Article
Genome-wide signatures of complex introgression and adaptive evolution in the big cats
Registro en:
FIGUEIRÓ, Henrique Vieira et al. Genome-wide signatures of complex introgression and adaptive evolution in the big cats. Sci Adv., v. 3, n. 7, e1700299, 2017.
2375-2548
10.1126/sciadv.1700299
Autor
Figueiró, Henrique Vieira
Li, Gang
Trindade, Fernanda J.
Geraldo, Juliana Assis
Pais, Fabiano Sviatopolk Mirsky
Fernandes, Gabriel da Rocha
Santos, Sarah H. D.
Hughes, Graham M.
Komissarov, Aleksey
Antunes, Agostinho
Trinca, Cristine S.
Rodrigues, Maíra R.
Linderoth, Tyler
Bi, Ke
Silveira, Leandro
Azevedo, Fernando C. C.
Kantek, Daniel
Ramalho, Emiliano
Brassaloti, Ricardo A.
Villela, Priscilla M. S.
Nunes, Adauto L. V.
Teixeira, Rodrigo H. F.
Morato, Ronaldo G.
Loska, Damian
Saragüeta, Patricia
Gabaldón, Toni
Teeling, Emma C.
O’Brien, Stephen J.
Nielsen, Rasmus
Coutinho, Luiz L.
Oliveira, Guilherme Corrêa de
Murphy, William J.
Eizirik, Eduardo
Resumen
The great cats of the genus Panthera comprise a recent radiation whose evolutionary history is poorly understood.
Their rapid diversification poses challenges to resolving their phylogeny while offering opportunities to investigate the
historical dynamics of adaptive divergence. We report the sequence, de novo assembly, and annotation of the jaguar
(Panthera onca) genome, a novel genome sequence for the leopard (Panthera pardus), and comparative analyses
encompassing all living Panthera species. Demographic reconstructions indicated that all of these species have
experienced variable episodes of population decline during the Pleistocene, ultimately leading to small effective
sizes in present-day genomes. We observed pervasive genealogical discordance across Panthera genomes, caused
by both incomplete lineage sorting and complex patterns of historical interspecific hybridization. We identified
multiple signatures of species-specific positive selection, affecting genes involved in craniofacial and limb development,
protein metabolism, hypoxia, reproduction, pigmentation, and sensory perception. There was remarkable
concordance in pathways enriched in genomic segments implicated in interspecies introgression and in positive selection,
suggesting that these processes were connected. We tested this hypothesis by developing exome capture
probes targeting ~19,000 Panthera genes and applying them to 30 wild-caught jaguars. We found at least two
genes (DOCK3 and COL4A5, both related to optic nerve development) bearing significant signatures of interspecies
introgression and within-species positive selection. These findings indicate that post-speciation admixture has
contributed genetic material that facilitated the adaptive evolution of big cat lineages. 2022-01-01