Optimal-Band Analysis for Chlorophyll Quantification in Rice Leaves Using a Custom Hyperspectral Imaging System.

Hyperspectral imaging (HSI) is a promising tool in chlorophyll quantification, providing a non-invasive method to collect important information for effective crop management. HSI contributes to food security solutions by optimising crop yields. In this study, we presented a custom HSI system specifically designed to provide a quantitative analysis of leaf chlorophyll content (LCC). To ensure precise estimation, significant wavelengths were identified using optimal-band analysis. Our research was centred on two sets of 120 leaf samples sourced from Thailand's unique Chaew Khing rice variant. The samples were subjected to (i) an analytical LCC assessment and (ii) HSI imaging for spectral reflectance data capture. A linear regression comparison of these datasets revealed that the green (575 ± 2 nm) and near-infrared (788 ± 2 nm) bands were the most outstanding performers. Notably, the green normalised difference vegetation index (GNDVI) was the most reliable during cross-validation (R2=0.78 and RMSE = 2.4 µg∙cm-2), outperforming other examined vegetable indices (VIs), such as the simple ratio (RED/GREEN) and the chlorophyll index. The potential development of a streamlined sensor dependent only on these two wavelengths is a significant outcome of identifying these two optimal bands. This innovation can be seamlessly integrated into farming landscapes or attached to UAVs, allowing real-time monitoring and rapid, targeted N management interventions.

Optimizing Nitrogen Fertilization to Enhance Productivity and Profitability of Upland Rice Using CSM-CERES-Rice.

Nitrogen (N) deficiency can limit rice productivity, whereas the over- and underapplication of N results in agronomic and economic losses. Process-based crop models are useful tools and could assist in optimizing N management, enhancing the production efficiency and profitability of upland rice production systems. The study evaluated the ability of CSM-CERES-Rice to determine optimal N fertilization rate for different sowing dates of upland rice. Field experimental data from two growing seasons (2018-2019 and 2019-2020) were used to simulate rice responses to four N fertilization rates (N30, N60, N90 and a control-N0) applied under three different sowing windows (SD1, SD2 and SD3). Cultivar coefficients were calibrated with data from N90 under all sowing windows in both seasons and the remaining treatments were used for model validation. Following model validation, simulations were extended up to N240 to identify the sowing date's specific economic optimum N fertilization rate (EONFR). Results indicated that CSM-CERES-Rice performed well both in calibration and validation, in simulating rice performance under different N fertilization rates. The d-index and nRMSE values for grain yield (0.90 and 16%), aboveground dry matter (0.93 and 13%), harvest index (0.86 and 7%), grain N contents (0.95 and 18%), total crop N uptake (0.97 and 15%) and N use efficiencies (0.94-0.97 and 11-15%) during model validation indicated good agreement between simulated and observed data. Extended simulations indicated that upland rice yield was responsive to N fertilization up to 180 kg N ha-1 (N180), where the yield plateau was observed. Fertilization rates of 140, 170 and 130 kg N ha-1 were identified as the EONFR for SD1, SD2 and SD3, respectively, based on the computed profitability, marginal net returns and N utilization. The model results suggested that N fertilization rate should be adjusted for different sowing windows rather than recommending a uniform N rate across sowing windows. In summary, CSM-CERES-Rice can be used as a decision support tool for determining EONFR for seasonal sowing windows to maximize the productivity and profitability of upland rice production.

Recent advancement in OMICS approaches to enhance abiotic stress tolerance in legumes.

