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Origin and evolution of a placental-specific microRNA family in the human genome
BACKGROUND: MicroRNAs (miRNAs) are a class of short regulatory RNAs encoded in the genome of DNA viruses, some single cell organisms, plants and animals. With the rapid development of technology, more and more miRNAs are being discovered. However, the origin and evolution of most miRNAs remain obscu...
Autores principales: | , , , , , , , |
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Formato: | Texto |
Lenguaje: | English |
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BioMed Central
2010
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Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2996404/ https://www.ncbi.nlm.nih.gov/pubmed/21067568 http://dx.doi.org/10.1186/1471-2148-10-346 |
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author | Yuan, Zhidong Sun, Xiao Jiang, Dongke Ding, Yan Lu, Zhiyuan Gong, Lejun Liu, Hongde Xie, Jianming |
author_facet | Yuan, Zhidong Sun, Xiao Jiang, Dongke Ding, Yan Lu, Zhiyuan Gong, Lejun Liu, Hongde Xie, Jianming |
author_sort | Yuan, Zhidong |
collection | PubMed |
description | BACKGROUND: MicroRNAs (miRNAs) are a class of short regulatory RNAs encoded in the genome of DNA viruses, some single cell organisms, plants and animals. With the rapid development of technology, more and more miRNAs are being discovered. However, the origin and evolution of most miRNAs remain obscure. Here we report the origin and evolution dynamics of a human miRNA family. RESULTS: We have shown that all members of the miR-1302 family are derived from MER53 elements. Although the conservation scores of the MER53-derived pre-miRNA sequences are low, we have identified 36 potential paralogs of MER53-derived miR-1302 genes in the human genome and 58 potential orthologs of the human miR-1302 family in placental mammals. We suggest that in placental species, this miRNA family has evolved following the birth-and-death model of evolution. Three possible mechanisms that can mediate miRNA duplication in evolutionary history have been proposed: the transposition of the MER53 element, segmental duplications and Alu-mediated recombination. Finally, we have found that the target genes of miR-1302 are over-represented in transportation, localization, and system development processes and in the positive regulation of cellular processes. Many of them are predicted to function in binding and transcription regulation. CONCLUSIONS: The members of miR-1302 family that are derived from MER53 elements are placental-specific miRNAs. They emerged at the early stage of the recent 180 million years since eutherian mammals diverged from marsupials. Under the birth-and-death model, the miR-1302 genes have experienced a complex expansion with some members evolving by segmental duplications and some by Alu-mediated recombination events. |
format | Text |
id | pubmed-2996404 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2010 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-29964042010-12-03 Origin and evolution of a placental-specific microRNA family in the human genome Yuan, Zhidong Sun, Xiao Jiang, Dongke Ding, Yan Lu, Zhiyuan Gong, Lejun Liu, Hongde Xie, Jianming BMC Evol Biol Research Article BACKGROUND: MicroRNAs (miRNAs) are a class of short regulatory RNAs encoded in the genome of DNA viruses, some single cell organisms, plants and animals. With the rapid development of technology, more and more miRNAs are being discovered. However, the origin and evolution of most miRNAs remain obscure. Here we report the origin and evolution dynamics of a human miRNA family. RESULTS: We have shown that all members of the miR-1302 family are derived from MER53 elements. Although the conservation scores of the MER53-derived pre-miRNA sequences are low, we have identified 36 potential paralogs of MER53-derived miR-1302 genes in the human genome and 58 potential orthologs of the human miR-1302 family in placental mammals. We suggest that in placental species, this miRNA family has evolved following the birth-and-death model of evolution. Three possible mechanisms that can mediate miRNA duplication in evolutionary history have been proposed: the transposition of the MER53 element, segmental duplications and Alu-mediated recombination. Finally, we have found that the target genes of miR-1302 are over-represented in transportation, localization, and system development processes and in the positive regulation of cellular processes. Many of them are predicted to function in binding and transcription regulation. CONCLUSIONS: The members of miR-1302 family that are derived from MER53 elements are placental-specific miRNAs. They emerged at the early stage of the recent 180 million years since eutherian mammals diverged from marsupials. Under the birth-and-death model, the miR-1302 genes have experienced a complex expansion with some members evolving by segmental duplications and some by Alu-mediated recombination events. BioMed Central 2010-11-10 /pmc/articles/PMC2996404/ /pubmed/21067568 http://dx.doi.org/10.1186/1471-2148-10-346 Text en Copyright ©2010 Yuan et al; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Research Article Yuan, Zhidong Sun, Xiao Jiang, Dongke Ding, Yan Lu, Zhiyuan Gong, Lejun Liu, Hongde Xie, Jianming Origin and evolution of a placental-specific microRNA family in the human genome |
title | Origin and evolution of a placental-specific microRNA family in the human genome |
title_full | Origin and evolution of a placental-specific microRNA family in the human genome |
title_fullStr | Origin and evolution of a placental-specific microRNA family in the human genome |
title_full_unstemmed | Origin and evolution of a placental-specific microRNA family in the human genome |
title_short | Origin and evolution of a placental-specific microRNA family in the human genome |
title_sort | origin and evolution of a placental-specific microrna family in the human genome |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2996404/ https://www.ncbi.nlm.nih.gov/pubmed/21067568 http://dx.doi.org/10.1186/1471-2148-10-346 |
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