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Transcriptomic Analysis for Indica and Japonica Rice Varieties under Aluminum Toxicity

Aluminum (Al) at high concentrations inhibits root growth, damage root systems, and causes significant reductions in rice yields. Indica and Japonica rice have been cultivated in distinctly different ecological environments with different soil acidity levels; thus, they might have different mechanis...

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Autores principales: Zhang, Peng, Ding, Zhuoran, Zhong, Zhengzheng, Tong, Hanhua
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2019
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6412857/
https://www.ncbi.nlm.nih.gov/pubmed/30823582
http://dx.doi.org/10.3390/ijms20040997
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author Zhang, Peng
Ding, Zhuoran
Zhong, Zhengzheng
Tong, Hanhua
author_facet Zhang, Peng
Ding, Zhuoran
Zhong, Zhengzheng
Tong, Hanhua
author_sort Zhang, Peng
collection PubMed
description Aluminum (Al) at high concentrations inhibits root growth, damage root systems, and causes significant reductions in rice yields. Indica and Japonica rice have been cultivated in distinctly different ecological environments with different soil acidity levels; thus, they might have different mechanisms of Al-tolerance. In the present study, transcriptomic analysis in the root apex for Al-tolerance in the seedling stage was carried out within Al-tolerant and -sensitive varieties belonging to different subpopulations (i.e., Indica, Japonica, and mixed). We found that there were significant differences between the gene expression patterns of Indica Al-tolerant and Japonica Al-tolerant varieties, while the gene expression patterns of the Al-tolerant varieties in the mixed subgroup, which was inclined to Japonica, were similar to the Al-tolerant varieties in Japonica. Moreover, after further GO (gene ontology) and KEGG (Kyoto Encyclopedia of Genes and Genomes) analyses of the transcriptomic data, we found that eight pathways, i.e., “Terpenoid backbone biosynthesis”, “Ribosome”, “Amino sugar and nucleotide sugar metabolism”, “Plant hormone signal transduction”, “TCA cycle”, “Synthesis and degradation of ketone bodies”, and “Butanoate metabolism” were found uniquely for Indica Al-tolerant varieties, while only one pathway (i.e., “Sulfur metabolism”) was found uniquely for Japonica Al-tolerant varieties. For Al-sensitive varieties, one identical pathway was found, both in Indica and Japonica. Three pathways were found uniquely in “Starch and sucrose metabolism”, “Metabolic pathway”, and “Amino sugar and nucleotide sugar metabolism”.
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spelling pubmed-64128572019-04-05 Transcriptomic Analysis for Indica and Japonica Rice Varieties under Aluminum Toxicity Zhang, Peng Ding, Zhuoran Zhong, Zhengzheng Tong, Hanhua Int J Mol Sci Article Aluminum (Al) at high concentrations inhibits root growth, damage root systems, and causes significant reductions in rice yields. Indica and Japonica rice have been cultivated in distinctly different ecological environments with different soil acidity levels; thus, they might have different mechanisms of Al-tolerance. In the present study, transcriptomic analysis in the root apex for Al-tolerance in the seedling stage was carried out within Al-tolerant and -sensitive varieties belonging to different subpopulations (i.e., Indica, Japonica, and mixed). We found that there were significant differences between the gene expression patterns of Indica Al-tolerant and Japonica Al-tolerant varieties, while the gene expression patterns of the Al-tolerant varieties in the mixed subgroup, which was inclined to Japonica, were similar to the Al-tolerant varieties in Japonica. Moreover, after further GO (gene ontology) and KEGG (Kyoto Encyclopedia of Genes and Genomes) analyses of the transcriptomic data, we found that eight pathways, i.e., “Terpenoid backbone biosynthesis”, “Ribosome”, “Amino sugar and nucleotide sugar metabolism”, “Plant hormone signal transduction”, “TCA cycle”, “Synthesis and degradation of ketone bodies”, and “Butanoate metabolism” were found uniquely for Indica Al-tolerant varieties, while only one pathway (i.e., “Sulfur metabolism”) was found uniquely for Japonica Al-tolerant varieties. For Al-sensitive varieties, one identical pathway was found, both in Indica and Japonica. Three pathways were found uniquely in “Starch and sucrose metabolism”, “Metabolic pathway”, and “Amino sugar and nucleotide sugar metabolism”. MDPI 2019-02-25 /pmc/articles/PMC6412857/ /pubmed/30823582 http://dx.doi.org/10.3390/ijms20040997 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
Zhang, Peng
Ding, Zhuoran
Zhong, Zhengzheng
Tong, Hanhua
Transcriptomic Analysis for Indica and Japonica Rice Varieties under Aluminum Toxicity
title Transcriptomic Analysis for Indica and Japonica Rice Varieties under Aluminum Toxicity
title_full Transcriptomic Analysis for Indica and Japonica Rice Varieties under Aluminum Toxicity
title_fullStr Transcriptomic Analysis for Indica and Japonica Rice Varieties under Aluminum Toxicity
title_full_unstemmed Transcriptomic Analysis for Indica and Japonica Rice Varieties under Aluminum Toxicity
title_short Transcriptomic Analysis for Indica and Japonica Rice Varieties under Aluminum Toxicity
title_sort transcriptomic analysis for indica and japonica rice varieties under aluminum toxicity
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6412857/
https://www.ncbi.nlm.nih.gov/pubmed/30823582
http://dx.doi.org/10.3390/ijms20040997
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