Comparative sequence analysis of the Ghd7 orthologous regions revealed movement of Ghd7 in the grass genomes.

Ghd7 is an important rice gene that has a major effect on several agronomic traits, including yield. To reveal the origin of Ghd7 and sequence evolution of this locus, we performed a comparative sequence analysis of the Ghd7 orthologous regions from ten diploid Oryza species, Brachypodium distachyon...

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Autores principales:	Lu Yang, Tieyan Liu, Bo Li, Yi Sui, Jinfeng Chen, Jinfeng Shi, Rod A Wing, Mingsheng Chen
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2012
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/a019d539989d4afe8639144ffd981894
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spelling	oai:doaj.org-article:a019d539989d4afe8639144ffd9818942021-11-18T08:07:45ZComparative sequence analysis of the Ghd7 orthologous regions revealed movement of Ghd7 in the grass genomes.1932-620310.1371/journal.pone.0050236https://doaj.org/article/a019d539989d4afe8639144ffd9818942012-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/23185584/pdf/?tool=EBIhttps://doaj.org/toc/1932-6203Ghd7 is an important rice gene that has a major effect on several agronomic traits, including yield. To reveal the origin of Ghd7 and sequence evolution of this locus, we performed a comparative sequence analysis of the Ghd7 orthologous regions from ten diploid Oryza species, Brachypodium distachyon, sorghum and maize. Sequence analysis demonstrated high gene collinearity across the genus Oryza and a disruption of collinearity among non-Oryza species. In particular, Ghd7 was not present in orthologous positions except in Oryza species. The Ghd7 regions were found to have low gene densities and high contents of repetitive elements, and that the sizes of orthologous regions varied tremendously. The large transposable element contents resulted in a high frequency of pseudogenization and gene movement events surrounding the Ghd7 loci. Annotation information and cytological experiments have indicated that Ghd7 is a heterochromatic gene. Ghd7 orthologs were identified in B. distachyon, sorghum and maize by phylogenetic analysis; however, the positions of orthologous genes differed dramatically as a consequence of gene movements in grasses. Rather, we identified sequence remnants of gene movement of Ghd7 mediated by illegitimate recombination in the B. distachyon genome.Lu YangTieyan LiuBo LiYi SuiJinfeng ChenJinfeng ShiRod A WingMingsheng ChenPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 7, Iss 11, p e50236 (2012)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Lu Yang Tieyan Liu Bo Li Yi Sui Jinfeng Chen Jinfeng Shi Rod A Wing Mingsheng Chen Comparative sequence analysis of the Ghd7 orthologous regions revealed movement of Ghd7 in the grass genomes.
description	Ghd7 is an important rice gene that has a major effect on several agronomic traits, including yield. To reveal the origin of Ghd7 and sequence evolution of this locus, we performed a comparative sequence analysis of the Ghd7 orthologous regions from ten diploid Oryza species, Brachypodium distachyon, sorghum and maize. Sequence analysis demonstrated high gene collinearity across the genus Oryza and a disruption of collinearity among non-Oryza species. In particular, Ghd7 was not present in orthologous positions except in Oryza species. The Ghd7 regions were found to have low gene densities and high contents of repetitive elements, and that the sizes of orthologous regions varied tremendously. The large transposable element contents resulted in a high frequency of pseudogenization and gene movement events surrounding the Ghd7 loci. Annotation information and cytological experiments have indicated that Ghd7 is a heterochromatic gene. Ghd7 orthologs were identified in B. distachyon, sorghum and maize by phylogenetic analysis; however, the positions of orthologous genes differed dramatically as a consequence of gene movements in grasses. Rather, we identified sequence remnants of gene movement of Ghd7 mediated by illegitimate recombination in the B. distachyon genome.
format	article
author	Lu Yang Tieyan Liu Bo Li Yi Sui Jinfeng Chen Jinfeng Shi Rod A Wing Mingsheng Chen
author_facet	Lu Yang Tieyan Liu Bo Li Yi Sui Jinfeng Chen Jinfeng Shi Rod A Wing Mingsheng Chen
author_sort	Lu Yang
title	Comparative sequence analysis of the Ghd7 orthologous regions revealed movement of Ghd7 in the grass genomes.
title_short	Comparative sequence analysis of the Ghd7 orthologous regions revealed movement of Ghd7 in the grass genomes.
title_full	Comparative sequence analysis of the Ghd7 orthologous regions revealed movement of Ghd7 in the grass genomes.
title_fullStr	Comparative sequence analysis of the Ghd7 orthologous regions revealed movement of Ghd7 in the grass genomes.
title_full_unstemmed	Comparative sequence analysis of the Ghd7 orthologous regions revealed movement of Ghd7 in the grass genomes.
title_sort	comparative sequence analysis of the ghd7 orthologous regions revealed movement of ghd7 in the grass genomes.
publisher	Public Library of Science (PLoS)
publishDate	2012
url	https://doaj.org/article/a019d539989d4afe8639144ffd981894
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Comparative sequence analysis of the Ghd7 orthologous regions revealed movement of Ghd7 in the grass genomes.

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