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Genome-Wide Analysis of the YABBY Transcription Factor Family in Pineapple and Functional Identification of AcYABBY4 Involvement in Salt Stress

The plant-specific transcription factor gene family, YABBY, belongs to the subfamily of zinc finger protein superfamily and plays an essential regulatory role in lateral organ development. In this study, nine YABBY genes were identified in the pineapple genome. Seven of them were located on seven di...

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Autores principales: Li, Zeyun, Li, Gang, Cai, Mingxing, Priyadarshani, Samaranayaka V.G.N., Aslam, Mohammad, Zhou, Qiao, Huang, Xiaoyi, Wang, Xiaomei, Liu, Yeqiang, Qin, Yuan
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6929212/
https://www.ncbi.nlm.nih.gov/pubmed/31766732
http://dx.doi.org/10.3390/ijms20235863
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author Li, Zeyun
Li, Gang
Cai, Mingxing
Priyadarshani, Samaranayaka V.G.N.
Aslam, Mohammad
Zhou, Qiao
Huang, Xiaoyi
Wang, Xiaomei
Liu, Yeqiang
Qin, Yuan
author_facet Li, Zeyun
Li, Gang
Cai, Mingxing
Priyadarshani, Samaranayaka V.G.N.
Aslam, Mohammad
Zhou, Qiao
Huang, Xiaoyi
Wang, Xiaomei
Liu, Yeqiang
Qin, Yuan
author_sort Li, Zeyun
collection PubMed
description The plant-specific transcription factor gene family, YABBY, belongs to the subfamily of zinc finger protein superfamily and plays an essential regulatory role in lateral organ development. In this study, nine YABBY genes were identified in the pineapple genome. Seven of them were located on seven different chromosomes and the remaining two were located on scaffold 1235. Through protein structure prediction and protein multiple sequence alignment, we found that AcYABBY3, AcYABBY5 and AcYABBY7 lack a C2 structure in their N-terminal C2C2 zinc finger protein structure. Analysis of the cis-acting element indicated that all the seven pineapple YABBY genes contain multiple MYB and MYC elements. Further, the expression patterns analysis using the RNA-seq data of different pineapple tissues indicated that different AcYABBYs are preferentially expressed in various tissues. RT-qPCR showed that the expression of AcYABBY2, AcYABBY3, AcYABBY6 and AcYABBY7 were highly sensitive to abiotic stresses. Subcellular localization in pineapple protoplasts, tobacco leaves and Arabidopsis roots showed that all the seven pineapple YABBY proteins were nucleus localized. Overexpression of AcYABBY4 in Arabidopsis resulted in short root under NaCl treatment, indicating a negative regulatory role of AcYABBY4 in plant resistance to salt stress. This study provides valuable information for the classification of pineapple AcYABBY genes and established a basis for further research on the functions of AcYABBY proteins in plant development and environmental stress response.
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spelling pubmed-69292122019-12-26 Genome-Wide Analysis of the YABBY Transcription Factor Family in Pineapple and Functional Identification of AcYABBY4 Involvement in Salt Stress Li, Zeyun Li, Gang Cai, Mingxing Priyadarshani, Samaranayaka V.G.N. Aslam, Mohammad Zhou, Qiao Huang, Xiaoyi Wang, Xiaomei Liu, Yeqiang Qin, Yuan Int J Mol Sci Article The plant-specific transcription factor gene family, YABBY, belongs to the subfamily of zinc finger protein superfamily and plays an essential regulatory role in lateral organ development. In this study, nine YABBY genes were identified in the pineapple genome. Seven of them were located on seven different chromosomes and the remaining two were located on scaffold 1235. Through protein structure prediction and protein multiple sequence alignment, we found that AcYABBY3, AcYABBY5 and AcYABBY7 lack a C2 structure in their N-terminal C2C2 zinc finger protein structure. Analysis of the cis-acting element indicated that all the seven pineapple YABBY genes contain multiple MYB and MYC elements. Further, the expression patterns analysis using the RNA-seq data of different pineapple tissues indicated that different AcYABBYs are preferentially expressed in various tissues. RT-qPCR showed that the expression of AcYABBY2, AcYABBY3, AcYABBY6 and AcYABBY7 were highly sensitive to abiotic stresses. Subcellular localization in pineapple protoplasts, tobacco leaves and Arabidopsis roots showed that all the seven pineapple YABBY proteins were nucleus localized. Overexpression of AcYABBY4 in Arabidopsis resulted in short root under NaCl treatment, indicating a negative regulatory role of AcYABBY4 in plant resistance to salt stress. This study provides valuable information for the classification of pineapple AcYABBY genes and established a basis for further research on the functions of AcYABBY proteins in plant development and environmental stress response. MDPI 2019-11-22 /pmc/articles/PMC6929212/ /pubmed/31766732 http://dx.doi.org/10.3390/ijms20235863 Text en © 2019 by the authors. 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 (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Li, Zeyun
Li, Gang
Cai, Mingxing
Priyadarshani, Samaranayaka V.G.N.
Aslam, Mohammad
Zhou, Qiao
Huang, Xiaoyi
Wang, Xiaomei
Liu, Yeqiang
Qin, Yuan
Genome-Wide Analysis of the YABBY Transcription Factor Family in Pineapple and Functional Identification of AcYABBY4 Involvement in Salt Stress
title Genome-Wide Analysis of the YABBY Transcription Factor Family in Pineapple and Functional Identification of AcYABBY4 Involvement in Salt Stress
title_full Genome-Wide Analysis of the YABBY Transcription Factor Family in Pineapple and Functional Identification of AcYABBY4 Involvement in Salt Stress
title_fullStr Genome-Wide Analysis of the YABBY Transcription Factor Family in Pineapple and Functional Identification of AcYABBY4 Involvement in Salt Stress
title_full_unstemmed Genome-Wide Analysis of the YABBY Transcription Factor Family in Pineapple and Functional Identification of AcYABBY4 Involvement in Salt Stress
title_short Genome-Wide Analysis of the YABBY Transcription Factor Family in Pineapple and Functional Identification of AcYABBY4 Involvement in Salt Stress
title_sort genome-wide analysis of the yabby transcription factor family in pineapple and functional identification of acyabby4 involvement in salt stress
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6929212/
https://www.ncbi.nlm.nih.gov/pubmed/31766732
http://dx.doi.org/10.3390/ijms20235863
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