The world is facing rapid climate change and a fast-growing global population. It is believed that the world population will be 9.7 billion in 2050. However, recent agriculture production is not enough to feed the current population of 7.9 billion people, which is causing a huge hunger problem. Therefore, feeding the 9.7 billion population in 2050 will be a huge target. Climate change is becoming a huge threat to global agricultural production, and it is expected to become the worst threat to it in the upcoming years. Keeping this in view, it is very important to breed climate-resilient plants. Legumes are considered an important pillar of the agriculture production system and a great source of high-quality protein, minerals, and vitamins. During the last two decades, advancements in OMICs technology revolutionized plant breeding and emerged as a crop-saving tool in wake of the climate change. Various OMICs approaches like Next-Generation sequencing (NGS), Transcriptomics, Proteomics, and Metabolomics have been used in legumes under abiotic stresses. The scientific community successfully utilized these platforms and investigated the Quantitative Trait Loci (QTL), linked markers through genome-wide association studies, and developed KASP markers that can be helpful for the marker-assisted breeding of legumes. Gene-editing techniques have been successfully proven for soybean, cowpea, chickpea, and model legumes such as Medicago truncatula and Lotus japonicus. A number of efforts have been made to perform gene editing in legumes. Moreover, the scientific community did a great job of identifying various genes involved in the metabolic pathways and utilizing the resulted information in the development of climate-resilient legume cultivars at a rapid pace. Keeping in view, this review highlights the contribution of OMICs approaches to abiotic stresses in legumes. We envisage that the presented information will be helpful for the scientific community to develop climate-resilient legume cultivars.

Synchronizing Nitrogen Fertilization and Planting Date to Improve Resource Use Efficiency, Productivity, and Profitability of Upland Rice.

Synchronizing nitrogen (N) fertilization with planting date (PD) could enhance resource use efficiency and profitability of upland rice (Oryza sativa L.) production in Thailand. The objective of the study was to assess upland rice responses to four N fertilization rates (NFRs) and three planting dates. Field experiments were conducted during two growing seasons under four NFRs, no N applied (N0), 30 (N30), 60 (N60), and 90 kg N ha-1 (N90), and NFR were applied at the initiation of tillering and panicle emergence stages. The planting dates selected were early (PD1), intermedium (PD2), and late planting (PD3) between September and December of each season. The NFRs and planting dates had a significant influence on N uptake, N use efficiency (NUE), crop water productivity, yield and yield attributes, and profitability of upland rice production. A linear relationship among NFRs, agronomic traits of upland rice, N uptake, and crop water productivity was observed, and a significant seasonal effect was indicated. Fertilization at N90 under PD2 enhanced yields, yield attributes, and grain yields, as well as crop water productivity by 56 and 105% during the second and first seasons, respectively. Grain N, total N, and straw N were increased by 159, 159, and 160%, and by 90, 114, and 153%, during the first and second seasons, respectively. Enhanced N efficiencies, including agronomic efficiency, recovery efficiency, partial factor productivity, and N harvest index, at varying NFRs were observed under PD2 during both seasons. Highly significant (p < 0.001) and positive associations were observed among agronomic attributes, N uptake, NUE, and crop water productivity of upland rice in correlation assessment. Profitability from grain yields was observed with N fertilization and N90 resulted in maximum profit under all the PDs. However, the highest marginal benefit-cost ratio was observed at N60 under PD2 during both seasons. The results suggest that the NFR of 90 kg N ha-1 and planting at the end of September or start of October would enhance resource use efficiency and productivity, and maximize profitability. Furthermore, long-term field investigations with a range of NFRs and adopting forecasting measures to adjust the planting date for upland rice are recommended.

Integrated biomarker responses of rice associated with grain yield in copper-contaminated soil.

Copper (Cu) contamination in soil is an environmental issue that affects rice growth and development. This study investigated changes in photosynthetic capacities in combination with integrated biomarker responses at different growth stages of rice (Oryza sativa L. var. Hom Bai Toey) exposed to various concentrations of Cu. A randomized complete block design with four replications was used. Exposure to high copper concentrations of 200 Cu mg kg-1 of soil and more resulted in a marked decline in the photosynthetic efficiency of Photosystem II (Phi2) but increased yield of non-photochemical quenching (PhiNPQ) and yield of non-regulatory energy dissipation (PhiNO) at tillering and flowering stages. In addition, these concentrations induced a delay in the flowering of rice, as a consequence of stress experienced in early growth stage. Significant lipid peroxidation and leaf area reduction were observed with 400 Cu mg kg-1 treatment at flowering stage. Rice grain yield decreased significantly at copper concentrations of 200 and 400 mg kg-1. Overall, excess copper inhibited photosynthetic capacity, growth, and development of rice in the early growth stage, and synergistic effects of yield components contributed to final grain yield reduction at harvesting stage. In addition, calculated integrated biomarker response (IBR) values reflect well the severity of Cu toxicity with a decreasing order from tillering stage to harvesting stage.

