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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...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group UK
2019
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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. |
format | Online Article Text |
id | pubmed-6817897 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2019 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
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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