Salt Tolerance In Rice Research Articles

Seeds of Cross-Sector Collaboration: A Multi-Agent Evolutionary Game Theoretical Framework Illustrated by the Breeding of Salt-Tolerant Rice

In the context of global food security and the pursuit of sustainable agricultural development, fostering synergistic innovation in the seed industry is of strategic importance. However, the collaborative innovation process between seed companies, research institutions, and governments is fraught with challenges due to information asymmetry and bounded rationality within the research and development phase. This paper establishes a multi-agent evolutionary game framework, taking the breeding of salt-tolerant rice as a case study. This study, grounded in the theories of information asymmetry and bounded rationality, constructs a two-party evolutionary game model for the interaction between enterprises and research institutions under market mechanisms. It further extends this model to include government participation, forming a three-party evolutionary game model. The aim is to uncover the evolutionary trends in collaborative behavior under various policy interventions and to understand how governments can foster collaborative innovation in salt-tolerant rice breeding through policy measures. To integrate the impact of historical decisions on the evolution of collaborative innovation, this research employs a delay differential equation (DDE) algorithm that takes historical lags into account within the numerical simulation. The stability analysis and numerical simulation using the DDE algorithm reveal the risk of market failure within the collaborative innovation system for salt-tolerant rice breeding operating under market mechanisms. Government involvement can mitigate this risk by adjusting incentive and restraint mechanisms to promote the system’s stability and efficiency. Simulation results further identify that the initial willingness to participate, the coefficient for the distribution of benefits, the coefficient for cost sharing, and the government’s punitive and incentivizing intensities are crucial factors affecting the stability of collaborative innovation. Based on these findings, the study suggests a series of policy recommendations including enhancing the initial motivation for participation in collaborative innovation, refining mechanisms for benefit distribution and cost sharing, strengthening regulatory compliance systems, constructing incentive frameworks, and encouraging information sharing and technology exchange. These strategies aim to establish a healthy and effective ecosystem for collaborative innovation in salt-tolerant rice breeding. While this research uses salt-tolerant rice breeding as a case study, the proposed cooperative mechanisms and policy suggestions have universal applicability in various agricultural science and technology innovation scenarios, especially when research meets widespread social needs but lacks commercial profit drivers, underscoring the essential role of government incentives and support. Consequently, this research not only contributes a new perspective to the application of evolutionary game theory in agricultural science and technology innovation but also offers empirical backing for policymakers in advancing similar collaborative innovation endeavors.

Growth Performance of Rice Genotypes at the Seedling Stage under Different Salinity Stresses

Background: Worldwide coastal rice growing areas are severely affected by salinity which has become a major constraint to rice production. Salinity is a serious soil problem in rice-growing countries, severely limiting global rice production. Methods: In this study, the seedlings of 21 rice genotypes were tested against seven different levels of salinity concentrations (0.3, 2, 4, 6, 8, 10 and 12 dSm-1) under a hydroponic system in a glasshouse condition at Field 10, Faculty of Agriculture, Universiti Putra Malaysia (UPM). Data on seedling growth and salinity injury of the tested rice genotypes were recorded. Result: The results showed that Pokkali, FL478 and Binadhan-10 were tolerant at 12 dSm-1; BRRI dhan73, BRRI dhan61, Binadhan-8, BRRI dhan67 and BRRI dhan47 were tolerant at 10 dSm-1; Putra-1 were moderately tolerant at 8 dSm-1 and MR263, MR284, MR211 and MRQ74 were tolerant at 4 dSm-1 and rest of the genotypes were salt susceptible. The lower amount of Na: K and Na: Ca were measured from rice genotypes, Pokkali and FL478 at maximum salinity levels. The promising rice genotypes that were tolerant at 12 dSm-1 would be taken into consideration for a hybridization program to develop a new salt-tolerant rice variety.

