F(ST) = 0.18), and reduced gene flow, which, along with large differences in sero-prevalence of six distinct FIV(Ple) subtypes among lion populations, refute the hypothesis that African lions consist of a single panmictic population.Our results suggest that extant lion populations derive from several Pleistocene refugia in East and Southern Africa ( approximately 324,000-169,000 years ago), which expanded during the Late Pleistocene ( approximately 100,000 years ago) into Central and North Africa and into Asia.In particular, lion and FIV(Ple) variation affirms that the large, well-studied lion population occupying the greater Serengeti Ecosystem is derived from three distinct populations that admixed recently.

View Article: PubMed Central - PubMed

Affiliation: Laboratory of Genomic Diversity, National Cancer Institute, Frederick, Maryland, United States of America.

ABSTRACT
The lion Panthera leo is one of the world's most charismatic carnivores and is one of Africa's key predators. Here, we used a large dataset from 357 lions comprehending 1.13 megabases of sequence data and genotypes from 22 microsatellite loci to characterize its recent evolutionary history. Patterns of molecular genetic variation in multiple maternal (mtDNA), paternal (Y-chromosome), and biparental nuclear (nDNA) genetic markers were compared with patterns of sequence and subtype variation of the lion feline immunodeficiency virus (FIV(Ple)), a lentivirus analogous to human immunodeficiency virus (HIV). In spite of the ability of lions to disperse long distances, patterns of lion genetic diversity suggest substantial population subdivision (mtDNA Phi(ST) = 0.92; nDNA F(ST) = 0.18), and reduced gene flow, which, along with large differences in sero-prevalence of six distinct FIV(Ple) subtypes among lion populations, refute the hypothesis that African lions consist of a single panmictic population. Our results suggest that extant lion populations derive from several Pleistocene refugia in East and Southern Africa ( approximately 324,000-169,000 years ago), which expanded during the Late Pleistocene ( approximately 100,000 years ago) into Central and North Africa and into Asia. During the Pleistocene/Holocene transition ( approximately 14,000-7,000 years), another expansion occurred from southern refugia northwards towards East Africa, causing population interbreeding. In particular, lion and FIV(Ple) variation affirms that the large, well-studied lion population occupying the greater Serengeti Ecosystem is derived from three distinct populations that admixed recently.

Show MeSH
Related in: MedlinePlus