Extreme Low-Temperature Stress Affects Nutritional Quality of Amino Acids in Rice

Moderate Salinity Stress Affects Rice Quality by Influencing Expression of Amylose- and Protein-Content-Associated Genes

Salinity is an environmental stress that severely impacts rice grain yield and quality. However, limited information is available on the molecular mechanism by which salinity reduces grain quality. In this study, we investigated the milling, appearance, eating and cooking, and nutritional quality among three japonica rice cultivars grown either under moderate salinity with an electrical conductivity of 4 dS/m or under non-saline conditions in a paddy field in Dongying, Shandong, China. Moderate salinity affected rice appearance quality predominantly by increasing chalkiness rate and chalkiness degree and affected rice eating and cooking and nutritional quality predominantly by decreasing amylose content and increasing protein content. We compared the expression levels of genes determining grain chalkiness, amylose content, and protein content in developing seeds (0, 5, 10, 15, and 20 days after flowering) of plants grown under saline or non-saline conditions. The chalkiness-related gene Chalk5 was up-regulated and WHITE-CORE RATE 1 was repressed. The genes Nuclear factor Y and Wx, which determine amylose content, were downregulated, while protein-content-associated genes OsAAP6 and OsGluA2 were upregulated by salinity in the developing seeds. These findings suggest some target genes that may be utilized to improve the grain quality under salinity stress conditions via gene-pyramiding breeding approaches.

The deterioration of starch physiochemical and minerals in high-quality indica rice under low-temperature stress during grain filling

Low temperatures during the grain-filling phase have a detrimental effect on both the yield and quality of rice grains. However, the specific repercussions of low temperatures during this critical growth stage on grain quality and mineral nutrient composition in high-quality hybrid indica rice varieties have remained largely unexplored. The present study address this knowledge gap by subjecting eight high-quality indica rice varieties to two distinct temperature regimes: low temperature (19°C/15°C, day/night) and control temperature (28°C/22°C) during their grain-filling phase, and a comprehensive analysis of various quality traits, with a particular focus on mineral nutrients and their interrelationships were explored. Exposure of rice plants to low temperatures during early grain filling significantly impacts the physicochemical and nutritional properties. Specifically, low temperature increases the chalkiness rate and chalkiness degree, while decreases starch and amylopectin content, with varying effects on amylose, protein, and gelatinization temperature among rice varieties. Furthermore, crucial parameters like gelatinization enthalpy (ΔH), gelatinization temperature range (R), and peak height index (PHI) all significantly declined in response to low temperature. These detrimental effects extend to rice flour pasting properties, resulting in reduced breakdown, peak, trough, and final viscosities, along with increased setback. Notably, low temperature also had a significant impact on the mineral nutrient contents of brown rice, although the extent of this impact varied among different elements and rice varieties. A positive correlation is observed between brown rice mineral nutrient content and factors such as chalkiness, gelatinization temperature, peak viscosity, and breakdown, while a negative correlation is established with amylose content and setback. Moreover, positive correlations emerge among the mineral nutrient contents themselves, and these relationships are further accentuated in the context of low-temperature conditions. Therefore, enhancing mineral nutrient content and increasing rice plant resistance to chilling stress should be the focus of breeding efforts to improve rice quality.

Exogenous Spermidine and Amino-Ethoxyvinylglycine Improve Nutritional Quality via Increasing Amino Acids in Rice Grains

Polyamines and ethylene are key regulators of the growth and development, quality formation, and stress response of cereal crops such as rice. However, it remains unclear whether the application of these regulators could improve the nutritional quality via increasing amino acids in rice grains. This study examined the role of exogenous polyamines and ethylene in regulating amino acid levels in the milled rice of earlier-flowered superior grain (SG) and later-flowered inferior grain (IG). Two rice varieties were field grown, and either 1 mmol L-1 spermidine (Spd) or 50 μmol L-1 amino-ethoxyvinylglycine (AVG) was applied to panicles at the early grain-filling stage. The control check (CK) was applied with deionized water. The results showed that the Spd or AVG applications significantly increased polyamine (spermine (Spm) and Spd) contents and decreased ethylene levels in both SG and IG and significantly increased amino acid levels in the milled rice of SG and IG relative to the CK. Collectively, the application of Spd or AVG can increase amino acid-based nutritional quality and grain yield via increasing polyamine (Spm and Spd) contents and reducing ethylene levels in both SG and IG of rice.