Rational Utilization of Sediment Resources Improves Rice Yield and Nitrogen Use Efficiency under Salt Stress

Soil salinization negatively affects rice growth and yield; however, how different sludge sources regulate rice growth and yield under salt stress was rarely investigated. This study evaluated the performance of two salt-tolerant rice cultivars, Chaoyou 1000 and Longliangyou 506, grown in two sediment sources, pond sediment (PS) and river sludge (RS), under salt stress (56 ds m−1 brine irrigation) with conventional soil (CS) used as the control. The results showed that the rice yield under the PS and RS treatments was enhanced by 51.0% and 43.6% as compared with CS, respectively, owing to an improvement in spikelet per panicle, 1000-grain weight, dry matter accumulation, and the chlorophyll content in both rice cultivars. Compared with CS, the total nitrogen accumulation, nitrogen grain production efficiency, nitrogen harvest index, and nitrogen partial productivity under the PS and RS treatments were increased by 18.9–28.9%, 17.0–20.6%, 7.2–16.6%, and 43.8–50.9%, respectively. Moreover, rice grown in PS and RS showed higher activities of nitrogen metabolism-related enzymes (nitrate reductase, glutamine synthetase, and glutamate synthetase) at the heading stage and higher K+ and K+/Na+ contents in the leaves. Overall, a balanced utilization of sediment resources (especially pond sediment) can effectively alleviate salt stress and improve the yield and nitrogen use efficiency in rice.

Development of early maturing salt-tolerant rice variety KKL(R) 3 using a combination of conventional and molecular breeding approaches.

Introduction: Soil salinity poses a severe threat to rice production, resulting in stunted growth, leaf damage, and substantial yield losses. This study focuses on developing an early maturing seedling stage salinity tolerant rice variety by integrating conventional breeding methods with marker assisted breeding (MAB) approaches. Methods: Seedling-stage salinity tolerance Quantitative Trait Locus (QTL) "Saltol" from the salt-tolerant parent FL478 was introduced into the high-yielding but salt-sensitive rice variety ADT 45. This was achieved through a combination of conventional breeding and MAB. The breeding process involved rigorous selection, screening, and physiological parameter assessments. Results: KKL(R) 3 (KR 15066) identified as the top performing Recombinant Inbred Line (RIL), consistently demonstrating maximum mean grain yields under both salinity (3435.6kg/ha) and normal (6421.8kg/ha) conditions. In comparison to the early maturing, salt-tolerant national check variety CSR 10, KKL(R) 3 exhibited a substantial yield increase over 50%. Discussion: The notable improvement observed in KKL(R) 3 positions it as a promising variety for release, offering a reliable solution to maximize yields, ensure food security, and promote agricultural sustainability in both saline and non-saline environments. The study highlights the effectiveness of MAB in developing salt-tolerant rice varieties and emphasizes the significance of the Saltol QTL in enhancing seedling stage salinity tolerance. The potential release of KKL(R) 3 has the capacity to revolutionize rice production in salt affected regions, providing farmers with a reliable solution to maximize yields and contribute to food security while ensuring agricultural sustainability.

In vitro development of salt tolerant Malaysian indica rice ‘MARDI Siraj 297’ and enhancement of salinity tolerance using salicylic acid

In vitro development of salt tolerant Malaysian indica rice ‘MARDI Siraj 297’ and enhancement of salinity tolerance using salicylic acid

Comparison of the genetic basis of salt tolerance at germination, seedling, and reproductive stages in an introgression line population of rice.

