Extensive Genome-Wide Phylogenetic Discordance Is Due to Incomplete Lineage Sorting and Not Ongoing Introgression in a Rapidly Radiated Bryophyte Genus
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Extensive Genome-Wide Phylogenetic Discordance Is Due to Incomplete Lineage Sorting and Not Ongoing Introgression in a Rapidly Radiated Bryophyte Genus. / Meleshko, Olena; Martin, Michael D.; Korneliussen, Thorfinn Sand; Schröck, Christian; Lamkowski, Paul; Schmutz, Jeremy; Healey, Adam; Piatkowski, Bryan T.; Shaw, A. Jonathan; Weston, David J.; Flatberg, Kjell Ivar; Szövényi, Péter; Hassel, Kristian; Stenøien, Hans K.
In: Molecular Biology and Evolution, Vol. 38, No. 7, 2021, p. 2750-2766.Research output: Contribution to journal › Journal article › Research › peer-review
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TY - JOUR
T1 - Extensive Genome-Wide Phylogenetic Discordance Is Due to Incomplete Lineage Sorting and Not Ongoing Introgression in a Rapidly Radiated Bryophyte Genus
AU - Meleshko, Olena
AU - Martin, Michael D.
AU - Korneliussen, Thorfinn Sand
AU - Schröck, Christian
AU - Lamkowski, Paul
AU - Schmutz, Jeremy
AU - Healey, Adam
AU - Piatkowski, Bryan T.
AU - Shaw, A. Jonathan
AU - Weston, David J.
AU - Flatberg, Kjell Ivar
AU - Szövényi, Péter
AU - Hassel, Kristian
AU - Stenøien, Hans K.
N1 - Publisher Copyright: © 2021 The Author(s).
PY - 2021
Y1 - 2021
N2 - The relative importance of introgression for diversification has long been a highly disputed topic in speciation research and remains an open question despite the great attention it has received over the past decade. Gene flow leaves traces in the genome similar to those created by incomplete lineage sorting (ILS), and identification and quantification of gene flow in the presence of ILS is challenging and requires knowledge about the true phylogenetic relationship among the species. We use whole nuclear, plastid, and organellar genomes from 12 species in the rapidly radiated, ecologically diverse, actively hybridizing genus of peatmoss (Sphagnum) to reconstruct the species phylogeny and quantify introgression using a suite of phylogenomic methods. We found extensive phylogenetic discordance among nuclear and organellar phylogenies, as well as across the nuclear genome and the nodes in the species tree, best explained by extensive ILS following the rapid radiation of the genus rather than by postspeciation introgression. Our analyses support the idea of ancient introgression among the ancestral lineages followed by ILS, whereas recent gene flow among the species is highly restricted despite widespread interspecific hybridization known in the group. Our results contribute to phylogenomic understanding of how speciation proceeds in rapidly radiated, actively hybridizing species groups, and demonstrate that employing a combination of diverse phylogenomic methods can facilitate untangling complex phylogenetic patterns created by ILS and introgression.
AB - The relative importance of introgression for diversification has long been a highly disputed topic in speciation research and remains an open question despite the great attention it has received over the past decade. Gene flow leaves traces in the genome similar to those created by incomplete lineage sorting (ILS), and identification and quantification of gene flow in the presence of ILS is challenging and requires knowledge about the true phylogenetic relationship among the species. We use whole nuclear, plastid, and organellar genomes from 12 species in the rapidly radiated, ecologically diverse, actively hybridizing genus of peatmoss (Sphagnum) to reconstruct the species phylogeny and quantify introgression using a suite of phylogenomic methods. We found extensive phylogenetic discordance among nuclear and organellar phylogenies, as well as across the nuclear genome and the nodes in the species tree, best explained by extensive ILS following the rapid radiation of the genus rather than by postspeciation introgression. Our analyses support the idea of ancient introgression among the ancestral lineages followed by ILS, whereas recent gene flow among the species is highly restricted despite widespread interspecific hybridization known in the group. Our results contribute to phylogenomic understanding of how speciation proceeds in rapidly radiated, actively hybridizing species groups, and demonstrate that employing a combination of diverse phylogenomic methods can facilitate untangling complex phylogenetic patterns created by ILS and introgression.
KW - incomplete lineage sorting
KW - introgression
KW - peatmoss
KW - phylogenomics
KW - rapid diversification
KW - speciation
U2 - 10.1093/molbev/msab063
DO - 10.1093/molbev/msab063
M3 - Journal article
C2 - 33681996
AN - SCOPUS:85109116607
VL - 38
SP - 2750
EP - 2766
JO - Molecular Biology and Evolution
JF - Molecular Biology and Evolution
SN - 0737-4038
IS - 7
ER -
ID: 276325108