Identification and Characterization of Downy Mildew-Responsive microRNAs in Indian <i>Vitis vinifera</i> by High-Throughput Sequencing

Downy mildew (DM) is one of the most devastating diseases disturbing viticulture, mainly during temperate and humid climates. The DM pathogen can attack grapevine leaves and berries differentially, and the disease is managed with recurring applications of fungicides that direct pathogen pressure, de...

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Autores principales:	Milan V. Kamble, Abhishek B. Shahapurkar, Shivakantkumar Adhikari, Nagaraja Geetha, Asad Syed, Bilal Ahmed, Sudisha Jogaiah
Formato:	article
Lenguaje:	EN
Publicado:	MDPI AG 2021
Materias:	grapevine <i>Vitis vinifera</i> downy mildew <i>Plasmopara viticola</i> microRNA qRT-PCR Biology (General) QH301-705.5
Acceso en línea:	https://doaj.org/article/5ceb4d20259f457394fe6230d26a3f32
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spelling	oai:doaj.org-article:5ceb4d20259f457394fe6230d26a3f322021-11-25T18:05:33ZIdentification and Characterization of Downy Mildew-Responsive microRNAs in Indian <i>Vitis vinifera</i> by High-Throughput Sequencing10.3390/jof71108992309-608Xhttps://doaj.org/article/5ceb4d20259f457394fe6230d26a3f322021-10-01T00:00:00Zhttps://www.mdpi.com/2309-608X/7/11/899https://doaj.org/toc/2309-608XDowny mildew (DM) is one of the most devastating diseases disturbing viticulture, mainly during temperate and humid climates. The DM pathogen can attack grapevine leaves and berries differentially, and the disease is managed with recurring applications of fungicides that direct pathogen pressure, develop of resistant strains, and lead to residual soil toxicity and increased pollution effects. Plant microRNAs (miRNAs) are important candidates in physiological regulatory roles in response to biotic stress in plants. In this study, high-throughput sequencing and MiRDeep-P were employed to identify miRNAs in <i>Vitis vinifera</i>. Altogether, 22,492,910, 25,476,471, and 22,448,438 clean reads from the sterile distilled water (SDW)-control, bio-pesticide <i>Trichoderma harzianum</i> (TriH_JSB36)-treated, and downy mildew <i>Plasmopara viticola</i> pathogen libraries, respectively, were obtained. On the basis of the sequencing results and analysis (differential expression analysis), we observed significant differences in 15 miRNAs (5 novel upregulated, and 10 known downregulated) in the pathogen-infected sample (Test) in comparison to the SDW-control sample, with majority of the reads beingin the range of 20–24 bp. This study involves the identification and characterization of vvi-miRNAs that are involved in resistance against downy mildew disease in grapes.Milan V. KambleAbhishek B. ShahapurkarShivakantkumar AdhikariNagaraja GeethaAsad SyedBilal AhmedSudisha JogaiahMDPI AGarticlegrapevine<i>Vitis vinifera</i>downy mildew<i>Plasmopara viticola</i>microRNAqRT-PCRBiology (General)QH301-705.5ENJournal of Fungi, Vol 7, Iss 899, p 899 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	grapevine <i>Vitis vinifera</i> downy mildew <i>Plasmopara viticola</i> microRNA qRT-PCR Biology (General) QH301-705.5
spellingShingle	grapevine <i>Vitis vinifera</i> downy mildew <i>Plasmopara viticola</i> microRNA qRT-PCR Biology (General) QH301-705.5 Milan V. Kamble Abhishek B. Shahapurkar Shivakantkumar Adhikari Nagaraja Geetha Asad Syed Bilal Ahmed Sudisha Jogaiah Identification and Characterization of Downy Mildew-Responsive microRNAs in Indian <i>Vitis vinifera</i> by High-Throughput Sequencing
description	Downy mildew (DM) is one of the most devastating diseases disturbing viticulture, mainly during temperate and humid climates. The DM pathogen can attack grapevine leaves and berries differentially, and the disease is managed with recurring applications of fungicides that direct pathogen pressure, develop of resistant strains, and lead to residual soil toxicity and increased pollution effects. Plant microRNAs (miRNAs) are important candidates in physiological regulatory roles in response to biotic stress in plants. In this study, high-throughput sequencing and MiRDeep-P were employed to identify miRNAs in <i>Vitis vinifera</i>. Altogether, 22,492,910, 25,476,471, and 22,448,438 clean reads from the sterile distilled water (SDW)-control, bio-pesticide <i>Trichoderma harzianum</i> (TriH_JSB36)-treated, and downy mildew <i>Plasmopara viticola</i> pathogen libraries, respectively, were obtained. On the basis of the sequencing results and analysis (differential expression analysis), we observed significant differences in 15 miRNAs (5 novel upregulated, and 10 known downregulated) in the pathogen-infected sample (Test) in comparison to the SDW-control sample, with majority of the reads beingin the range of 20–24 bp. This study involves the identification and characterization of vvi-miRNAs that are involved in resistance against downy mildew disease in grapes.
format	article
author	Milan V. Kamble Abhishek B. Shahapurkar Shivakantkumar Adhikari Nagaraja Geetha Asad Syed Bilal Ahmed Sudisha Jogaiah
author_facet	Milan V. Kamble Abhishek B. Shahapurkar Shivakantkumar Adhikari Nagaraja Geetha Asad Syed Bilal Ahmed Sudisha Jogaiah
author_sort	Milan V. Kamble
title	Identification and Characterization of Downy Mildew-Responsive microRNAs in Indian <i>Vitis vinifera</i> by High-Throughput Sequencing
title_short	Identification and Characterization of Downy Mildew-Responsive microRNAs in Indian <i>Vitis vinifera</i> by High-Throughput Sequencing
title_full	Identification and Characterization of Downy Mildew-Responsive microRNAs in Indian <i>Vitis vinifera</i> by High-Throughput Sequencing
title_fullStr	Identification and Characterization of Downy Mildew-Responsive microRNAs in Indian <i>Vitis vinifera</i> by High-Throughput Sequencing
title_full_unstemmed	Identification and Characterization of Downy Mildew-Responsive microRNAs in Indian <i>Vitis vinifera</i> by High-Throughput Sequencing
title_sort	identification and characterization of downy mildew-responsive micrornas in indian <i>vitis vinifera</i> by high-throughput sequencing
publisher	MDPI AG
publishDate	2021
url	https://doaj.org/article/5ceb4d20259f457394fe6230d26a3f32
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Identification and Characterization of Downy Mildew-Responsive microRNAs in Indian <i>Vitis vinifera</i> by High-Throughput Sequencing

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