Functional and structural divergence of an unusual LTR retrotransposon family in plants.

Retrotransposons with long terminal repeats (LTRs) more than 3 kb are not frequent in most eukaryotic genomes. Rice LTR retrotransposon, Retrosat2, has LTRs greater than 3.2 kb and two open reading frames (ORF): ORF1 encodes enzymes for retrotransposition whereas no function can be assigned to ORF0...

Descripción completa

Guardado en:

Detalles Bibliográficos
Autores principales:	Dongying Gao, Jose C Jimenez-Lopez, Aiko Iwata, Navdeep Gill, Scott A Jackson
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2012
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/a23bc19c8c5d4b319ba6210521acbcf1
Etiquetas:	Agregar Etiqueta Sin Etiquetas, Sea el primero en etiquetar este registro!

id	oai:doaj.org-article:a23bc19c8c5d4b319ba6210521acbcf1
record_format	dspace
spelling	oai:doaj.org-article:a23bc19c8c5d4b319ba6210521acbcf12021-11-18T08:10:19ZFunctional and structural divergence of an unusual LTR retrotransposon family in plants.1932-620310.1371/journal.pone.0048595https://doaj.org/article/a23bc19c8c5d4b319ba6210521acbcf12012-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/23119066/pdf/?tool=EBIhttps://doaj.org/toc/1932-6203Retrotransposons with long terminal repeats (LTRs) more than 3 kb are not frequent in most eukaryotic genomes. Rice LTR retrotransposon, Retrosat2, has LTRs greater than 3.2 kb and two open reading frames (ORF): ORF1 encodes enzymes for retrotransposition whereas no function can be assigned to ORF0 as it is not found in any other organism. A variety of experimental and in silico approaches were used to determine the origin of Retrosat2 and putative function of ORF0. Our data show that not only is Retrosat2 highly abundant in the Oryza genus, it may yet be active in rice. Homologs of Retrosat2 were identified in maize, sorghum, Arabidopsis and other plant genomes suggesting that the Retrosat2 family is of ancient origin. Several putatively cis-acting elements, some multicopy, that regulate retrotransposon replication or responsiveness to environmental factors were found in the LTRs of Retrosat2. Unlike the ORF1, the ORF0 sequences from Retrosat2 and homologs are divergent at the sequence level, 3D-structures and predicted biological functions. In contrast to other retrotransposon families, Retrosat2 and its homologs are dispersed throughout genomes and not concentrated in the specific chromosomal regions, such as centromeres. The genomic distribution of Retrosat2 homologs varies across species which likely reflects the differing evolutionary trajectories of this retrotransposon family across diverse species.Dongying GaoJose C Jimenez-LopezAiko IwataNavdeep GillScott A JacksonPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 7, Iss 10, p e48595 (2012)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Dongying Gao Jose C Jimenez-Lopez Aiko Iwata Navdeep Gill Scott A Jackson Functional and structural divergence of an unusual LTR retrotransposon family in plants.
description	Retrotransposons with long terminal repeats (LTRs) more than 3 kb are not frequent in most eukaryotic genomes. Rice LTR retrotransposon, Retrosat2, has LTRs greater than 3.2 kb and two open reading frames (ORF): ORF1 encodes enzymes for retrotransposition whereas no function can be assigned to ORF0 as it is not found in any other organism. A variety of experimental and in silico approaches were used to determine the origin of Retrosat2 and putative function of ORF0. Our data show that not only is Retrosat2 highly abundant in the Oryza genus, it may yet be active in rice. Homologs of Retrosat2 were identified in maize, sorghum, Arabidopsis and other plant genomes suggesting that the Retrosat2 family is of ancient origin. Several putatively cis-acting elements, some multicopy, that regulate retrotransposon replication or responsiveness to environmental factors were found in the LTRs of Retrosat2. Unlike the ORF1, the ORF0 sequences from Retrosat2 and homologs are divergent at the sequence level, 3D-structures and predicted biological functions. In contrast to other retrotransposon families, Retrosat2 and its homologs are dispersed throughout genomes and not concentrated in the specific chromosomal regions, such as centromeres. The genomic distribution of Retrosat2 homologs varies across species which likely reflects the differing evolutionary trajectories of this retrotransposon family across diverse species.
format	article
author	Dongying Gao Jose C Jimenez-Lopez Aiko Iwata Navdeep Gill Scott A Jackson
author_facet	Dongying Gao Jose C Jimenez-Lopez Aiko Iwata Navdeep Gill Scott A Jackson
author_sort	Dongying Gao
title	Functional and structural divergence of an unusual LTR retrotransposon family in plants.
title_short	Functional and structural divergence of an unusual LTR retrotransposon family in plants.
title_full	Functional and structural divergence of an unusual LTR retrotransposon family in plants.
title_fullStr	Functional and structural divergence of an unusual LTR retrotransposon family in plants.
title_full_unstemmed	Functional and structural divergence of an unusual LTR retrotransposon family in plants.
title_sort	functional and structural divergence of an unusual ltr retrotransposon family in plants.
publisher	Public Library of Science (PLoS)
publishDate	2012
url	https://doaj.org/article/a23bc19c8c5d4b319ba6210521acbcf1
work_keys_str_mv	AT dongyinggao functionalandstructuraldivergenceofanunusualltrretrotransposonfamilyinplants AT josecjimenezlopez functionalandstructuraldivergenceofanunusualltrretrotransposonfamilyinplants AT aikoiwata functionalandstructuraldivergenceofanunusualltrretrotransposonfamilyinplants AT navdeepgill functionalandstructuraldivergenceofanunusualltrretrotransposonfamilyinplants AT scottajackson functionalandstructuraldivergenceofanunusualltrretrotransposonfamilyinplants
_version_	1718422126878261248

Functional and structural divergence of an unusual LTR retrotransposon family in plants.

Ejemplares similares