Molecular Regulatory Networks for Improving Nitrogen Use Efficiency in Rice.
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ABSTRACT:
SUBMITTER: Hou M
PROVIDER: S-EPMC8396546 | biostudies-literature |
REPOSITORIES: biostudies-literature
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Project description:Nitrogen is an essential nutrient for plants, but crop plants are inefficient in the acquisition and utilization of applied nitrogen. This often results in producers over applying nitrogen fertilizers, which can negatively impact the environment. The development of crop plants with more efficient nitrogen usage is, therefore, an important research goal in achieving greater agricultural sustainability. We utilized genetically modified rice lines over-expressing a barley alanine aminotransferase (HvAlaAT) to help characterize pathways which lead to more efficient use of nitrogen. Under the control of a stress-inducible promoter OsAnt1, OsAnt1:HvAlaAT lines have increased above-ground biomass with little change to both nitrate and ammonium uptake rates. Based on metabolic profiles, carbon metabolites, particularly those involved in glycolysis and the tricarboxylic acid (TCA) cycle, were significantly altered in roots of OsAnt1:HvAlaAT lines, suggesting higher metabolic turnover. Moreover, transcriptomic data revealed that genes involved in glycolysis and TCA cycle were upregulated. These observations suggest that higher activity of these two processes could result in higher energy production, driving higher nitrogen assimilation, consequently increasing biomass production. Other potential mechanisms contributing to a nitrogen-use efficient phenotype include involvements of phytohormonal responses and an alteration in secondary metabolism. We also conducted basic growth studies to evaluate the effect of the OsAnt1:HvAlaAT transgene in barley and wheat, which the transgenic crop plants increased seed production under controlled environmental conditions. This study provides comprehensive profiling of genetic and metabolic responses to the over-expression of AlaAT and unravels several components and pathways which contribute to its nitrogen-use efficient phenotype.
| S-EPMC7875890 | biostudies-literature
Project description:gnp3-b4_nitrogen_starvation - nitrogen starvation and re-supply - What are the transcriptomic short- and long-term plant responses to nitrogen starvation and nitrogen re-supply? - WS Arabidopsis ecotype were grown on 6mM nitrate as sole nitrogen source during 35 days under short days . At T0, plants were then starved for nitrate for 10 days and root and shoot samples were harvested separately 2 and 10 days after treatment (T2, T10). Then, nitrate (6 mM) was re-supplied for 1 and 24 hours (T+1, T+24). Keywords: time course
2007-06-20 | GSE8031 | GEO
Project description:BackgroundExcessive nitrogen (N) application rate with low N use efficiency (NUE) caused a considerable amount of N losses, especially ammonia volatilization (AV). Proper N fertilizer reduction (RN) could significantly reduce AV. However, continuous RN led to a nutrient deficiency in the soil and therefore negatively impacted the NUE and rice yield. Paddy Azolla, a good green manure, is considered as a promising measure to decrease AV and improve NUE and grain yield of rice. However, there is limited information on the integrated effects of RN and Azolla cover on the AV, NUE, and rice yield, especially in the highly fertilized rice-growing systems.MethodsThe experiment was conducted including eight treatments: the control (without N fertilizer and Azolla cover), Azolla cover without N fertilizer (A), farmer's N application rate (FN), FN + Azolla cover (FNA), 15% RN from FN (RN15), RN15 + Azolla cover (RN15A). 30% RN from FN (RN30), RN30 + Azolla cover (RN30A). The integrated effects of N fertilizer reduction and Azolla cover on AV, NUE, and rice grain was evaluated.ResultsRN15A and RN30A substantially reduced total AV by 50.3 and 66.9% compared with FN, respectively, primarily due to the lower surface water ammonia concentrations and pH. RN improved the efficiency of Azolla cover on reducing AV, with 4.1-9.9% higher than for FN. Compared with the FN, RN15A and RN30A enhanced apparent N recovery efficiency (ANRE) by 46.5 and 39.1%, which might be responsible for the lower NH3 emission and the increased total N uptake / total chemical N applied. Furthermore, RN15A and RN30A reduced yield-scaled volatilization by 52.3 and 64.3% than for FN, respectively. Thus, combining 15-30% RN with Azolla cover may be a way to reduce AV and improve ANRE without decreasing rice grain yield.
