Project description:In order to investigate the gene expression profile related to rice internode growth under different nitrogen management practices, Agilent two color microarray chips were used to profile the differentially expressed genes of rice first internode between two nitrogen management. A rice cultivars Yin-Jing-Ruan-Zhan was used as material. First basal internode of YJRZ was taken at 30 days after transplanting, and RNA was extracted for microarray assay. Materials from OPT were label by Cy5 and FFP by Cy3.
Project description:In the present investigation, the genetic diversity architecture of 96 deep-water rice genotypes of Assam and association mapping strategy was, for the first time, applied to determine the significant SNPsand genes for deep-water rice. These genotypes are known for their unique elongation ability under deep-water condition.The internode elongation under water related genes will be identified here can provide affluent resources for rice breeding especially in flood-prone areas. We investigated the genome-wide association studies (GWAS) using 50 K rice genic SNPchip across 96 deep-water rice genotypes collected from different flood-prone districts/villages of Assam.
Project description:miR396 is a key growth regulator in plants, however, the molecular mechanisms underlying its functions remained to be revealed. Here, through systematically gene-editing, we found that among the MIR396 family genes, MIR396e and -f were the main regulators of rice growth. mir396ef mutations could increase the grain yield through significantly enlarging the grain size. In addition, mir396ef mutations promoted the seedling growth and modulated the plant architecture by promoting the elongations of leaves (including leaf blades and sheaths) and panicles but suppressing the elongation of internodes, especially the uppermost internode. Our research reveals that mir396ef mutations promote the growth and organ elongation by significantly increasing the level of the gibberellin (GA) precursor, mevalonic acid (MVA), which subsequently activates the GA pathway. Our results also indicate that miR396 regulates the internode elongation through a different mechanism (probably through controlling SD37 expression) from the GA pathway. These results reveal two pathways by which miR396 regulates rice growth and provide valuable gene-editing targets to increase rice productivity.
Project description:Microarray based expression study in two rice contrasting genotypes under low nitrogen hydroponics condition microarray revealed upregulated transporter genes for nitrogen uptake in shoot tissues
Project description:Nitrogen (N) are pivotal element for proper plant growth and development. We performed microarray analysis of rice shoot under nitrogen deficiency (-N) to obtain a global view of gene regulations associated with plant response to -N.
Project description:Sugarcane cultivation is a vital component of the agricultural economy in southern China. Investigating internode development in sugarcane is crucial for optimizing cultivation management practices and improving cane yield. In this study, we performed an integrated analysis of the transcriptome and proteome to identify key molecular components and elucidate biological pathways involved in the internode development in sugarcane. Accordingly, exogenous gibberellin (GA) predominantly promoted internodal elongation, rather than nodal expansion. Following transcriptome and proteome sequencing, 3D principal component analysis (PCA) based on both datasets revealed a clear separation between the GA-treated and control groups.
Project description:Nitrogen (N) and phosphorus (P) are pivotal element for proper plant growth and development. We performed microarray analysis of rice shoot and root after nitrogen deficiency (-N) treatment under phosphorus deficiency (-P) condition to obtain a global view of gene regulations associated with plant response to -N under -P condition.
Project description:In order to understand the mechanisms of Nitrogen induced susceptibility (NIS) we’ve conducted a dual RNAseq experiment on rice infected tissues by Magnaporthe oryzae. At 0 day post inoculation and 2 days post inoculation tissues have been collected on mock inoculated and M. oryzae inoculated plants. Rice were conducted under two type of nitrogen fertilization: 0N all fertilization but nitrogen, 1N all fertilization and NH4NO3. The fertilization was applied one day before inoculation. RNAseq was conducted both on rice and fungal RNA.
Project description:Low oxygen tensions are often encountered in flooded soils of rice fields by root-associated, strictly respiratory, beta proteobacterium, Azoarcus sp. BH72 which fixes nitrogen only under microaerobic condition. In this study, genome wide oligonucleotide microarrays were used compare the global transcription profile of Azoarcus sp. BH72 under microaerobic condition with cells grown under aerobic condition, both with ammonia as sole nitrogen source. The outcome of this study will provide a better insight about the establishment of this endophyte in the microaerobic environment, probably prevailing inside of the rice root niche .
Project description:Plant hormones interact with each other and regulate gene expression to control plant growth and development. To understand the complex network, accumulation of comprehensive and integrative data of gene expression and hormone concentration is important. Using microarray, global gene expression profile was analyzed to compare with plant hormone concentration in 14 parts of rice at reproductive stage. The microarray data are used to construct public rice hormonome-transcriptome database UniVIO (http://univio.psc.riken.jp/). We analyzed flower, panicle branch,internode I, node I and II, and some leaves of rice plant at the heading satage. Total 35 samples were analyzed in this experiment.
