Cargando…
Extensive Genome-Wide Phylogenetic Discordance Is Due to Incomplete Lineage Sorting and Not Ongoing Introgression in a Rapidly Radiated Bryophyte Genus
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 lineag...
Autores principales: | , , , , , , , , , , , , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2021
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8233498/ https://www.ncbi.nlm.nih.gov/pubmed/33681996 http://dx.doi.org/10.1093/molbev/msab063 |
_version_ | 1783713865364668416 |
---|---|
author | 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. |
author_facet | 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. |
author_sort | Meleshko, Olena |
collection | PubMed |
description | 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. |
format | Online Article Text |
id | pubmed-8233498 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-82334982021-06-28 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. Mol Biol Evol Discoveries 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. Oxford University Press 2021-03-03 /pmc/articles/PMC8233498/ /pubmed/33681996 http://dx.doi.org/10.1093/molbev/msab063 Text en © The Author(s) 2021. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) ), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Discoveries 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. Extensive Genome-Wide Phylogenetic Discordance Is Due to Incomplete Lineage Sorting and Not Ongoing Introgression in a Rapidly Radiated Bryophyte Genus |
title | Extensive Genome-Wide Phylogenetic Discordance Is Due to Incomplete Lineage Sorting and Not Ongoing Introgression in a Rapidly Radiated Bryophyte Genus |
title_full | Extensive Genome-Wide Phylogenetic Discordance Is Due to Incomplete Lineage Sorting and Not Ongoing Introgression in a Rapidly Radiated Bryophyte Genus |
title_fullStr | Extensive Genome-Wide Phylogenetic Discordance Is Due to Incomplete Lineage Sorting and Not Ongoing Introgression in a Rapidly Radiated Bryophyte Genus |
title_full_unstemmed | Extensive Genome-Wide Phylogenetic Discordance Is Due to Incomplete Lineage Sorting and Not Ongoing Introgression in a Rapidly Radiated Bryophyte Genus |
title_short | Extensive Genome-Wide Phylogenetic Discordance Is Due to Incomplete Lineage Sorting and Not Ongoing Introgression in a Rapidly Radiated Bryophyte Genus |
title_sort | extensive genome-wide phylogenetic discordance is due to incomplete lineage sorting and not ongoing introgression in a rapidly radiated bryophyte genus |
topic | Discoveries |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8233498/ https://www.ncbi.nlm.nih.gov/pubmed/33681996 http://dx.doi.org/10.1093/molbev/msab063 |
work_keys_str_mv | AT meleshkoolena extensivegenomewidephylogeneticdiscordanceisduetoincompletelineagesortingandnotongoingintrogressioninarapidlyradiatedbryophytegenus AT martinmichaeld extensivegenomewidephylogeneticdiscordanceisduetoincompletelineagesortingandnotongoingintrogressioninarapidlyradiatedbryophytegenus AT korneliussenthorfinnsand extensivegenomewidephylogeneticdiscordanceisduetoincompletelineagesortingandnotongoingintrogressioninarapidlyradiatedbryophytegenus AT schrockchristian extensivegenomewidephylogeneticdiscordanceisduetoincompletelineagesortingandnotongoingintrogressioninarapidlyradiatedbryophytegenus AT lamkowskipaul extensivegenomewidephylogeneticdiscordanceisduetoincompletelineagesortingandnotongoingintrogressioninarapidlyradiatedbryophytegenus AT schmutzjeremy extensivegenomewidephylogeneticdiscordanceisduetoincompletelineagesortingandnotongoingintrogressioninarapidlyradiatedbryophytegenus AT healeyadam extensivegenomewidephylogeneticdiscordanceisduetoincompletelineagesortingandnotongoingintrogressioninarapidlyradiatedbryophytegenus AT piatkowskibryant extensivegenomewidephylogeneticdiscordanceisduetoincompletelineagesortingandnotongoingintrogressioninarapidlyradiatedbryophytegenus AT shawajonathan extensivegenomewidephylogeneticdiscordanceisduetoincompletelineagesortingandnotongoingintrogressioninarapidlyradiatedbryophytegenus AT westondavidj extensivegenomewidephylogeneticdiscordanceisduetoincompletelineagesortingandnotongoingintrogressioninarapidlyradiatedbryophytegenus AT flatbergkjellivar extensivegenomewidephylogeneticdiscordanceisduetoincompletelineagesortingandnotongoingintrogressioninarapidlyradiatedbryophytegenus AT szovenyipeter extensivegenomewidephylogeneticdiscordanceisduetoincompletelineagesortingandnotongoingintrogressioninarapidlyradiatedbryophytegenus AT hasselkristian extensivegenomewidephylogeneticdiscordanceisduetoincompletelineagesortingandnotongoingintrogressioninarapidlyradiatedbryophytegenus AT stenøienhansk extensivegenomewidephylogeneticdiscordanceisduetoincompletelineagesortingandnotongoingintrogressioninarapidlyradiatedbryophytegenus |