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Transposable Element Populations Shed Light on the Evolutionary History of Wheat and the Complex Co‐Evolution of Autonomous and Non‐Autonomous Retrotransposons

Wheat has one of the largest and most repetitive genomes among major crop plants, containing over 85% transposable elements (TEs). TEs populate genomes much in the way that individuals populate ecosystems, diversifying into different lineages, sub‐families and sub‐populations. The recent availabilit...

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Autores principales: Wicker, Thomas, Stritt, Christoph, Sotiropoulos, Alexandros G., Poretti, Manuel, Pozniak, Curtis, Walkowiak, Sean, Gundlach, Heidrun, Stein, Nils
Formato: Online Artículo Texto
Lenguaje:English
Publicado: John Wiley and Sons Inc. 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9744471/
https://www.ncbi.nlm.nih.gov/pubmed/36619351
http://dx.doi.org/10.1002/ggn2.202100022
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author Wicker, Thomas
Stritt, Christoph
Sotiropoulos, Alexandros G.
Poretti, Manuel
Pozniak, Curtis
Walkowiak, Sean
Gundlach, Heidrun
Stein, Nils
author_facet Wicker, Thomas
Stritt, Christoph
Sotiropoulos, Alexandros G.
Poretti, Manuel
Pozniak, Curtis
Walkowiak, Sean
Gundlach, Heidrun
Stein, Nils
author_sort Wicker, Thomas
collection PubMed
description Wheat has one of the largest and most repetitive genomes among major crop plants, containing over 85% transposable elements (TEs). TEs populate genomes much in the way that individuals populate ecosystems, diversifying into different lineages, sub‐families and sub‐populations. The recent availability of high‐quality, chromosome‐scale genome sequences from ten wheat lines enables a detailed analysis how TEs evolved in allohexaploid wheat, its diploids progenitors, and in various chromosomal haplotype segments. LTR retrotransposon families evolved into distinct sub‐populations and sub‐families that were active in waves lasting several hundred thousand years. Furthermore, It is shown that different retrotransposon sub‐families were active in the three wheat sub‐genomes, making them useful markers to study and date polyploidization events and chromosomal rearrangements. Additionally, haplotype‐specific TE sub‐families are used to characterize chromosomal introgressions in different wheat lines. Additionally, populations of non‐autonomous TEs co‐evolved over millions of years with their autonomous partners, leading to complex systems with multiple types of autonomous, semi‐autonomous and non‐autonomous elements. Phylogenetic and TE population analyses revealed the relationships between non‐autonomous elements and their mobilizing autonomous partners. TE population analysis provided insights into genome evolution of allohexaploid wheat and genetic diversity of species, and may have implication for future crop breeding.
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spelling pubmed-97444712023-01-06 Transposable Element Populations Shed Light on the Evolutionary History of Wheat and the Complex Co‐Evolution of Autonomous and Non‐Autonomous Retrotransposons Wicker, Thomas Stritt, Christoph Sotiropoulos, Alexandros G. Poretti, Manuel Pozniak, Curtis Walkowiak, Sean Gundlach, Heidrun Stein, Nils Adv Genet (Hoboken) Research Articles Wheat has one of the largest and most repetitive genomes among major crop plants, containing over 85% transposable elements (TEs). TEs populate genomes much in the way that individuals populate ecosystems, diversifying into different lineages, sub‐families and sub‐populations. The recent availability of high‐quality, chromosome‐scale genome sequences from ten wheat lines enables a detailed analysis how TEs evolved in allohexaploid wheat, its diploids progenitors, and in various chromosomal haplotype segments. LTR retrotransposon families evolved into distinct sub‐populations and sub‐families that were active in waves lasting several hundred thousand years. Furthermore, It is shown that different retrotransposon sub‐families were active in the three wheat sub‐genomes, making them useful markers to study and date polyploidization events and chromosomal rearrangements. Additionally, haplotype‐specific TE sub‐families are used to characterize chromosomal introgressions in different wheat lines. Additionally, populations of non‐autonomous TEs co‐evolved over millions of years with their autonomous partners, leading to complex systems with multiple types of autonomous, semi‐autonomous and non‐autonomous elements. Phylogenetic and TE population analyses revealed the relationships between non‐autonomous elements and their mobilizing autonomous partners. TE population analysis provided insights into genome evolution of allohexaploid wheat and genetic diversity of species, and may have implication for future crop breeding. John Wiley and Sons Inc. 2021-12-09 /pmc/articles/PMC9744471/ /pubmed/36619351 http://dx.doi.org/10.1002/ggn2.202100022 Text en © 2021 The Authors. Advanced Genetics published by Wiley Periodicals LLC https://creativecommons.org/licenses/by/4.0/This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.
spellingShingle Research Articles
Wicker, Thomas
Stritt, Christoph
Sotiropoulos, Alexandros G.
Poretti, Manuel
Pozniak, Curtis
Walkowiak, Sean
Gundlach, Heidrun
Stein, Nils
Transposable Element Populations Shed Light on the Evolutionary History of Wheat and the Complex Co‐Evolution of Autonomous and Non‐Autonomous Retrotransposons
title Transposable Element Populations Shed Light on the Evolutionary History of Wheat and the Complex Co‐Evolution of Autonomous and Non‐Autonomous Retrotransposons
title_full Transposable Element Populations Shed Light on the Evolutionary History of Wheat and the Complex Co‐Evolution of Autonomous and Non‐Autonomous Retrotransposons
title_fullStr Transposable Element Populations Shed Light on the Evolutionary History of Wheat and the Complex Co‐Evolution of Autonomous and Non‐Autonomous Retrotransposons
title_full_unstemmed Transposable Element Populations Shed Light on the Evolutionary History of Wheat and the Complex Co‐Evolution of Autonomous and Non‐Autonomous Retrotransposons
title_short Transposable Element Populations Shed Light on the Evolutionary History of Wheat and the Complex Co‐Evolution of Autonomous and Non‐Autonomous Retrotransposons
title_sort transposable element populations shed light on the evolutionary history of wheat and the complex co‐evolution of autonomous and non‐autonomous retrotransposons
topic Research Articles
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9744471/
https://www.ncbi.nlm.nih.gov/pubmed/36619351
http://dx.doi.org/10.1002/ggn2.202100022
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