Responses of Lowland Rice Genotypes under Terminal Water Stress and Identification of Drought Tolerance to Stabilize Rice Productivity in Southern Thailand.

Lowland rice is an important cereal crop that plays a key role in the food security and the economy of Thailand. Terminal water stress (TWS) in rainfed lowland areas poses threats to rice productivity due to stress occurrence at terminal crop stages and extreme sensitivity of rice to TWS. A two-year study was conducted to characterize the performance of yield and yield attributes of twelve Thai lowland rice genotypes under TWS, to identify stress-tolerant genotypes using stress response indices and to identify promising stress indices which are correlated with grain yield (GY) under well-watered (WW) and TWS conditions for their use as rapid identifiers in a rice crop breeding program for enhancing drought stress tolerance. Measurements were recorded under WW and TWS conditions. Highly significant variations were observed amongst assessed genotypes for their yield productivity responses. According to stress response indices, genotypes were categorized into stress-tolerant and stress susceptible genotypes. Genotypes Hom Pathum, Sang Yod, Dum Ja and Pathum Thani-1 were found highly stress tolerant and relatively high yielding; genotypes Look Pla and Lep Nok were stress tolerant, whereas genotypes Chor Lung, Hom Nang Kaew and Hom Chan were moderately tolerant genotypes. Hence, stress-tolerant genotypes could be potentially used for cultivation under rainfed and water-limited conditions, where TWS is predicted particularly in southern Thailand to stabilize rice productivity. Stress tolerance indices, including stress tolerance index (STI), geometric mean productivity (GMP), mean productivity index (MPRO) and harmonic mean index (MHAR), indicated strong and positive associations with GY under WW and TWS; thus, these indices could be used to indicate stress tolerance in rice crop breeding program aimed at a rapid screening of lowland rice genotypes for stress tolerance.

Insertional mutagenesis using Tnt1 retrotransposon in potato.

Insertional mutagenesis using transfer DNA or transposable elements, which is an important tool in functional genomics and is well established in several crops, has not been developed in potato (Solanum tuberosum). Here, we report the application of the tobacco (Nicotiana tabacum) Tnt1 retrotransposon as an insertional mutagen in potato. The Tnt1 retrotransposon was introduced into a highly homozygous and self-compatible clone, 523-3, of the diploid wild potato species Solanum chacoense. Transposition of the Tnt1 elements introduced into 523-3 can be efficiently induced by tissue culture. Tnt1 preferentially inserted into genic regions in the potato genome and the insertions were stable during sexual reproduction, making Tnt1 an ideal mutagen in potato. Several distinct phenotypes associated with plant stature and leaf morphology were discovered in mutation screening from a total of 38 families derived from Tnt1-containing lines. We demonstrate that the insertional mutagenesis system based on Tnt1 and the 523-3 clone can be expanded to the genome-wide level to potentially tag every gene in the potato genome.

Probing the catalytic roles of Arg548 and Gln552 in the carboxyl transferase domain of the Rhizobium etli pyruvate carboxylase by site-directed mutagenesis.

The roles of Arg548 and Gln552 residues in the active site of the carboxyl transferase domain of Rhizobium etli pyruvate carboxylase were investigated using site-directed mutagenesis. Mutation of Arg548 to alanine or glutamine resulted in the destabilization of the quaternary structure of the enzyme, suggesting that this residue has a structural role. Mutations R548K, Q552N, and Q552A resulted in a loss of the ability to catalyze pyruvate carboxylation, biotin-dependent decarboxylation of oxaloacetate, and the exchange of protons between pyruvate and water. These mutants retained the ability to catalyze reactions that occur at the active site of the biotin carboxylase domain, i.e., bicarbonate-dependent ATP cleavage and ADP phosphorylation by carbamoyl phosphate. The effects of oxamate on the catalysis in the biotin carboxylase domain by the R548K and Q552N mutants were similar to those on the catalysis of reactions by the wild-type enzyme. However, the presence of oxamate had no effect on the reactions catalyzed by the Q552A mutant. We propose that Arg548 and Gln552 facilitate the binding of pyruvate and the subsequent transfer of protons between pyruvate and biotin in the partial reaction catalyzed in the active site of the carboxyl transferase domain of Rhizobium etli pyruvate carboxylase.