Salinity is a major limitation for rice farming due to climate change. Since salt stress adversely impact rice plants at germination, seedling, and reproductive stages resulting in poor crop establishment and reduced grain yield, enhancing salt tolerance at these vulnerable growth stages will enhance rice productivity in salinity prone areas. An introgression line (ILs) population from a cross between a high yielding cultivar 'Cheniere' and a salt tolerant donor 'TCCP' was evaluated to map quantitative trait loci (QTLs) for traits associated with salt tolerance at germination, seedling, and reproductive stages. Using a genotyping-by-sequencing based high density SNP linkage map, a total of 7, 16, and 30 QTLs were identified for five germination traits, seven seedling traits, and ten reproductive traits, respectively. There was overlapping of QTLs for some traits at different stages indicating the pleiotropic effects of these QTLs or clustering of linked genes. Candidate genes identified for salt tolerance were OsSDIR1 and SERF for the seedling stage, WRKY55 and OsUBC for the reproductive stage, and MYB family transcription factors for all three stages. Gene ontology analysis revealed significant GO terms related to nucleotide binding, protein binding, protein kinase activity, antiporter activity, active transmembrane transporter activity, calcium-binding protein, and F- box protein interaction domain containing protein. The colocalized QTLs for traits at different growth stages would be helpful to improve multiple traits simultaneously using marker-assisted selection. The salt tolerant ILs have the potential to be released as varieties or as pre-breeding lines for developing salt tolerant rice varieties.

Progress and prospects in harnessing wild relatives for genetic enhancement of salt tolerance in rice.

Salt stress is the second most devastating abiotic stress after drought and limits rice production globally. Genetic enhancement of salinity tolerance is a promising and cost-effective approach to achieve yield gains in salt-affected areas. Breeding for salinity tolerance is challenging because of the genetic complexity of the response of rice plants to salt stress, as it is governed by minor genes with low heritability and high G × E interactions. The involvement of numerous physiological and biochemical factors further complicates this complexity. The intensive selection and breeding efforts targeted towards the improvement of yield in the green-revolution era inadvertently resulted in the gradual disappearance of the loci governing salinity tolerance and a significant reduction in genetic variability among cultivars. The limited utilization of genetic resources and narrow genetic base of improved cultivars have resulted in a plateau in response to salinity tolerance in modern cultivars. Wild species are an excellent genetic resource for broadening the genetic base of domesticated rice. Exploiting novel genes of underutilized wild rice relatives to restore salinity tolerance loci eliminated during domestication can result in significant genetic gain in rice cultivars. Wild species of rice, Oryza rufipogon and Oryza nivara, have been harnessed in the development of a few improved rice varieties like Jarava and Chinsura Nona 2. Furthermore, increased access to sequence information and enhanced knowledge about the genomics of salinity tolerance in wild relatives has provided an opportunity for the deployment of wild rice accessions in breeding programs, while overcoming the cross-incompatibility and linkage drag barriers witnessed in wild hybridization. Pre-breeding is another avenue for building material that are ready for utilization in breeding programs. Efforts should be directed towards systematic collection, evaluation, characterization, and deciphering salt tolerance mechanisms in wild rice introgression lines and deploying untapped novel loci to improve salinity tolerance in rice cultivars. This review highlights the potential of wild relatives of Oryza to enhance tolerance to salinity, track the progress of work, and provide a perspective for future research.

Translatome and Transcriptome Analyses Reveal the Mechanism that Underlies the Enhancement of Salt Stress by the Small Peptide Ospep5 in Plants.

Salt stress significantly impedes plant growth and the crop yield. This study utilized de novo transcriptome assembly and ribosome profiling to explore mRNA translation's role in rice salt tolerance. We identified unrecognized translated open reading frames (ORFs), including 42 upstream transcripts and 86 unannotated transcripts. A noteworthy discovery was the role of a small ORF, Ospep5, in conferring salt tolerance. Overexpression of Ospep5 in plants increased salt tolerance, while its absence led to heightened sensitivity. This hypothesis was corroborated by the findings that exogenous application of the synthetic small peptide Ospep5 bolstered salt tolerance in both rice and Arabidopsis. We found that the mechanism underpinning the Ospep5-mediated salt tolerance involves the maintenance of intracellular Na+/K+ homeostasis, facilitated by upregulation of high-affinity potassium transporters (HKT) and Na+/H+ exchangers (SOS1). Furthermore, a comprehensive multiomics approach, particularly ribosome profiling, is instrumental in uncovering unannotated ORFs and elucidating their functions in plant stress responses.