| S-EPMC7986579 | biostudies-literature
Project description:The genetic basis for nitrogen (N)-response and N use efficiency (NUE) must be found in N-responsive gene expression or protein regulation. Our transcriptomic analysis of nitrate response in two contrasting rice genotypes of Oryza sativa ssp. Indica (Nidhi with low NUE and Panvel1 with high NUE) revealed the processes/functions underlying differential N-response/NUE. The microarray analysis of low nitrate response (1.5 mM) relative to normal nitrate control (15 mM) used potted 21-days old whole plants. It revealed 1,327 differentially expressed genes (DEGs) exclusive to Nidhi and 666 exclusive to Panvel1, apart from 70 common DEGs, of which 10 were either oppositely expressed or regulated to different extents. Gene ontology analyses revealed that photosynthetic processes were among the very few processes common to both the genotypes in low N response. Those unique to Nidhi include cell division, nitrogen utilization, cytoskeleton, etc. in low N-response, whereas those unique to Panvel1 include signal transduction, protein import into the nucleus, and mitochondria. This trend of a few common but mostly unique categories was also true for transporters, transcription factors, microRNAs, and post-translational modifications, indicating their differential involvement in Nidhi and Panvel1. Protein-protein interaction networks constructed using DEG-associated experimentally validated interactors revealed subnetworks involved in cytoskeleton organization, cell wall, etc. in Nidhi, whereas in Panvel1, it was chloroplast development. NUE genes were identified by selecting yield-related genes from N-responsive DEGs and their co-localization on NUE-QTLs revealed the differential distribution of NUE-genes between genotypes but on the same chromosomes 1 and 3. Such hotspots are important for NUE breeders.
| S-EPMC9237547 | biostudies-literature
Project description:Autophagy (self-eating), a conserved pathway in eukaryotes, which is designed to handle cytoplasmic material in bulk and plays an important role in the remobilization of nutrient, such as nitrogen (N) under suboptimal nutrient conditions. Here, we identified a core component of an autophagy gene in rice (Oryza sativa), OsATG8a, with increased expression levels under N starvation conditions. Overexpression of OsATG8a significantly enhanced the level of autophagy and the number of effective tillers in the transgenic rice. In addition, the transgenic lines accumulated more N in grains than in the dry remains and the yield was significantly increased under normal N conditions. Further N allocation studies revealed that the nitrogen uptake efficiency (NUpE) and nitrogen use efficiency (NUE) significantly increased. Otherwise, under suboptimal N conditions, overexpression of OsATG8a did not seem to have any effect on yield and NUE, but NUpE was still improved significantly. Based on our findings, we consider OsATG8a to be a great candidate gene to increase NUE and yield.
| S-EPMC6514234 | biostudies-literature
Project description:Rice is an ideal crop for improvement of nitrogen use efficiency (NUE), especially with urea, its predominant fertilizer. There is a paucity of studies on rice genotypes contrasting for NUE. We compared low urea-responsive transcriptomes of contrasting rice genotypes, namely Nidhi (low NUE) and Panvel1 (high NUE). Transcriptomes of whole plants grown with media containing normal (15 mM) and low urea (1.5 mM) revealed 1497 and 2819 differentially expressed genes (DEGs) in Nidhi and Panvel1, respectively, of which 271 were common. Though 1226 DEGs were genotype-specific in Nidhi and 2548 in Panvel1, there was far higher commonality in underlying processes. High NUE is associated with the urea-responsive regulation of other nutrient transporters, miRNAs, transcription factors (TFs) and better photosynthesis, water use efficiency and post-translational modifications. Many of their genes co-localized to NUE-QTLs on chromosomes 1, 3 and 9. A field evaluation under different doses of urea revealed better agronomic performance including grain yield, transport/uptake efficiencies and NUE of Panvel1. Comparison of our urea-based transcriptomes with our previous nitrate-based transcriptomes revealed many common processes despite large differences in their expression profiles. Our model proposes that differential involvement of transporters and TFs, among others, contributes to better urea uptake, translocation, utilization, flower development and yield for high NUE.
| S-EPMC10093866 | biostudies-literature
Project description:NPI enriched more down-regulation genes involved in starch and sucrose metabolism, phenylpropanoid biosynthesis, amino sugar and nucleotide sugar metabolism, glycolysis/gluconeogenesis pathway, leading to restricted root growth. Three GO terms including channel activity, water transport, and water channel activity caused a high degree of gene enrichment. Thirteen genes related to water absorption and transport such as ZM00001D003006, ZM00001D014285 et al. were highly up-regulated, which might be the key genes for the significant increase in water use efficiency of maize under negative pressure irrigation.
