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Evolution and diversity of transposable elements in fish genomes

Transposable elements (TEs) are genomic sequences that can move, multiply, and often form sizable fractions of vertebrate genomes. Fish belong to a unique group of vertebrates, since their karyotypes and genome sizes are more diverse and complex, with probably higher diversity and evolution specific...

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Autores principales: Shao, Feng, Han, Minjin, Peng, Zuogang
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6817897/
https://www.ncbi.nlm.nih.gov/pubmed/31659260
http://dx.doi.org/10.1038/s41598-019-51888-1
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author Shao, Feng
Han, Minjin
Peng, Zuogang
author_facet Shao, Feng
Han, Minjin
Peng, Zuogang
author_sort Shao, Feng
collection PubMed
description Transposable elements (TEs) are genomic sequences that can move, multiply, and often form sizable fractions of vertebrate genomes. Fish belong to a unique group of vertebrates, since their karyotypes and genome sizes are more diverse and complex, with probably higher diversity and evolution specificity of TE. To investigate the characteristics of fish TEs, we compared the mobilomes of 39 species, and observed significant variation of TE content in fish (from 5% in pufferfish to 56% in zebrafish), along with a positive correlation between fish genome size and TE content. In different classification hierarchies, retrotransposons (class), long terminal repeat (order), as well as Helitron, Maverick, Kolobok, CMC, DIRS, P, I, L1, L2, and 5S (superfamily) were all positively correlated with fish genome size. Consistent with previous studies, our data suggested fish genomes to not always be dominated by DNA transposons; long interspersed nuclear elements are also prominent in many species. This study suggests CR1 distribution in fish genomes to be obviously regular, and provides new clues concerning important events in vertebrate evolution. Altogether, our results highlight the importance of TEs in the structure and evolution of fish genomes and suggest fish species diversity to parallel transposon content diversification.
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spelling pubmed-68178972019-11-01 Evolution and diversity of transposable elements in fish genomes Shao, Feng Han, Minjin Peng, Zuogang Sci Rep Article Transposable elements (TEs) are genomic sequences that can move, multiply, and often form sizable fractions of vertebrate genomes. Fish belong to a unique group of vertebrates, since their karyotypes and genome sizes are more diverse and complex, with probably higher diversity and evolution specificity of TE. To investigate the characteristics of fish TEs, we compared the mobilomes of 39 species, and observed significant variation of TE content in fish (from 5% in pufferfish to 56% in zebrafish), along with a positive correlation between fish genome size and TE content. In different classification hierarchies, retrotransposons (class), long terminal repeat (order), as well as Helitron, Maverick, Kolobok, CMC, DIRS, P, I, L1, L2, and 5S (superfamily) were all positively correlated with fish genome size. Consistent with previous studies, our data suggested fish genomes to not always be dominated by DNA transposons; long interspersed nuclear elements are also prominent in many species. This study suggests CR1 distribution in fish genomes to be obviously regular, and provides new clues concerning important events in vertebrate evolution. Altogether, our results highlight the importance of TEs in the structure and evolution of fish genomes and suggest fish species diversity to parallel transposon content diversification. Nature Publishing Group UK 2019-10-28 /pmc/articles/PMC6817897/ /pubmed/31659260 http://dx.doi.org/10.1038/s41598-019-51888-1 Text en © The Author(s) 2019 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.
spellingShingle Article
Shao, Feng
Han, Minjin
Peng, Zuogang
Evolution and diversity of transposable elements in fish genomes
title Evolution and diversity of transposable elements in fish genomes
title_full Evolution and diversity of transposable elements in fish genomes
title_fullStr Evolution and diversity of transposable elements in fish genomes
title_full_unstemmed Evolution and diversity of transposable elements in fish genomes
title_short Evolution and diversity of transposable elements in fish genomes
title_sort evolution and diversity of transposable elements in fish genomes
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6817897/
https://www.ncbi.nlm.nih.gov/pubmed/31659260
http://dx.doi.org/10.1038/s41598-019-51888-1
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