Ancient dolphin genomes reveal rapid repeated adaptation to coastal waters
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Ancient dolphin genomes reveal rapid repeated adaptation to coastal waters. / Louis, Marie; Korlević, Petra; Nykänen, Milaja; Archer, Frederick; Berrow, Simon; Brownlow, Andrew; Lorenzen, Eline D.; O'Brien, Joanne; Post, Klaas; Racimo, Fernando; Rogan, Emer; Rosel, Patricia E.; Sinding, Mikkel-Holger S.; van der Es, Henry; Wales, Nathan; Fontaine, Michael C.; Gaggiotti, Oscar E.; Foote, Andrew D.
In: Nature Communications, Vol. 14, 4020, 2023.Research output: Contribution to journal › Journal article › Research › peer-review
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TY - JOUR
T1 - Ancient dolphin genomes reveal rapid repeated adaptation to coastal waters
AU - Louis, Marie
AU - Korlević, Petra
AU - Nykänen, Milaja
AU - Archer, Frederick
AU - Berrow, Simon
AU - Brownlow, Andrew
AU - Lorenzen, Eline D.
AU - O'Brien, Joanne
AU - Post, Klaas
AU - Racimo, Fernando
AU - Rogan, Emer
AU - Rosel, Patricia E.
AU - Sinding, Mikkel-Holger S.
AU - van der Es, Henry
AU - Wales, Nathan
AU - Fontaine, Michael C.
AU - Gaggiotti, Oscar E.
AU - Foote, Andrew D.
N1 - Publisher Copyright: © 2023, The Author(s).
PY - 2023
Y1 - 2023
N2 - Parallel evolution provides strong evidence of adaptation by natural selection due to local environmental variation. Yet, the chronology, and mode of the process of parallel evolution remains debated. Here, we harness the temporal resolution of paleogenomics to address these long-standing questions, by comparing genomes originating from the mid-Holocene (8610-5626 years before present, BP) to contemporary pairs of coastal-pelagic ecotypes of bottlenose dolphin. We find that the affinity of ancient samples to coastal populations increases as the age of the samples decreases. We assess the youngest genome (5626 years BP) at sites previously inferred to be under parallel selection to coastal habitats and find it contained coastal-associated genotypes. Thus, coastal-associated variants rose to detectable frequencies close to the emergence of coastal habitat. Admixture graph analyses reveal a reticulate evolutionary history between pelagic and coastal populations, sharing standing genetic variation that facilitated rapid adaptation to newly emerged coastal habitats.
AB - Parallel evolution provides strong evidence of adaptation by natural selection due to local environmental variation. Yet, the chronology, and mode of the process of parallel evolution remains debated. Here, we harness the temporal resolution of paleogenomics to address these long-standing questions, by comparing genomes originating from the mid-Holocene (8610-5626 years before present, BP) to contemporary pairs of coastal-pelagic ecotypes of bottlenose dolphin. We find that the affinity of ancient samples to coastal populations increases as the age of the samples decreases. We assess the youngest genome (5626 years BP) at sites previously inferred to be under parallel selection to coastal habitats and find it contained coastal-associated genotypes. Thus, coastal-associated variants rose to detectable frequencies close to the emergence of coastal habitat. Admixture graph analyses reveal a reticulate evolutionary history between pelagic and coastal populations, sharing standing genetic variation that facilitated rapid adaptation to newly emerged coastal habitats.
U2 - 10.1038/s41467-023-39532-z
DO - 10.1038/s41467-023-39532-z
M3 - Journal article
C2 - 37463880
AN - SCOPUS:85165348520
VL - 14
JO - Nature Communications
JF - Nature Communications
SN - 2041-1723
M1 - 4020
ER -
ID: 361829396