The rice LATE ELONGATED HYPOCOTYL enhances salt tolerance by regulating Na+/K+ homeostasis and ABA signalling.

The circadian clock plays multiple functions in the regulation of plant growth, development and response to various abiotic stress. Here, we showed that the core oscillator component late elongated hypocotyl (LHY)was involved in rice response to salt stress. The mutations of OsLHY gene led to reduced salt tolerance in rice. Transcriptomic analyses revealed that the OsLHY gene regulates the expression of genes related to ion homeostasis and the abscisic acid (ABA)signalling pathway, including genes encoded High-affinity K+ transporters (OsHKTs) and the stress-activated protein kinases (OsSAPKs). We demonstrated that OsLHY directly binds the promoters of OsHKT1;1, OsHKT1;4 and OsSAPK9 to regulate their expression. Moreover, the ossapk9 mutants exhibited salt tolerance under salt stress. Taken together, our findings revealed that OsLHY integrates ion homeostasis and the ABA pathway to regulate salt tolerance in rice, providing insights into our understanding of how the circadian clock controls rice response to salt stress.

OsBCAT2, a gene responsible for the degradation of branched-chain amino acids, positively regulates salt tolerance by promoting the synthesis of vitamin B5.

Salt stress negatively affects rice growth, development and yield. Metabolic adjustments contribute to the adaptation of rice under salt stress. Branched-chain amino acids (BCAA) are three essential amino acids that cannot be synthesized by humans or animals. However, little is known about the role of BCAA in response to salt stress in plants. Here, we showed that BCAAs may function as scavengers of reactive oxygen species (ROS) to provide protection against damage caused by salinity. We determined that branched-chain aminotransferase 2 (OsBCAT2), a protein responsible for the degradation of BCAA, positively regulates salt tolerance. Salt significantly induces the expression of OsBCAT2 rather than BCAA synthesis genes, which indicated that salt mainly promotes BCAA degradation and not de novo synthesis. Metabolomics analysis revealed that vitamin B5 (VB5) biosynthesis pathway intermediates were higher in the OsBCAT2-overexpressing plants but lower in osbcat2 mutants under salt stress. The salt stress-sensitive phenotypes of the osbcat2 mutants are rescued by exogenous VB5, indicating that OsBCAT2 affects rice salt tolerance by regulating VB5 synthesis. Our work provides new insights into the enzymes involved in BCAAs degradation and VB5 biosynthesis and sheds light on the molecular mechanism of BCAAs in response to salt stress.

RNAi-Mediated Suppression of OsBBTI5 Promotes Salt Stress Tolerance in Rice.

This study explores the impact of RNAi in terms of selectively inhibiting the expression of the OsBBTI5 gene, with the primary objective of uncovering its involvement in the molecular mechanisms associated with salt tolerance in rice. OsBBTI5, belonging to the Bowman-Birk inhibitor (BBI) family gene, is known for its involvement in plant stress responses. The gene was successfully cloned from rice, exhibiting transcriptional self-activation in yeast. A yeast two-hybrid assay confirmed its specific binding to OsAPX2 (an ascorbate peroxidase gene). Transgenic OsBBTI5-RNAi plants displayed insensitivity to varying concentrations of 24-epibrassinolide in the brassinosteroid sensitivity assay. However, they showed reduced root and plant height at high concentrations (10 and 100 µM) of GA3 immersion. Enzyme activity assays revealed increased peroxidase (POD) and superoxide dismutase (SOD) activities and decreased malondialdehyde (MDA) content under 40-60 mM NaCl. Transcriptomic analysis indicated a significant upregulation of photosynthesis-related genes in transgenic plants under salt stress compared to the wild type. Notably, this study provides novel insights, suggesting that the BBI gene is part of the BR signaling pathway, and that OsBBTI5 potentially enhances stress tolerance in transgenic plants through interaction with the salt stress-related gene OsAPX2.

