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Novel genes and alleles of the BTB/POZ protein family in Oryza rufipogon

The BTB/POZ family of proteins is widespread in plants and animals, playing important roles in development, growth, metabolism, and environmental responses. Although members of the expanded BTB/POZ gene family (OsBTB) have been identified in cultivated rice (Oryza sativa), their conservation, novelt...

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Autores principales: Mandal, Swarupa Nanda, Sanchez, Jacobo, Bhowmick, Rakesh, Bello, Oluwatobi R., Van-Beek, Coenraad R., de los Reyes, Benildo G.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10509276/
https://www.ncbi.nlm.nih.gov/pubmed/37726366
http://dx.doi.org/10.1038/s41598-023-41269-0
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author Mandal, Swarupa Nanda
Sanchez, Jacobo
Bhowmick, Rakesh
Bello, Oluwatobi R.
Van-Beek, Coenraad R.
de los Reyes, Benildo G.
author_facet Mandal, Swarupa Nanda
Sanchez, Jacobo
Bhowmick, Rakesh
Bello, Oluwatobi R.
Van-Beek, Coenraad R.
de los Reyes, Benildo G.
author_sort Mandal, Swarupa Nanda
collection PubMed
description The BTB/POZ family of proteins is widespread in plants and animals, playing important roles in development, growth, metabolism, and environmental responses. Although members of the expanded BTB/POZ gene family (OsBTB) have been identified in cultivated rice (Oryza sativa), their conservation, novelty, and potential applications for allele mining in O. rufipogon, the direct progenitor of O. sativa ssp. japonica and potential wide-introgression donor, are yet to be explored. This study describes an analysis of 110 BTB/POZ encoding gene loci (OrBTB) across the genome of O. rufipogon as outcomes of tandem duplication events. Phylogenetic grouping of duplicated OrBTB genes was supported by the analysis of gene sequences and protein domain architecture, shedding some light on their evolution and functional divergence. The O. rufipogon genome encodes nine novel BTB/POZ genes with orthologs in its distant cousins in the family Poaceae (Sorghum bicolor, Brachypodium distachyon), but such orthologs appeared to have been lost in its domesticated descendant, O. sativa ssp. japonica. Comparative sequence analysis and structure comparisons of novel OrBTB genes revealed that diverged upstream regulatory sequences and regulon restructuring are the key features of the evolution of this large gene family. Novel genes from the wild progenitor serve as a reservoir of potential new alleles that can bring novel functions to cultivars when introgressed by wide hybridization. This study establishes a foundation for hypothesis-driven functional genomic studies and their applications for widening the genetic base of rice cultivars through the introgression of novel genes or alleles from the exotic gene pool.
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spelling pubmed-105092762023-09-21 Novel genes and alleles of the BTB/POZ protein family in Oryza rufipogon Mandal, Swarupa Nanda Sanchez, Jacobo Bhowmick, Rakesh Bello, Oluwatobi R. Van-Beek, Coenraad R. de los Reyes, Benildo G. Sci Rep Article The BTB/POZ family of proteins is widespread in plants and animals, playing important roles in development, growth, metabolism, and environmental responses. Although members of the expanded BTB/POZ gene family (OsBTB) have been identified in cultivated rice (Oryza sativa), their conservation, novelty, and potential applications for allele mining in O. rufipogon, the direct progenitor of O. sativa ssp. japonica and potential wide-introgression donor, are yet to be explored. This study describes an analysis of 110 BTB/POZ encoding gene loci (OrBTB) across the genome of O. rufipogon as outcomes of tandem duplication events. Phylogenetic grouping of duplicated OrBTB genes was supported by the analysis of gene sequences and protein domain architecture, shedding some light on their evolution and functional divergence. The O. rufipogon genome encodes nine novel BTB/POZ genes with orthologs in its distant cousins in the family Poaceae (Sorghum bicolor, Brachypodium distachyon), but such orthologs appeared to have been lost in its domesticated descendant, O. sativa ssp. japonica. Comparative sequence analysis and structure comparisons of novel OrBTB genes revealed that diverged upstream regulatory sequences and regulon restructuring are the key features of the evolution of this large gene family. Novel genes from the wild progenitor serve as a reservoir of potential new alleles that can bring novel functions to cultivars when introgressed by wide hybridization. This study establishes a foundation for hypothesis-driven functional genomic studies and their applications for widening the genetic base of rice cultivars through the introgression of novel genes or alleles from the exotic gene pool. Nature Publishing Group UK 2023-09-19 /pmc/articles/PMC10509276/ /pubmed/37726366 http://dx.doi.org/10.1038/s41598-023-41269-0 Text en © The Author(s) 2023 https://creativecommons.org/licenses/by/4.0/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 licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence 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 licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Article
Mandal, Swarupa Nanda
Sanchez, Jacobo
Bhowmick, Rakesh
Bello, Oluwatobi R.
Van-Beek, Coenraad R.
de los Reyes, Benildo G.
Novel genes and alleles of the BTB/POZ protein family in Oryza rufipogon
title Novel genes and alleles of the BTB/POZ protein family in Oryza rufipogon
title_full Novel genes and alleles of the BTB/POZ protein family in Oryza rufipogon
title_fullStr Novel genes and alleles of the BTB/POZ protein family in Oryza rufipogon
title_full_unstemmed Novel genes and alleles of the BTB/POZ protein family in Oryza rufipogon
title_short Novel genes and alleles of the BTB/POZ protein family in Oryza rufipogon
title_sort novel genes and alleles of the btb/poz protein family in oryza rufipogon
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10509276/
https://www.ncbi.nlm.nih.gov/pubmed/37726366
http://dx.doi.org/10.1038/s41598-023-41269-0
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