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Transposase expression, element abundance, element size, and DNA repair determine the mobility and heritability of PIF/Pong/Harbinger transposable elements

Introduction: Class II DNA transposable elements account for significant portions of eukaryotic genomes and contribute to genome evolution through their mobilization. To escape inactivating mutations and persist in the host genome over evolutionary time, these elements must be mobilized enough to re...

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Autores principales: Redd, Priscilla S., Payero, Lisette, Gilbert, David M., Page, Clinton A., King, Reese, McAssey, Edward V., Bodie, Dalton, Diaz, Stephanie, Hancock, C. Nathan
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10288884/
https://www.ncbi.nlm.nih.gov/pubmed/37363729
http://dx.doi.org/10.3389/fcell.2023.1184046
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author Redd, Priscilla S.
Payero, Lisette
Gilbert, David M.
Page, Clinton A.
King, Reese
McAssey, Edward V.
Bodie, Dalton
Diaz, Stephanie
Hancock, C. Nathan
author_facet Redd, Priscilla S.
Payero, Lisette
Gilbert, David M.
Page, Clinton A.
King, Reese
McAssey, Edward V.
Bodie, Dalton
Diaz, Stephanie
Hancock, C. Nathan
author_sort Redd, Priscilla S.
collection PubMed
description Introduction: Class II DNA transposable elements account for significant portions of eukaryotic genomes and contribute to genome evolution through their mobilization. To escape inactivating mutations and persist in the host genome over evolutionary time, these elements must be mobilized enough to result in additional copies. These elements utilize a “cut and paste” transposition mechanism that does not intrinsically include replication. However, elements such as the rice derived mPing element have been observed to increase in copy number over time. Methods: We used yeast transposition assays to test several parameters that could affect the excision and insertion of mPing and its related elements. This included development of novel strategies for measuring element insertion and sequencing insertion sites. Results: Increased transposase protein expression increased the mobilization frequency of a small (430 bp) element, while overexpression inhibition was observed for a larger (7,126 bp) element. Smaller element size increased both the frequency of excision and insertion of these elements. The effect of yeast ploidy on element excision, insertion, and copy number provided evidence that homology dependent repair allows for replicative transposition. These elements were found to preferentially insert into yeast rDNA repeat sequences. Discussion: Identifying the parameters that influence transposition of these elements will facilitate their use for gene discovery and genome editing. These insights in to the behavior of these elements also provide important clues into how class II transposable elements have shaped eukaryotic genomes.
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spelling pubmed-102888842023-06-24 Transposase expression, element abundance, element size, and DNA repair determine the mobility and heritability of PIF/Pong/Harbinger transposable elements Redd, Priscilla S. Payero, Lisette Gilbert, David M. Page, Clinton A. King, Reese McAssey, Edward V. Bodie, Dalton Diaz, Stephanie Hancock, C. Nathan Front Cell Dev Biol Cell and Developmental Biology Introduction: Class II DNA transposable elements account for significant portions of eukaryotic genomes and contribute to genome evolution through their mobilization. To escape inactivating mutations and persist in the host genome over evolutionary time, these elements must be mobilized enough to result in additional copies. These elements utilize a “cut and paste” transposition mechanism that does not intrinsically include replication. However, elements such as the rice derived mPing element have been observed to increase in copy number over time. Methods: We used yeast transposition assays to test several parameters that could affect the excision and insertion of mPing and its related elements. This included development of novel strategies for measuring element insertion and sequencing insertion sites. Results: Increased transposase protein expression increased the mobilization frequency of a small (430 bp) element, while overexpression inhibition was observed for a larger (7,126 bp) element. Smaller element size increased both the frequency of excision and insertion of these elements. The effect of yeast ploidy on element excision, insertion, and copy number provided evidence that homology dependent repair allows for replicative transposition. These elements were found to preferentially insert into yeast rDNA repeat sequences. Discussion: Identifying the parameters that influence transposition of these elements will facilitate their use for gene discovery and genome editing. These insights in to the behavior of these elements also provide important clues into how class II transposable elements have shaped eukaryotic genomes. Frontiers Media S.A. 2023-06-09 /pmc/articles/PMC10288884/ /pubmed/37363729 http://dx.doi.org/10.3389/fcell.2023.1184046 Text en Copyright © 2023 Redd, Payero, Gilbert, Page, King, McAssey, Bodie, Diaz and Hancock. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Cell and Developmental Biology
Redd, Priscilla S.
Payero, Lisette
Gilbert, David M.
Page, Clinton A.
King, Reese
McAssey, Edward V.
Bodie, Dalton
Diaz, Stephanie
Hancock, C. Nathan
Transposase expression, element abundance, element size, and DNA repair determine the mobility and heritability of PIF/Pong/Harbinger transposable elements
title Transposase expression, element abundance, element size, and DNA repair determine the mobility and heritability of PIF/Pong/Harbinger transposable elements
title_full Transposase expression, element abundance, element size, and DNA repair determine the mobility and heritability of PIF/Pong/Harbinger transposable elements
title_fullStr Transposase expression, element abundance, element size, and DNA repair determine the mobility and heritability of PIF/Pong/Harbinger transposable elements
title_full_unstemmed Transposase expression, element abundance, element size, and DNA repair determine the mobility and heritability of PIF/Pong/Harbinger transposable elements
title_short Transposase expression, element abundance, element size, and DNA repair determine the mobility and heritability of PIF/Pong/Harbinger transposable elements
title_sort transposase expression, element abundance, element size, and dna repair determine the mobility and heritability of pif/pong/harbinger transposable elements
topic Cell and Developmental Biology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10288884/
https://www.ncbi.nlm.nih.gov/pubmed/37363729
http://dx.doi.org/10.3389/fcell.2023.1184046
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