Exogenous melatonin induces salt and drought stress tolerance in rice by promoting plant growth and defense system

Due to global climate change, crops are certainly confronted with a lot of abiotic and biotic stress factors during their growth that cause a serious threat to their development and overall productivity. Among different abiotic stresses, salt and drought are considered the most devastating stressors with serious impact on crop’s yield stability. Here, the current study aimed to elucidate how melatonin works in regulating plant biomass, oxidative stress, antioxidant defense system, as well as the expression of genes related to salt and drought stress in rice plants. Eight groups of rice plants (3 replicates, 5 plants each) underwent varied treatments: control, melatonin, salt, drought, salt + drought, salt + melatonin, drought + melatonin, and salt + drought + melatonin. Melatonin (100 µM) was alternately applied a week before stress exposure; salt stress received 100 mM NaCl every 3 days for 3 weeks, and drought stress involved 10% PEG. Young leaves were randomly sampled from each group. The results showed that melatonin treatment markedly reduces salt and drought stress damage by promoting root, shoot length, fresh and dry weight, increasing chlorophyll contents, and inhibiting excessive production of oxidative stress markers. Salt and drought stress significantly decreased the water balance, and damaged cell membrane by reducing relative water contents and increasing electrolyte leakage. However, melatonin treated rice plants showed high relative water contents and low electrolyte leakage. Under salt and drought stress conditions, exogenous application of melatonin boosted the expression level of salt and drought stress responsive genes like OsSOS, OsNHX, OsHSF and OsDREB in rice plants. Taken together, our results reveal that melatonin treatment significantly increases salt and drought tolerance of rice plants, by increasing plant biomass, suppressing ROS accumulation, elevating antioxidants defense efficiency, and up-regulating the expression of salt and drought stress responsive genes.

Uncovering Novel QTLs and Candidate Genes for Salt Tolerance at the Bud Burst Stage in Rice through Genome-Wide Association Study.

Salt stress is one of the most important factors limiting rice growth and yield increase. Salt tolerance of rice at the bud burst (STB) stage determines whether germinated seeds can grow normally under salt stress, which is very important for direct seeding. However, reports on quantitative trait loci (QTLs) and candidate genes for STB in rice are very limited. In this study, a natural population of 130 indica and 81 japonica rice accessions was used to identify STB-related QTLs and candidate genes using a genome-wide association study (GWAS). Nine QTLs, including five for relative shoot length (RSL), two for relative root length (RRL), and two for relative root number (RRN), were identified. Five of these STB-related QTLs are located at the same site as the characterized salt tolerance genes, such as OsMDH1, OsSRFP1, and OsCDPK7. However, an important QTL related to RSL, qRSL1-2, has not been previously identified and was detected on chromosome 1. The candidate region for qRSL1-2 was identified by linkage disequilibrium analysis, 18 genes were found to have altered expression levels under salt stress through the RNA-seq database, and 10 of them were found to be highly expressed in the shoot. It was also found that, eight candidate genes (LOC_Os01g62980, LOC_Os01g63190, LOC_Os01g63230, LOC_Os01g63280, LOC_Os01g63400, LOC_Os01g63460, and LOC_Os01g63580) for qRSL1-2 carry different haplotypes between indica and japonica rice, which exactly corresponds to the significant difference in RSL values between indica and japonica rice in this study. Most of the accessions with elite haplotypes were indica rice, which had higher RSL values. These genes with indica-japonica specific haplotypes were identified as candidate genes. Rice accessions with elite haplotypes could be used as important resources for direct seeding. This study also provides new insights into the genetic mechanism of STB.

