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Genome-Wide Identification and Expression Analysis of NCED Gene Family in Pear and Its Response to Exogenous Gibberellin and Paclobutrazol
The 9-cis-epoxycarotenoid dioxygenase (NCED) is a key enzyme for the process of ABA synthesis that plays key roles in a variety of biological processes. In the current investigation, genome-wide identification and comprehensive analysis of the NCED gene family in ‘Kuerle Xiangli’ (Pyrus sinkiangensi...
Autores principales: | , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
MDPI
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10144387/ https://www.ncbi.nlm.nih.gov/pubmed/37108747 http://dx.doi.org/10.3390/ijms24087566 |
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author | Liu, Jinming Yuan, Xing Quan, Shaowen Zhang, Meng Kang, Chao Guo, Caihua Zhang, Zhongrong Niu, Jianxin |
author_facet | Liu, Jinming Yuan, Xing Quan, Shaowen Zhang, Meng Kang, Chao Guo, Caihua Zhang, Zhongrong Niu, Jianxin |
author_sort | Liu, Jinming |
collection | PubMed |
description | The 9-cis-epoxycarotenoid dioxygenase (NCED) is a key enzyme for the process of ABA synthesis that plays key roles in a variety of biological processes. In the current investigation, genome-wide identification and comprehensive analysis of the NCED gene family in ‘Kuerle Xiangli’ (Pyrus sinkiangensis Yu) were conducted using the pear genomic sequence. In total, nineteen members of PbNCED genes were identified from the whole genome of pear, which are not evenly distributed over the scaffolds, and most of which were focussed in the chloroplasts. Sequence analysis of promoters showed many cis-regulatory elements, which presumably responded to phytohormones such as abscisic acid, auxin, etc. Synteny block indicated that the PbNCED genes have experienced strong purifying selection. Multiple sequence alignment demonstrated that these members are highly similar and conserved. In addition, we found that PbNCED genes were differentially expressed in various tissues, and three PbNCED genes (PbNCED1, PbNCED2, and PbNCED13) were differentially expressed in response to exogenous Gibberellin (GA(3)) and Paclobutrazol (PP(333)). PbNCED1 and PbNCED13 positively promote ABA synthesis in sepals after GA(3) and PP(333) treatment, whereas PbNCED2 positively regulated ABA synthesis in ovaries after GA(3) treatment, and PbNCED13 positively regulated ABA synthesis in the ovaries after PP(333) treatment. This study was the first genome-wide report of the pear NCED gene family, which could improve our understanding of pear NCED proteins and provide a solid foundation for future cloning and functional analyses of this gene family. Meanwhile, our results also give a better understanding of the important genes and regulation pathways related to calyx abscission in ‘Kuerle Xiangli’. |
format | Online Article Text |
id | pubmed-10144387 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | MDPI |
record_format | MEDLINE/PubMed |
spelling | pubmed-101443872023-04-29 Genome-Wide Identification and Expression Analysis of NCED Gene Family in Pear and Its Response to Exogenous Gibberellin and Paclobutrazol Liu, Jinming Yuan, Xing Quan, Shaowen Zhang, Meng Kang, Chao Guo, Caihua Zhang, Zhongrong Niu, Jianxin Int J Mol Sci Article The 9-cis-epoxycarotenoid dioxygenase (NCED) is a key enzyme for the process of ABA synthesis that plays key roles in a variety of biological processes. In the current investigation, genome-wide identification and comprehensive analysis of the NCED gene family in ‘Kuerle Xiangli’ (Pyrus sinkiangensis Yu) were conducted using the pear genomic sequence. In total, nineteen members of PbNCED genes were identified from the whole genome of pear, which are not evenly distributed over the scaffolds, and most of which were focussed in the chloroplasts. Sequence analysis of promoters showed many cis-regulatory elements, which presumably responded to phytohormones such as abscisic acid, auxin, etc. Synteny block indicated that the PbNCED genes have experienced strong purifying selection. Multiple sequence alignment demonstrated that these members are highly similar and conserved. In addition, we found that PbNCED genes were differentially expressed in various tissues, and three PbNCED genes (PbNCED1, PbNCED2, and PbNCED13) were differentially expressed in response to exogenous Gibberellin (GA(3)) and Paclobutrazol (PP(333)). PbNCED1 and PbNCED13 positively promote ABA synthesis in sepals after GA(3) and PP(333) treatment, whereas PbNCED2 positively regulated ABA synthesis in ovaries after GA(3) treatment, and PbNCED13 positively regulated ABA synthesis in the ovaries after PP(333) treatment. This study was the first genome-wide report of the pear NCED gene family, which could improve our understanding of pear NCED proteins and provide a solid foundation for future cloning and functional analyses of this gene family. Meanwhile, our results also give a better understanding of the important genes and regulation pathways related to calyx abscission in ‘Kuerle Xiangli’. MDPI 2023-04-20 /pmc/articles/PMC10144387/ /pubmed/37108747 http://dx.doi.org/10.3390/ijms24087566 Text en © 2023 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/). |
spellingShingle | Article Liu, Jinming Yuan, Xing Quan, Shaowen Zhang, Meng Kang, Chao Guo, Caihua Zhang, Zhongrong Niu, Jianxin Genome-Wide Identification and Expression Analysis of NCED Gene Family in Pear and Its Response to Exogenous Gibberellin and Paclobutrazol |
title | Genome-Wide Identification and Expression Analysis of NCED Gene Family in Pear and Its Response to Exogenous Gibberellin and Paclobutrazol |
title_full | Genome-Wide Identification and Expression Analysis of NCED Gene Family in Pear and Its Response to Exogenous Gibberellin and Paclobutrazol |
title_fullStr | Genome-Wide Identification and Expression Analysis of NCED Gene Family in Pear and Its Response to Exogenous Gibberellin and Paclobutrazol |
title_full_unstemmed | Genome-Wide Identification and Expression Analysis of NCED Gene Family in Pear and Its Response to Exogenous Gibberellin and Paclobutrazol |
title_short | Genome-Wide Identification and Expression Analysis of NCED Gene Family in Pear and Its Response to Exogenous Gibberellin and Paclobutrazol |
title_sort | genome-wide identification and expression analysis of nced gene family in pear and its response to exogenous gibberellin and paclobutrazol |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10144387/ https://www.ncbi.nlm.nih.gov/pubmed/37108747 http://dx.doi.org/10.3390/ijms24087566 |
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