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Genomic Organization, Phylogenetic Comparison and Differential Expression of the SBP-Box Family Genes in Grape
BACKGROUND: The SBP-box gene family is specific to plants and encodes a class of zinc finger-containing transcription factors with a broad range of functions. Although SBP-box genes have been identified in numerous plants including green algae, moss, silver birch, snapdragon, Arabidopsis, rice and m...
Autores principales: | , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Public Library of Science
2013
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3601960/ https://www.ncbi.nlm.nih.gov/pubmed/23527172 http://dx.doi.org/10.1371/journal.pone.0059358 |
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author | Hou, Hongmin Li, Jun Gao, Min Singer, Stacy D. Wang, Hao Mao, Linyong Fei, Zhangjun Wang, Xiping |
author_facet | Hou, Hongmin Li, Jun Gao, Min Singer, Stacy D. Wang, Hao Mao, Linyong Fei, Zhangjun Wang, Xiping |
author_sort | Hou, Hongmin |
collection | PubMed |
description | BACKGROUND: The SBP-box gene family is specific to plants and encodes a class of zinc finger-containing transcription factors with a broad range of functions. Although SBP-box genes have been identified in numerous plants including green algae, moss, silver birch, snapdragon, Arabidopsis, rice and maize, there is little information concerning SBP-box genes, or the corresponding miR156/157, function in grapevine. METHODOLOGY/PRINCIPAL FINDINGS: Eighteen SBP-box gene family members were identified in Vitis vinifera, twelve of which bore sequences that were complementary to miRNA156/157. Phylogenetic reconstruction demonstrated that plant SBP-domain proteins could be classified into seven subgroups, with the V. vinifera SBP-domain proteins being more closely related to SBP-domain proteins from dicotyledonous angiosperms than those from monocotyledonous angiosperms. In addition, synteny analysis between grape and Arabidopsis demonstrated that homologs of several grape SBP genes were found in corresponding syntenic blocks of Arabidopsis. Expression analysis of the grape SBP-box genes in various organs and at different stages of fruit development in V. quinquangularis ‘Shang-24’ revealed distinct spatiotemporal patterns. While the majority of the grape SBP-box genes lacking a miR156/157 target site were expressed ubiquitously and constitutively, most genes bearing a miR156/157 target site exhibited distinct expression patterns, possibly due to the inhibitory role of the microRNA. Furthermore, microarray data mining and quantitative real-time RT-PCR analysis identified several grape SBP-box genes that are potentially involved in the defense against biotic and abiotic stresses. CONCLUSION: The results presented here provide a further understanding of SBP-box gene function in plants, and yields additional insights into the mechanism of stress management in grape, which may have important implications for the future success of this crop. |
format | Online Article Text |
id | pubmed-3601960 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2013 |
publisher | Public Library of Science |
record_format | MEDLINE/PubMed |
spelling | pubmed-36019602013-03-22 Genomic Organization, Phylogenetic Comparison and Differential Expression of the SBP-Box Family Genes in Grape Hou, Hongmin Li, Jun Gao, Min Singer, Stacy D. Wang, Hao Mao, Linyong Fei, Zhangjun Wang, Xiping PLoS One Research Article BACKGROUND: The SBP-box gene family is specific to plants and encodes a class of zinc finger-containing transcription factors with a broad range of functions. Although SBP-box genes have been identified in numerous plants including green algae, moss, silver birch, snapdragon, Arabidopsis, rice and maize, there is little information concerning SBP-box genes, or the corresponding miR156/157, function in grapevine. METHODOLOGY/PRINCIPAL FINDINGS: Eighteen SBP-box gene family members were identified in Vitis vinifera, twelve of which bore sequences that were complementary to miRNA156/157. Phylogenetic reconstruction demonstrated that plant SBP-domain proteins could be classified into seven subgroups, with the V. vinifera SBP-domain proteins being more closely related to SBP-domain proteins from dicotyledonous angiosperms than those from monocotyledonous angiosperms. In addition, synteny analysis between grape and Arabidopsis demonstrated that homologs of several grape SBP genes were found in corresponding syntenic blocks of Arabidopsis. Expression analysis of the grape SBP-box genes in various organs and at different stages of fruit development in V. quinquangularis ‘Shang-24’ revealed distinct spatiotemporal patterns. While the majority of the grape SBP-box genes lacking a miR156/157 target site were expressed ubiquitously and constitutively, most genes bearing a miR156/157 target site exhibited distinct expression patterns, possibly due to the inhibitory role of the microRNA. Furthermore, microarray data mining and quantitative real-time RT-PCR analysis identified several grape SBP-box genes that are potentially involved in the defense against biotic and abiotic stresses. CONCLUSION: The results presented here provide a further understanding of SBP-box gene function in plants, and yields additional insights into the mechanism of stress management in grape, which may have important implications for the future success of this crop. Public Library of Science 2013-03-19 /pmc/articles/PMC3601960/ /pubmed/23527172 http://dx.doi.org/10.1371/journal.pone.0059358 Text en © 2013 Hou 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 Hou, Hongmin Li, Jun Gao, Min Singer, Stacy D. Wang, Hao Mao, Linyong Fei, Zhangjun Wang, Xiping Genomic Organization, Phylogenetic Comparison and Differential Expression of the SBP-Box Family Genes in Grape |
title | Genomic Organization, Phylogenetic Comparison and Differential Expression of the SBP-Box Family Genes in Grape |
title_full | Genomic Organization, Phylogenetic Comparison and Differential Expression of the SBP-Box Family Genes in Grape |
title_fullStr | Genomic Organization, Phylogenetic Comparison and Differential Expression of the SBP-Box Family Genes in Grape |
title_full_unstemmed | Genomic Organization, Phylogenetic Comparison and Differential Expression of the SBP-Box Family Genes in Grape |
title_short | Genomic Organization, Phylogenetic Comparison and Differential Expression of the SBP-Box Family Genes in Grape |
title_sort | genomic organization, phylogenetic comparison and differential expression of the sbp-box family genes in grape |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3601960/ https://www.ncbi.nlm.nih.gov/pubmed/23527172 http://dx.doi.org/10.1371/journal.pone.0059358 |
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