The utilization of brackish water-induced land through a rice-tiger shrimp coculture system

The brackish water-induced lands are abandoned by their owners because the land is unproductive. These lands are adjacent to the pond. This study aims to evaluate the brackish water-induced land through the rice-tiger shrimp coculture system. The land was reconstructed using excavators into 70 % rice fields and 30 % caren for shrimp cultivation. On this land, cultivation was carried out with Irrigated Inbred Rice (Inpari 34) and tiger shrimp (P) and Inpari 35 and tiger shrimp (T). Each treatment is two replicates. Salt-tolerant rice seeds used are varieties of Inpari 34 and Inpari 35 planted on rice fields after seedbeds for 25 days. Post larvae (PL) of tiger shrimp were adapted to a salinity of 7 ppt for 30 days, to be stocked at a density of 4 ind/m2. The growth of rice and tiger shrimp growth and water quality were monitored at a 14-day interval. Production of rice and tiger shrimp was counted at the end of the study. The results showed that salt-tolerant rice varieties Inpari 34 grew from 40 to 108 cm in height and Inpari 35 grew from 43 to 126 cm with production reach 5.060 ± 64.28 and 4.324 ± 19.09 t/ha, respectively, during 105 days of culture period. The survival rate and body weight of tiger shrimp are 20.19 ± 0.43 % and 11.56 ± 2.36 g for Inpari 34 and 20.83 ± 31.26 % and 12.40 ± 2.42 g for Inpari 35 for 65 days culture period, with production estimated 0.176 ± 0.054 (P) and 0.134 ± 0.010 t/ha (T). Inpari 34 and Inpari 35 rice varieties can be cocultured with tiger shrimp on the brackish water-induced land. Rice-tiger shrimp coculture system can be an alternative technology to restore land function that is intrusive by brackish water-induced land and support food security.

The zinc finger protein DHHC09 S-acylates the kinase STRK1 to regulate H2O2 homeostasis and promote salt tolerance in rice.

Soil salinity results in oxidative stress and heavy losses to crop production. The S-acylated protein SALT TOLERANCE RECEPTOR-LIKE CYTOPLASMIC KINASE 1 (STRK1) phosphorylates and activates CATALASE C (CatC) to improve rice (Oryza sativa L.) salt tolerance, but the molecular mechanism underlying its S-acylation involved in salt signal transduction awaits elucidation. Here, we show that the DHHC-type zinc finger protein DHHC09 S-acylates STRK1 at Cys5, Cys10, and Cys14 and promotes salt and oxidative stress tolerance by enhancing rice H2O2-scavenging capacity. This modification determines STRK1 targeting to the plasma membrane or lipid nanodomains and is required for its function. DHHC09 promotes salt signaling from STRK1 to CatC via transphosphorylation, and its deficiency impairs salt signal transduction. Our findings demonstrate that DHHC09 S-acylates and anchors STRK1 to the plasma membrane to promote salt signaling from STRK1 to CatC, thereby regulating H2O2 homeostasis and improving salt stress tolerance in rice. Moreover, overexpression of DHHC09 in rice mitigates grain yield loss under salt stress. Together, these results shed light on the mechanism underlying the role of S-acylation in RLK/RLCK-mediated salt signal transduction and provide a strategy for breeding highly salt-tolerant rice.

The fungal endophyte Metarhizium anisopliae (MetA1) coordinates salt tolerance mechanisms of rice to enhance growth and yield