2021-07-22 | GSE180352 | GEO
Project description:Identifying environmental factors that improve plant growth and development under nitrogen (N) constraint is essential for sustainable greenhouse production. In the present study, the role of light intensity and N concentrations on the biomass partitioning and physiology of chrysanthemum was investigated. Four light intensities [75, 150, 300, and 600 µmol m-2 s-1 photosynthetic photon flux density (PPFD)] and three N concentrations (5, 10, and 15 mM N L-1) were used. Vegetative and generative growth traits were improved by increase in PPFD and N concentration. High N supply reduced stomatal size and gs in plants under lowest PPFD. Under low PPFD, the share of biomass allocated to leaves and stem was higher than that of flower and roots while in plants grown under high PPFD, the share of biomass allocated to flower and root outweighed that of allocated to leaves and stem. As well, positive effects of high PPFD on chlorophyll content, photosynthesis, water use efficiency (WUE), Nitrogen use efficiency (NUE) were observed in N-deficient plants. Furthermore, photosynthetic functionality improved by raise in PPFD. In conclusion, high PPFD reduced the adverse effects of N deficiency by improving photosynthesis and stomatal functionality, NUE, WUE, and directing biomass partitioning toward the floral organs.
| S-EPMC9200816 | biostudies-literature
Project description:BackgroundFor cereal crop breeding, it is meaningful to improve utilization efficiency (NUE) under low nitrogen (LN) levels while maintaining crop yield. OsCBL1-knockdown (OsCBL1-KD) plants exhibited increased nitrogen accumulation and NUE in the field of low N level.ResultsOsCBL1-knockdown (OsCBL1-KD) in rice increased the expression of a nitrate transporter gene OsNRT2.2. In addition, the expression of OsNRT2.2, was suppressed by OsCCA1, a negative regulator, which could directly bind to the MYB-binding elements (EE) in the region of OsNRT2.2 promoter. The OsCCA1 expression was found to be down-regulated in OsCBL1-KD plants. At the low Nitrogen (N) level field, the OsCBL1-KD plants exhibited a substantial accumulation of content and higher NUE, and their actual biomass remained approximately as the same as that of the wild type.ConclusionThese results indicated that down-regulation of OsCBL1 expression could upregulate the expression of OsNRT2.2 by suppressing the expression of OsCCA1and then increasing the NUE of OsCBL1-KD plants under low nitrogen availability.
| S-EPMC10583366 | biostudies-literature
Project description:Background and aimsThere is increased evidence that partial nitrate (NO3-) nutrition (PNN) improves growth of rice (Oryza sativa), although the crop prefers ammonium (NH4+) to NO3- nutrition. It is not known whether the response to NO3- supply is related to nitrogen (N) use efficiency (NUE) in rice cultivars. Methods Solution culture experiments were carried out to study the response of two rice cultivars, Nanguang (High-NUE) and Elio (Low-NUE), to partial NO3- supply in terms of dry weight, N accumulation, grain yield, NH4+ uptake and ammonium transporter expression [real-time polymerase chain reaction (PCR)].Key resultsA ratio of 75/25 NH4+ -N/NO3- -N increased dry weight, N accumulation and grain yield of 'Nanguang' by 30, 36 and 21 %, respectively, but no effect was found in 'Elio' when compared with those of 100/0 NH4+ -N/NO3- -N. Uptake experiments with 15N-NH4+ showed that NO3- increased NH4+ uptake efficiency in 'Nanguang' by increasing Vmax (14 %), but there was no effect on Km. This indicated that partial replacement of NH4+ by NO3- could increase the number of the ammonium transporters but did not affect the affinity of the transporters for NH4+. Real-time PCR showed that expression of OsAMT1s in 'Nanguang' was improved by PNN, while that in 'Elio' did not change, which is in accordance with the differing responses of these two cultivars to PNN. Conclusions Increased NUE by PNN can be attributed to improved N uptake. The rice cultivar with a higher NUE has a more positive response to PNN than that with a low NUE, suggesting that there might be a relationship between PNN and NUE.
| S-EPMC3244343 | biostudies-literature