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Genome-wide identification of drought-responsive microRNAs in two sets of Malus from interspecific hybrid progenies

Drought stress can negatively impact apple fruit quality and yield. Apple microRNAs (miRNAs) participate in apple tree and fruit development, as well as in biotic stress tolerance; however, it is largely unknown whether these molecules are involved in the drought response. To identify drought-respon...

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Autores principales: Niu, Chundong, Li, Haiyan, Jiang, Lijuan, Yan, Mingjia, Li, Cuiying, Geng, Dali, Xie, Yinpeng, Yan, Yan, Shen, Xiaoxia, Chen, Pengxiang, Dong, Jun, Ma, Fengwang, Guan, Qingmei
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6555824/
https://www.ncbi.nlm.nih.gov/pubmed/31231533
http://dx.doi.org/10.1038/s41438-019-0157-z
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author Niu, Chundong
Li, Haiyan
Jiang, Lijuan
Yan, Mingjia
Li, Cuiying
Geng, Dali
Xie, Yinpeng
Yan, Yan
Shen, Xiaoxia
Chen, Pengxiang
Dong, Jun
Ma, Fengwang
Guan, Qingmei
author_facet Niu, Chundong
Li, Haiyan
Jiang, Lijuan
Yan, Mingjia
Li, Cuiying
Geng, Dali
Xie, Yinpeng
Yan, Yan
Shen, Xiaoxia
Chen, Pengxiang
Dong, Jun
Ma, Fengwang
Guan, Qingmei
author_sort Niu, Chundong
collection PubMed
description Drought stress can negatively impact apple fruit quality and yield. Apple microRNAs (miRNAs) participate in apple tree and fruit development, as well as in biotic stress tolerance; however, it is largely unknown whether these molecules are involved in the drought response. To identify drought-responsive miRNAs in Malus, we first examined the drought stress tolerance of ten F(1) progenies of R3 (M. × domestica) × M. sieversii. We performed Illumina sequencing on pooled total RNA from both drought-tolerant and drought-sensitive plants. The sequencing results identified a total of 206 known miRNAs and 253 candidate novel miRNAs from drought-tolerant plants and drought-sensitive plants under control or drought conditions. We identified 67 miRNAs that were differentially expressed in drought-tolerant plants compared with drought-sensitive plants under drought conditions. Under drought stress, 61 and 35 miRNAs were differentially expressed in drought-tolerant and drought-sensitive plants, respectively. We determined the expression levels of seven out of eight miRNAs by stem-loop qPCR analysis. We also predicted the target genes of all differentially expressed miRNAs and identified the expression of some genes. Gene Ontology analyses indicated that the target genes were mainly involved in stimulus response and cellular and metabolic processes. Finally, we confirmed roles of two miRNAs in apple response to mannitol. Our results reveal candidate miRNAs and their associated mRNAs that could be targeted for improving drought tolerance in Malus species, thus providing a foundation for understanding the molecular networks involved in the response of apple trees to drought stress.
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spelling pubmed-65558242019-06-21 Genome-wide identification of drought-responsive microRNAs in two sets of Malus from interspecific hybrid progenies Niu, Chundong Li, Haiyan Jiang, Lijuan Yan, Mingjia Li, Cuiying Geng, Dali Xie, Yinpeng Yan, Yan Shen, Xiaoxia Chen, Pengxiang Dong, Jun Ma, Fengwang Guan, Qingmei Hortic Res Article Drought stress can negatively impact apple fruit quality and yield. Apple microRNAs (miRNAs) participate in apple tree and fruit development, as well as in biotic stress tolerance; however, it is largely unknown whether these molecules are involved in the drought response. To identify drought-responsive miRNAs in Malus, we first examined the drought stress tolerance of ten F(1) progenies of R3 (M. × domestica) × M. sieversii. We performed Illumina sequencing on pooled total RNA from both drought-tolerant and drought-sensitive plants. The sequencing results identified a total of 206 known miRNAs and 253 candidate novel miRNAs from drought-tolerant plants and drought-sensitive plants under control or drought conditions. We identified 67 miRNAs that were differentially expressed in drought-tolerant plants compared with drought-sensitive plants under drought conditions. Under drought stress, 61 and 35 miRNAs were differentially expressed in drought-tolerant and drought-sensitive plants, respectively. We determined the expression levels of seven out of eight miRNAs by stem-loop qPCR analysis. We also predicted the target genes of all differentially expressed miRNAs and identified the expression of some genes. Gene Ontology analyses indicated that the target genes were mainly involved in stimulus response and cellular and metabolic processes. Finally, we confirmed roles of two miRNAs in apple response to mannitol. Our results reveal candidate miRNAs and their associated mRNAs that could be targeted for improving drought tolerance in Malus species, thus providing a foundation for understanding the molecular networks involved in the response of apple trees to drought stress. Nature Publishing Group UK 2019-06-08 /pmc/articles/PMC6555824/ /pubmed/31231533 http://dx.doi.org/10.1038/s41438-019-0157-z Text en © The Author(s) 2019 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 license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license 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 license, visit http://creativecommons.org/licenses/by/4.0/.
spellingShingle Article
Niu, Chundong
Li, Haiyan
Jiang, Lijuan
Yan, Mingjia
Li, Cuiying
Geng, Dali
Xie, Yinpeng
Yan, Yan
Shen, Xiaoxia
Chen, Pengxiang
Dong, Jun
Ma, Fengwang
Guan, Qingmei
Genome-wide identification of drought-responsive microRNAs in two sets of Malus from interspecific hybrid progenies
title Genome-wide identification of drought-responsive microRNAs in two sets of Malus from interspecific hybrid progenies
title_full Genome-wide identification of drought-responsive microRNAs in two sets of Malus from interspecific hybrid progenies
title_fullStr Genome-wide identification of drought-responsive microRNAs in two sets of Malus from interspecific hybrid progenies
title_full_unstemmed Genome-wide identification of drought-responsive microRNAs in two sets of Malus from interspecific hybrid progenies
title_short Genome-wide identification of drought-responsive microRNAs in two sets of Malus from interspecific hybrid progenies
title_sort genome-wide identification of drought-responsive micrornas in two sets of malus from interspecific hybrid progenies
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6555824/
https://www.ncbi.nlm.nih.gov/pubmed/31231533
http://dx.doi.org/10.1038/s41438-019-0157-z
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