The implementation of salt stress mitigation strategies aided by microorganisms has the potential to improve crop growth and yield. The endophytic fungus Metarhizium anisopliae shows the ability to enhance plant growth and mitigate diverse forms of abiotic stress. We examined the functions of M. anisopliae isolate MetA1 (MA) in promoting salinity resistance by investigating several morphological, physiological, biochemical, and yield features in rice plants. In vitro evaluation demonstrated that rice seeds primed with MA enhanced the growth features of rice plants exposed to 4, 8, and 12 dS/m of salinity for 15 days in an agar medium. A pot experiment was carried out to evaluate the growth and development of MA-primed rice seeds after exposing them to similar levels of salinity. Results indicated MA priming in rice improved shoot and root biomass, photosynthetic pigment contents, leaf succulence, and leaf relative water content. It also significantly decreased Na+/K+ ratios in both shoots and roots and the levels of electrolyte leakage, malondialdehyde, and hydrogen peroxide, while significantly increasing proline content in the leaves. The antioxidant enzymes catalase, glutathione S-transferase, ascorbate peroxidase, and peroxidase, as well as the non-enzymatic antioxidants phenol and flavonoids, were significantly enhanced in MA-colonized plants when compared with MA-unprimed plants under salt stress. The MA-mediated restriction of salt accumulation and improvement in physiological and biochemical mechanisms ultimately contributed to the yield improvement in salt-exposed rice plants. Our findings suggest the potential use of the MA seed priming strategy to improve salt tolerance in rice and perhaps in other crop plants.

Salinity-responsive key endophytic bacteria in the propagules of Kandelia obovata enhance salt tolerance in rice

Salinity is a major environmental stress affecting crop growth and productivity globally. The application of halo-tolerant plant growth-promoting bacteria (HT-PGPB) has been widely recognized to promote crop growth and reduce the adverse effects of salt stress. Herein, key endophytic bacteria that can respond to salinity changes were identified by analysis of the microbial community in propagules of Kandelia obovate. Delftia tsuruhatensis DYX29, a strain able to grow normally under high salinity conditions with a sodium chloride (NaCl) concentration of 5% (w/v), was obtained by pure culture. DYX29 has the ability to produce siderophores with a siderophore unit value of 87.6% and ACC (1-aminocyclopropane-1-carboxylate) deaminase with 29 U L-1 and can synthesize intracellular amino acids and auxin induced by high salinity. Inoculation with DYX29 can remarkably promote the salt tolerance of rice. Under salt stress, the addition of DYX29 effectively promoted the growth of rice seedlings through a variety of approaches. It increased the biomass of rice seedlings by 32.9% (dry weight) and promoted the accumulation of soluble sugars by 23.1%. It also increased CAT and POD activities in rice leaves by 37.8 and 88.2%, respectively. Moreover, it maintained ionic homeostasis in roots and leaves. In addition, it upregulated the expression of growth-promoting hormones in roots, such as IAA, BL, ABA and SA, in rice roots by 27.8, 69.5, 123.7 and 28.6%, respectively. This study provides inspiration for screening valuable salt-tolerant pro-biotic bacteria from mangrove ecosystems for crop growth promotion under salt stress. It may also provide useful references for the development of new salt-tolerant and pro-biotic biofertilizers and the investigation of the related mechanism.

Integrated transcriptome and metabolome analysis of salinity tolerance in response to foliar application of choline chloride in rice (Oryza sativa L.).

Salt stress is a major abiotic stress that affects crop growth and productivity. Choline Chloride (CC) has been shown to enhance salt tolerance in various crops, but the underlying molecular mechanisms in rice remain unclear. To investigate the regulatory mechanism of CC-mediated salt tolerance in rice, we conducted morpho-physiological, metabolomic, and transcriptomic analyses on two rice varieties (WSY, salt-tolerant, and HHZ, salt-sensitive) treated with 500 mg·L-1 CC under 0.3% NaCl stress. Our results showed that foliar application of CC improved morpho-physiological parameters such as root traits, seedling height, seedling strength index, seedling fullness, leaf area, photosynthetic parameters, photosynthetic pigments, starch, and fructose content under salt stress, while decreasing soluble sugar, sucrose, and sucrose phosphate synthase levels. Transcriptomic analysis revealed that CC regulation combined with salt treatment induced changes in the expression of genes related to starch and sucrose metabolism, the citric acid cycle, carbon sequestration in photosynthetic organs, carbon metabolism, and photosynthetic antenna proteins in both rice varieties. Metabolomic analysis further supported these findings, indicating that photosynthesis, carbon metabolism, and carbon fixation pathways were crucial in CC-mediated salt tolerance. The combined transcriptomic and metabolomic data suggest that CC treatment enhances rice salt tolerance by activating distinct transcriptional cascades and phytohormone signaling, along with multiple antioxidants and unique metabolic pathways. These findings provide a basis for further understanding the mechanisms of metabolite synthesis and gene regulation induced by CC in rice in response to salt stress, and may inform strategies for improving crop resilience to salt stress.

