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Moumeni A.,Japan National Institute of Agrobiological Science | Moumeni A.,Rice Research Institute of Iran in Mazandaran | Satoh K.,Japan National Institute of Agrobiological Science | Kondoh H.,Japan National Institute of Agrobiological Science | And 9 more authors.
BMC Plant Biology | Year: 2011

Background: Plant roots are important organs to uptake soil water and nutrients, perceiving and transducing of soil water deficit signals to shoot. The current knowledge of drought stress transcriptomes in rice are mostly relying on comparative studies of diverse genetic background under drought. A more reliable approach is to use near-isogenic lines (NILs) with a common genetic background but contrasting levels of resistance to drought stress under initial exposure to water deficit. Here, we examined two pairs of NILs in IR64 background with contrasting drought tolerance. We obtained gene expression profile in roots of rice NILs under different levels of drought stress help to identify genes and mechanisms involved in drought stress.Results: Global gene expression analysis showed that about 55% of genes differentially expressed in roots of rice in response to drought stress treatments. The number of differentially expressed genes (DEGs) increased in NILs as the level of water deficits, increased from mild to severe condition, suggesting that more genes were affected by increasing drought stress. Gene onthology (GO) test and biological pathway analysis indicated that activated genes in the drought tolerant NILs IR77298-14-1-2-B-10 and IR77298-5-6-B-18 were mostly involved in secondary metabolism, amino acid metabolism, response to stimulus, defence response, transcription and signal transduction, and down-regulated genes were involved in photosynthesis and cell wall growth. We also observed gibberellic acid (GA) and auxin crosstalk modulating lateral root formation in the tolerant NILs.Conclusions: Transcriptome analysis on two pairs of NILs with a common genetic background (~97%) showed distinctive differences in gene expression profiles and could be effective to unravel genes involved in drought tolerance. In comparison with the moderately tolerant NIL IR77298-5-6-B-18 and other susceptible NILs, the tolerant NIL IR77298-14-1-2-B-10 showed a greater number of DEGs for cell growth, hormone biosynthesis, cellular transports, amino acid metabolism, signalling, transcription factors and carbohydrate metabolism in response to drought stress treatments. Thus, different mechanisms are achieving tolerance in the two tolerant lines. © 2011 Moumeni et al; licensee BioMed Central Ltd.

Komatsu S.,Japan National Agriculture and Food Research Organization | Hiraga S.,Japan National Agriculture and Food Research Organization | Nouri M.Z.,Japan National Agriculture and Food Research Organization | Nouri M.Z.,Rice Research Institute of Iran in Mazandaran
Molecular Biology Reports | Year: 2014

Flooding stress has negative impact on soybean cultivation as it severely impairs plant growth and development. To examine whether nuclear function is affected in soybean under flooding stress, abundance of nuclear proteins and their mRNA expression were analyzed. Two-day-old soybean seedlings were treated with flooding for 2 days, and nuclear proteins were purified from root tips. Gel-free proteomics analysis identified a total of 39 flooding-responsive proteins, of which abundance of 8 and 31 was increased and decreased, respectively, in soybean root tips. Among these differentially regulated proteins, the mRNA expression levels of five nuclear-localized proteins were further analyzed. The mRNA levels of four proteins, which are splicing factor PWI domain-containing protein, epsilon2-COP, beta-catenin, and clathrin heavy chain decreased under flooding stress, were also down-regulated. In addition, mRNA level of a receptor for activated protein kinase C1(RACK1) was down-regulated, though its protein was accumulated in the soybean nucleus in response to flooding stress. These results suggest that several nuclear-related proteins are decreased at both the protein and mRNA level in the root tips of soybean under flooding stress. Furthermore, RACK1 might have an important role with accumulation in the soybean nucleus under flooding-stress conditions. © Springer Science+Business Media 2014.

Nuruzzaman M.,Japan National Institute of Agrobiological Science | Sharoni A.M.,Japan National Institute of Agrobiological Science | Satoh K.,Japan National Institute of Agrobiological Science | Moumeni A.,Japan National Institute of Agrobiological Science | And 8 more authors.
Molecular Genetics and Genomics | Year: 2012

The NAC (NAM, ATAF1/2 and CUC2) genes are plant-specific transcriptional factors known to play diverse roles in various plant developmental processes. We describe the rice (Oryza sativa) OsNAC genes expression profiles (GEPs) under normal and water-deficit treatments (WDTs). The GEPs of the OsNAC genes were analyzed in 25 tissues covering the entire life cycle of Minghui 63. High expression levels of 17 genes were demonstrated in certain tissues under normal conditions suggesting that these genes may play important roles in specific organs. We determined that 16 genes were differentially expressed under at least 1 phytohormone (NAA, GA3, KT, SA, ABA, and JA) treatment. To investigate the GEPs in the root, leaf, and panicle of three rice genotypes [e.g., 2 near-isogenic lines (NILs) and IR64], we used two NILs from a common genetic combination backcross developed by Aday Selection and IR64. WDTs were applied using the fraction of transpirable soil water at severe, mild, and control conditions. Transcriptomic analysis using a 44K oligoarray from Agilent was performed on all the tissue samples. We identified common and specific genes in all tissues from the two NILs under both WDTs, and the majority of the OsNAC genes that were activated were in the drought-tolerant IR77298-14-1-2-B-10 line compared with the drought-susceptible IR77298-14-1-2-B-13 or IR64. In IR77298-14-1-2-B-10, seventeen genes were very specific in their expression levels. Approximately 70% of the genes from subgroups SNAC and NAM/CUC3 were activated in the leaf, but 37% genes from subgroup SND were inactivated in the root compared with the control under severe stress conditions. These results provide a useful reference for the cloning of candidate genes from the specific subgroup for further functional analysis. © The Author(s) 2012.

Habibi M.,Islamic Azad University | Nouri M.-Z.,Rice Research Institute of Iran in Mazandaran | Nasiri M.,Rice Research Institute of Iran in Mazandaran | Momeni A.,Rice Research Institute of Iran in Mazandaran
Advances in Environmental Biology | Year: 2014

Foliar application of fertilizers is one of the effective approaches in improving absorption efficiency and reducing losses due to leaching in paddy field. To evaluate the effects of foliar application of nitrogen and potassium on morphological and physiological traits of rice varieties, this study was performed at Rice Research Institute of Iran in Mazandaran. The response of an improved variety, Shiroodi and a local landrace, Hashemi to times and doses of foliar application of nitrogen and potassium were evaluated using split-split plot experimental design. Chlorophyll content was measured in all treatments and dry matter remobilization (DMR) from stem, leaf, flag leaf and whole organ was calculated. Furthermore, the residues of nitrogen, potassium and phosphorous were measured both in rice straw and grain after harvesting. According to the results, chlorophyll content was significantly increased by once or twice foliar application. Results of analysis for DMR rate in organs clearly showed that the DMR from stem and subsequently from whole organ was higher in Shiroodi related to Hashemi. Comparing the dose of foliar application indicated that the highest DMR from the organs was achieved in Shiroodi cultivar using recommended dose. Furthermore, while the DMR in Shiroodi was higher with one time application, it was higher in Hashemi with twice foliar applications. Measuring the macro element residue indicated that while nitrogen and phosphorous content of grains was more than straw in both cultivars, potassium was highly accumulated in rice straw. © 2014 AENSI Publisher All rights reserved.

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