Genome-wide transcriptome analysis of expression in rice seedling roots in response to supplemental nitrogen.

Autor: Chandran AK; Graduate School of Biotechnology & Crop Biotech Institute, Kyung Hee University, Yongin 17104, Republic of Korea., Priatama RA; Division of Applied Life Science (BK21 Plus Program), Plant Molecular Biology & Biotechnology Research Center (PMBBRC), Gyeongsang National University, Jinju 52828, Republic of Korea., Kumar V; Division of Applied Life Science (BK21 Plus Program), Plant Molecular Biology & Biotechnology Research Center (PMBBRC), Gyeongsang National University, Jinju 52828, Republic of Korea., Xuan Y; College of Plant Protection, Shengyang Agricultural University, Dongling Road 120, Shengyang 110866, China., Je BI; Division of Applied Life Science (BK21 Plus Program), Plant Molecular Biology & Biotechnology Research Center (PMBBRC), Gyeongsang National University, Jinju 52828, Republic of Korea., Kim CM; Division of Applied Life Science (BK21 Plus Program), Plant Molecular Biology & Biotechnology Research Center (PMBBRC), Gyeongsang National University, Jinju 52828, Republic of Korea., Jung KH; Graduate School of Biotechnology & Crop Biotech Institute, Kyung Hee University, Yongin 17104, Republic of Korea. Electronic address: khjung2010@khu.ac.kr., Han CD; Division of Applied Life Science (BK21 Plus Program), Plant Molecular Biology & Biotechnology Research Center (PMBBRC), Gyeongsang National University, Jinju 52828, Republic of Korea. Electronic address: cdhan@gsnu.ac.kr.
Jazyk: angličtina
Zdroj: Journal of plant physiology [J Plant Physiol] 2016 Aug 01; Vol. 200, pp. 62-75. Date of Electronic Publication: 2016 Jun 15.
DOI: 10.1016/j.jplph.2016.06.005
Abstrakt: Nitrogen (N) is the most important macronutrient for plant growth and grain yields. For rice crops, nitrate and ammonium are the major N sources. To explore the genomic responses to ammonium supplements in rice roots, we used 17-day-old seedlings grown in the absence of external N that were then exposed to 0.5mM (NH4)2SO4 for 3h. Transcriptomic profiles were examined by microarray experiments. In all, 634 genes were up-regulated at least two-fold by the N-supplement when compared with expression in roots from untreated control plants. Gene Ontology (GO) enrichment analysis revealed that those upregulated genes are associated with 23 GO terms. Among them, metabolic processes for diverse amino acids (i.e., aspartate, threonine, tryptophan, glutamine, l-phenylalanine, and thiamin) as well as nitrogen compounds are highly over-represented, demonstrating that our selected genes are suitable for studying the N-response in roots. This enrichment analysis also indicated that nitrogen is closely linked to diverse transporter activities by primary metabolites, including proteins (amino acids), lipids, and carbohydrates, and is associated with carbohydrate catabolism and cell wall organization. Integration of results from omics analysis of metabolic pathways and transcriptome data using the MapMan tool suggested that the TCA cycle and pathway for mitochondrial electron transport are co-regulated when rice roots are exposed to ammonium. We also investigated the expression of N-responsive marker genes by performing a comparative analysis with root samples from plants grown under different NH4(+) treatments. The diverse responses to such treatment provide useful insight into the global changes related to the shift from an N-deficiency to an enhanced N-supply in rice, a model crop plant.
(Copyright © 2016 Elsevier GmbH. All rights reserved.)
Databáze: MEDLINE
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