The comparative transcriptome analysis of two green super rice genotypes with varying tolerance to salt stress.

Salinity is one of the main abiotic factors that restrict plant growth, physiology, and crop productivity is salt stress. About 33% of the total irrigated land suffers from severe salinity because of intensive underground water extraction and irrigation with brackish water. Thus, it is important to understand the genetic mechanism and identify the novel genes involved in salt tolerance for the development of climate-resilient rice cultivars. In this study, two rice genotypes with varying tolerance to salt stress were used to investigate the differential expressed genes and molecular pathways to adapt under saline soil by comparative RNA sequencing at 42 days of the seedling stage. Salt-susceptible (S3) and -tolerant (S13) genotypes revealed 3982 and 3463 differentially expressed genes in S3 and S13 genotypes. The up-regulated genes in both genotypes were substantially enriched in different metabolic processes and binding activities. Biosynthesis of secondary metabolites, phenylpropanoid biosynthesis, and plant signal transduction mechanisms were highly enriched. Salt-susceptible and -tolerant genotypes shared the same salt adaptability mechanism with no significant quantitative differences at the transcriptome level. Moreover, bHLH, ERF, NAC, WRKY, and MYB transcription factors were substantially up-regulated under salt stress. 391 out of 1806 identified novel genes involved in signal transduction mechanisms. Expression profiling of six novel genes further validated the findings from RNA-seq data. These findings suggest that the differentially expressed genes and molecular mechanisms involved in salt stress adaptation are conserved in both salt-susceptible and salt-tolerant rice genotypes. Further molecular characterization of novel genes will help to understand the genetic mechanism underlying salt tolerance in rice.

Advanced Mutant Line Developed from Fatemadhan Shows Salinity Tolerance at both Seedling and Reproductive Stages

The generation of high-yielding rice mutants and their assessment under salt stress offers a great possibility to isolate salt tolerant line(s) with desired trait of interest. Two separate experiments were conducted at the seedling and reproductive stages of rice to assess the level of salinity tolerance of few advanced high-yielding rice mutants. In the first experiment, rice seedlings were grown under hydroponic conditions and 14-day-old seedlings were subjected to salt stress (EC=10 dS/m; 7 days). Salt stress caused significant reduction in root and shoot length and biomass and leaf chlorophyll content; however, a little reduction was found in the mutant Line-1. In contrast, a sharp increase in shoot Na+/K+ ratio was found in all the genotypes except, Binadhan-10, FL-478 and the mutant Line-1, which exhibited little increased ratio. The second experiment involved exposure of plant to salt stress (EC=10 dS/m) for three weeks at the late booting stage in a sizable plastic tub filled with field soil. Salt stress resulted in a significant decrease in yield and yield attributing traits in all the genotypes except Binadhan-10. Grain yield per panicle was found significantly positive correlation with panicle length, the number of filled grains per panicle, and 100-seed weight under both control and salt stress conditions. Based on the studied traits and stress tolerance indices, Binadhan-10 and mutant Line-1 categorized as salt tolerant and rest of the genotypes were categorized as susceptible, which is also evident from the biplot of principal component analysis. Considering the results from both of the experiments, mutant Line-1 was found tolerant genotype at both seedling and reproductive stage. However, further studies are required to determine the genetic issues controlling the salinity tolerance in mutant Line-1 and the high-yield potential of mutant Line-65 under control condition in a way to develop salt tolerant and high-yielding rice varieties, respectively.