Extreme low-temperature events can alleviate micronutrient deficiencies while increasing potential health risks from heavy metals in rice

Despite global warming, extreme low-temperature stress (LTS) events pose a significant threat to rice production (especially in East Asia) that can significantly impact micronutrient and heavy metal elements in rice. With two billion people worldwide facing micronutrient deficiencies (MNDs) and widespread heavy metal pollution in rice, understanding these impacts is crucial. We conducted detailed extreme LTS experiments with two rice (Oryza sativa L.) cultivars (Huaidao 5 and Nanjing 46) grown under four temperature levels (from 21/27 °C to 6/12 °C) and three LTS durations (three, six, and nine days). We observed significant interaction effects for LTS at different growth stages, durations and temperature levels on the contents and accumulation of mineral elements. The contents of most mineral elements (such Fe, Zn, As, Cu, and Cd) increased significantly under severe LTS at flowering, but decreased under LTS at the grain-filling stage. The accumulations of all mineral elements decreased at the three growth stages under LTS due to decreased grain weight. The contents and accumulation of mineral elements were more sensitive to LTS at the peak flowering stage than at the other two stages. Furthermore, the contents of most mineral elements in Nanjing 46 show larger variation under LTS compared to Huaidao 5. Accumulated cold degree days (ACDD, °C·d) were found to be suitable for quantifying the effects of LTS on the relative contents and accumulations of mineral elements. LTS at the flowering stage will help alleviate MNDs, but may also increase potential health risks from heavy metals. These results provide valuable insights for evaluating future climate change impacts on rice grain quality and potential health risks from heavy metals.

Comparative transcriptomics and co-expression networks reveal cultivar-specific molecular signatures associated with reproductive-stage cold stress in rice

The resistance of Huaidao5 results from the high constitutive expression of tolerance genes, while that of Huaidao9 is due to the cold-induced resistance in flag leaves and panicles. The regulation mechanism of rice seedlings' cold tolerance is relatively clear, and knowledge of its underlying mechanisms at the reproductive stage is limited. We performed differential expression and co-expression network analyses to transcriptomes from panicle and flag leaf tissues of a cold-tolerant cultivar (Huaidao5), and a sensitive cultivar (Huaidao9), under reproductive-stage cold stress. The results revealed that the expression levels of genes in stress-related pathways such as MAPK signaling pathway, diterpenoid biosynthesis, glutathione metabolism, plant-pathogen interaction and plant hormone signal transduction were constitutively highly expressed in Huaidao5, especially in panicles. Moreover, the Hudaidao5's panicle sample-specific (under cold) module contained some genes related to rice yield, such as GW5L, GGC2, SG1 and CTPS1. However, the resistance of Huaidao9 was derived from the induced resistance to cold in flag leaves and panicles. In the flag leaves, the responses included a series of stress response and signal transduction, while in the panicles nitrogen metabolism was severely affected, especially 66 endosperm-specific genes. Through integrating differential expression with co-expression networks, we predicted 161 candidate genes (79 cold-responsive genes common to both cultivars and 82 cold-tolerance genes associated with differences in cold tolerance between cultivars) potentially affecting cold response/tolerance, among which 85 (52.80%) were known to be cold-related genes. Moreover, 52 (65.82%) cold-responsive genes (e.g., TIFY11C, LSK1 and LPA) could be confirmed by previous transcriptome studies and 72 (87.80%) cold-tolerance genes (e.g., APX5, OsFbox17 and OsSTA109) were located within QTLs associated with cold tolerance. This study provides an efficient strategy for further discovery of mechanisms of cold tolerance in rice.

Genome-Wide Association Mapping Identifies New Candidate Genes for Cold Stress and Chilling Acclimation at Seedling Stage in Rice (Oryza sativa L.)

Rice (Oryza sativa L.) is a chilling-sensitive staple food crop, and thus, low temperature significantly affects rice growth and yield. Many studies have focused on the cold shock of rice although chilling acclimation is more likely to happen in the field. In this paper, a genome-wide association study (GWAS) was used to identify the genes that participated in cold stress and chilling accumulation. A total of 235 significantly associated single-nucleotide polymorphisms (SNPs) were identified. Among them, we detected 120 and 88 SNPs for the relative shoot fresh weight under cold stress and chilling acclimation, respectively. Furthermore, 11 and 12 quantitative trait loci (QTLs) were identified for cold stress and chilling acclimation, respectively, by integrating the co-localized SNPs. Interestingly, we identified 10 and 15 candidate genes in 11 and 12 QTLs involved in cold stress and chilling acclimation, respectively, and two new candidate genes (LOC_Os01g62410, LOC_Os12g24490) were obviously up-regulated under chilling acclimation. Furthermore, OsMYB3R-2 (LOC_Os01g62410) that encodes a R1R2R3 MYB gene was associated with cold tolerance, while a new C3HC4-type zinc finger protein-encoding gene LOC_Os12g24490 was found to function as a putative E3 ubiquitin-protein ligase in rice. Moreover, haplotype, distribution, and Wright’s fixation index (FST) of both genes showed that haplotype 3 of LOC_Os12g24490 is more stable in chilling acclimation, and the SNP (A > T) showed a difference in latitudinal distribution. FST analysis of SNPs in OsMYB3R-2 (LOC_Os01g62410) and LOC_Os12g24490 indicated that several SNPs were under selection in rice indica and japonica subspecies. This study provided new candidate genes in genetic improvement of chilling acclimation response in rice.