Genome-wide identification of microRNAs in response to low nitrate availability in maize leaves and roots.

<h4>Background</h4>Nitrate is the major source of nitrogen available for many crop plants and is often the limiting factor for plant growth and agricultural productivity especially for maize. Many studies have been done identifying the transcriptome changes under low nitrate conditions....

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Autores principales:	Zhenhua Xu, Sihui Zhong, Xinhai Li, Wenxue Li, Steven J Rothstein, Shihuang Zhang, Yongmei Bi, Chuanxiao Xie
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2011
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/634cf5144d9749d9885738389738c889
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spelling	oai:doaj.org-article:634cf5144d9749d9885738389738c8892021-11-18T07:33:37ZGenome-wide identification of microRNAs in response to low nitrate availability in maize leaves and roots.1932-620310.1371/journal.pone.0028009https://doaj.org/article/634cf5144d9749d9885738389738c8892011-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/22132192/?tool=EBIhttps://doaj.org/toc/1932-6203<h4>Background</h4>Nitrate is the major source of nitrogen available for many crop plants and is often the limiting factor for plant growth and agricultural productivity especially for maize. Many studies have been done identifying the transcriptome changes under low nitrate conditions. However, the microRNAs (miRNAs) varied under nitrate limiting conditions in maize has not been reported. MiRNAs play important roles in abiotic stress responses and nutrient deprivation.<h4>Methodology/principal findings</h4>In this study, we used the SmartArray™ and GeneChip® microarray systems to perform a genome-wide search to detect miRNAs responding to the chronic and transient nitrate limiting conditions in maize. Nine miRNA families (miR164, miR169, miR172, miR397, miR398, miR399, miR408, miR528, and miR827) were identified in leaves, and nine miRNA families (miR160, miR167, miR168, miR169, miR319, miR395, miR399, miR408, and miR528) identified in roots. They were verified by real time stem loop RT-PCR, and some with additional time points of nitrate limitation. The miRNAs identified showed overlapping or unique responses to chronic and transient nitrate limitation, as well as tissue specificity. The potential target genes of these miRNAs in maize were identified. The expression of some of these was examined by qRT-PCR. The potential function of these miRNAs in responding to nitrate limitation is described.<h4>Conclusions/significance</h4>Genome-wide miRNAs responding to nitrate limiting conditions in maize leaves and roots were identified. This provides an insight into the timing and tissue specificity of the transcriptional regulation to low nitrate availability in maize. The knowledge gained will help understand the important roles miRNAs play in maize responding to a nitrogen limiting environment and eventually develop strategies for the improvement of maize genetics.Zhenhua XuSihui ZhongXinhai LiWenxue LiSteven J RothsteinShihuang ZhangYongmei BiChuanxiao XiePublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 6, Iss 11, p e28009 (2011)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Zhenhua Xu Sihui Zhong Xinhai Li Wenxue Li Steven J Rothstein Shihuang Zhang Yongmei Bi Chuanxiao Xie Genome-wide identification of microRNAs in response to low nitrate availability in maize leaves and roots.
description	<h4>Background</h4>Nitrate is the major source of nitrogen available for many crop plants and is often the limiting factor for plant growth and agricultural productivity especially for maize. Many studies have been done identifying the transcriptome changes under low nitrate conditions. However, the microRNAs (miRNAs) varied under nitrate limiting conditions in maize has not been reported. MiRNAs play important roles in abiotic stress responses and nutrient deprivation.<h4>Methodology/principal findings</h4>In this study, we used the SmartArray™ and GeneChip® microarray systems to perform a genome-wide search to detect miRNAs responding to the chronic and transient nitrate limiting conditions in maize. Nine miRNA families (miR164, miR169, miR172, miR397, miR398, miR399, miR408, miR528, and miR827) were identified in leaves, and nine miRNA families (miR160, miR167, miR168, miR169, miR319, miR395, miR399, miR408, and miR528) identified in roots. They were verified by real time stem loop RT-PCR, and some with additional time points of nitrate limitation. The miRNAs identified showed overlapping or unique responses to chronic and transient nitrate limitation, as well as tissue specificity. The potential target genes of these miRNAs in maize were identified. The expression of some of these was examined by qRT-PCR. The potential function of these miRNAs in responding to nitrate limitation is described.<h4>Conclusions/significance</h4>Genome-wide miRNAs responding to nitrate limiting conditions in maize leaves and roots were identified. This provides an insight into the timing and tissue specificity of the transcriptional regulation to low nitrate availability in maize. The knowledge gained will help understand the important roles miRNAs play in maize responding to a nitrogen limiting environment and eventually develop strategies for the improvement of maize genetics.
format	article
author	Zhenhua Xu Sihui Zhong Xinhai Li Wenxue Li Steven J Rothstein Shihuang Zhang Yongmei Bi Chuanxiao Xie
author_facet	Zhenhua Xu Sihui Zhong Xinhai Li Wenxue Li Steven J Rothstein Shihuang Zhang Yongmei Bi Chuanxiao Xie
author_sort	Zhenhua Xu
title	Genome-wide identification of microRNAs in response to low nitrate availability in maize leaves and roots.
title_short	Genome-wide identification of microRNAs in response to low nitrate availability in maize leaves and roots.
title_full	Genome-wide identification of microRNAs in response to low nitrate availability in maize leaves and roots.
title_fullStr	Genome-wide identification of microRNAs in response to low nitrate availability in maize leaves and roots.
title_full_unstemmed	Genome-wide identification of microRNAs in response to low nitrate availability in maize leaves and roots.
title_sort	genome-wide identification of micrornas in response to low nitrate availability in maize leaves and roots.
publisher	Public Library of Science (PLoS)
publishDate	2011
url	https://doaj.org/article/634cf5144d9749d9885738389738c889
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Genome-wide identification of microRNAs in response to low nitrate availability in maize leaves and roots.

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