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Genome-Wide Identification and Characterization of RBR Ubiquitin Ligase Genes in Soybean

RBR (RING1-IBR-RING2) proteins play an important role in protein ubiquitination and are involved in many cellular processes. Recent studies showed plant RBR genes were induced by abiotic and biotic stresses. However, detailed studies on RBR genes in the important oil crop, soybean (Glycine max (L.)...

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Autores principales: Chen, Pei, Zhang, Xiaolian, Zhao, Tuanjie, Li, Yan, Gai, Junyi
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Public Library of Science 2014
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3904995/
https://www.ncbi.nlm.nih.gov/pubmed/24489889
http://dx.doi.org/10.1371/journal.pone.0087282
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author Chen, Pei
Zhang, Xiaolian
Zhao, Tuanjie
Li, Yan
Gai, Junyi
author_facet Chen, Pei
Zhang, Xiaolian
Zhao, Tuanjie
Li, Yan
Gai, Junyi
author_sort Chen, Pei
collection PubMed
description RBR (RING1-IBR-RING2) proteins play an important role in protein ubiquitination and are involved in many cellular processes. Recent studies showed plant RBR genes were induced by abiotic and biotic stresses. However, detailed studies on RBR genes in the important oil crop, soybean (Glycine max (L.) Merr.), is still lacking. Here we performed a genome-wide search and identified 24 RBR domain-containing genes from the soybean genome sequence and cloned 11 of them. Most soybean RBR proteins contain a highly conserved RBR supra-domain. Phylogenetic analyses indicated all 24 soybean RBR proteins are most related to the RBR proteins from Phaseolus vulgaris, and could be classified into seven groups including Ariadne A, Ariadne B, ARA54, Plant IIA, Plant IIB, Plant IIC, and Helicase. Tandem duplication and block duplication were found among the Ariadne B and Plant IIC group of soybean RBR genes. Despite the conserved RBR supra-domain, there are extensive variations in the additional protein motifs and exon-intron structures between different groups, which indicate they might have diverse functions. Most soybean RBR proteins are predicted to localize in nucleus, and four of them were experimentally confirmed by GFP fusion proteins. Soybean RBR genes are broadly expressed in many tissue types with a little more abundant in the roots and flowers than leaves, stems, and seeds. The expression of GmRTRTP3 (Plant IIB) and GmRTRTP5 (Plant IIC) are induced by NaCl treatment, which suggests these RBR genes might be involved in soybean response to abiotic stresses.
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spelling pubmed-39049952014-01-31 Genome-Wide Identification and Characterization of RBR Ubiquitin Ligase Genes in Soybean Chen, Pei Zhang, Xiaolian Zhao, Tuanjie Li, Yan Gai, Junyi PLoS One Research Article RBR (RING1-IBR-RING2) proteins play an important role in protein ubiquitination and are involved in many cellular processes. Recent studies showed plant RBR genes were induced by abiotic and biotic stresses. However, detailed studies on RBR genes in the important oil crop, soybean (Glycine max (L.) Merr.), is still lacking. Here we performed a genome-wide search and identified 24 RBR domain-containing genes from the soybean genome sequence and cloned 11 of them. Most soybean RBR proteins contain a highly conserved RBR supra-domain. Phylogenetic analyses indicated all 24 soybean RBR proteins are most related to the RBR proteins from Phaseolus vulgaris, and could be classified into seven groups including Ariadne A, Ariadne B, ARA54, Plant IIA, Plant IIB, Plant IIC, and Helicase. Tandem duplication and block duplication were found among the Ariadne B and Plant IIC group of soybean RBR genes. Despite the conserved RBR supra-domain, there are extensive variations in the additional protein motifs and exon-intron structures between different groups, which indicate they might have diverse functions. Most soybean RBR proteins are predicted to localize in nucleus, and four of them were experimentally confirmed by GFP fusion proteins. Soybean RBR genes are broadly expressed in many tissue types with a little more abundant in the roots and flowers than leaves, stems, and seeds. The expression of GmRTRTP3 (Plant IIB) and GmRTRTP5 (Plant IIC) are induced by NaCl treatment, which suggests these RBR genes might be involved in soybean response to abiotic stresses. Public Library of Science 2014-01-28 /pmc/articles/PMC3904995/ /pubmed/24489889 http://dx.doi.org/10.1371/journal.pone.0087282 Text en © 2014 Chen et al http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are properly credited.
spellingShingle Research Article
Chen, Pei
Zhang, Xiaolian
Zhao, Tuanjie
Li, Yan
Gai, Junyi
Genome-Wide Identification and Characterization of RBR Ubiquitin Ligase Genes in Soybean
title Genome-Wide Identification and Characterization of RBR Ubiquitin Ligase Genes in Soybean
title_full Genome-Wide Identification and Characterization of RBR Ubiquitin Ligase Genes in Soybean
title_fullStr Genome-Wide Identification and Characterization of RBR Ubiquitin Ligase Genes in Soybean
title_full_unstemmed Genome-Wide Identification and Characterization of RBR Ubiquitin Ligase Genes in Soybean
title_short Genome-Wide Identification and Characterization of RBR Ubiquitin Ligase Genes in Soybean
title_sort genome-wide identification and characterization of rbr ubiquitin ligase genes in soybean
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3904995/
https://www.ncbi.nlm.nih.gov/pubmed/24489889
http://dx.doi.org/10.1371/journal.pone.0087282
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