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This paper summarizes the history of fertilizer use in Vietnam and some selected countries, introduces the role of inorganic and organic fertilizers and comes up with the conclusion that, for most of the crops, balanced use of inorganic and organic sources of nutrients with the ratio of 70:30 is the most effective combination. We recommended slow release fertilizer (SRF), controlled release fertilizer (CRF) and stabilized fertilizer (SF) as the new generation fertilizer for effectively producing organic fertilizers.

GPD encodes glyceraldehyde-3-phosphate dehydrogenase enzyme involved in sugar mobilization, particularly glycolysis and gluconeogenesis. The objective of this study was to determine physiological aspects of germination and early seedling establishment of PsGPD (Pleurotus sajor-caju glyceraldehyde-3-phosphate dehydrogenase) expressing transgenic rice (T5) against different salt concentrations. The T5 line that carried 2 copies of T-DNA and had the highest level of PsGPD expression was used in the investigation. Final germination percentage, amylase activity, reducing sugar accumulation, and chlorophyll biosynthesis were comparatively higher in PsGPD expressing transgenic rice against elevating saline conditions. A slow-paced conversion of porphyrin's precursors was seen through the matrix model and further elaborated by a graphical model. A sustained level of porphyrin was observed in PsGPD expressing transgenic rice. These data were concurrent with the relative gene expression and thermal imaging (thermography) of PsGPD expressing transgenic rice against salt stress. Morphological attributes also favored the salt tolerance exhibited by PsGPD-transformed rice., Graphical Abstract

Two pepper methionine sulfoxide reductase B2 (CaMsrB2) gene expressing transgenic rice lines (L-8 and L-23) were interrogated with respect to their physiological and photochemical attributes along with control (WT, Ilmi) as a standard against varying levels of salt concentration which are 75 mM, 150 mM and 225 mM. Against various levels of salt (NaCl) concentration, recurring detrimental effects of extreme salt stress was observed and more pronounced in the wild type plants as compared to our transgenic lines. As the exacerbated effects of salinity is responsible for pushing the plants to their ecological tolerance, our transgenic lines performed well uplifted in different realms of physiology and photochemistry such as relative water content (RWC = 60–75%), stomatal conductance (gs = 70–190 mmolm−2s−1), performance index (PIABS = 1.0–4.5), maximal photochemical yield of PSII (FV/FM = 0.48–0.72) and chlorophyll content index (CCI = 5–7.2 au) in comparison to the control. Relative gene expression, ion analysis and antioxidants activity were analyzed in all treatments to ensure the hypothesis obtained from data of physiology and photochemistry. Photosynthetic apparatus is known to lose energy in various forms such as NPQ, DIO/CS, damages of reaction center (FV/FO) which are the markers of poor health were clearly decreased in the L-23 line as compared to L-8 and WT. Present study revealed the protruding tolerance of L-23 and L-8 transgenic lines with L-23 line in the lead in comparison to control and L-8 transgenic lines.

Main conclusion A new imaging platform was constructed to analyze drought-tolerant traits of rice. Rice was used to quantify drought phenotypes through image-based parameters and analyzing tools. Abstract Climate change has increased the frequency and severity of drought, which limits crop production worldwide. Developing new cultivars with increased drought tolerance and short breeding cycles is critical. However, achieving this goal requires phenotyping a large number of breeding populations in a short time and in an accurate manner. Novel cutting-edge technologies such as those based on remote sensors are being applied to solve this problem. In this study, new technologies were applied to obtain and analyze imaging data and establish efficient screening platforms for drought tolerance in rice using the drought-tolerant mutant osphyb. Red–Green–Blue images were used to predict plant area, color, and compactness. Near-infrared imaging was used to determine the water content of rice, infrared was used to assess plant temperature, and fluorescence was used to examine photosynthesis efficiency. DroughtSpotter technology was used to determine water use efficiency, plant water loss rate, and transpiration rate. The results indicate that these methods can detect the difference between tolerant and susceptible plants, suggesting their value as high-throughput phenotyping methods for short breeding cycles as well as for functional genetic studies of tolerance to drought stress.

The key for rice plant survival under NaCl salt stress is maintaining a high K + /Na + ratio in its cells. Selection for salt tolerance rice genotypes based on phenotypic performance alone will delay in progress in breeding. Use of molecular markers in tandem with physiological studies will help in better identification of salt tolerant rice accessions. Eight rice accessions along with the check Dongjin were screened using 1/2 Yoshida solution with 50 mmol/L NaCl at the seedling stage. The accessions IT001158, IT246674, IT260533 and IT291341 were classified as salt tolerant based on their K + /Na + ratios. Seventeen SSR markers reported to be associated with K + /Na + ratio were used to screen the accessions. Five SSR markers (RM8053, RM345, RM318, RM253 and RM7075) could differentiate accessions classified based on their K + /Na + ratios. Banding pattern of the accessions was scored compared to the banding pattern of Dongjin. The study differentiated accessions based on their association of K + /Na + ratio with molecular markers which are very reliable. These markers can play a significant role in screening large set of rice germplasms for salt tolerance and also help in identification of high-yielding varieties with better salt tolerance. The salt tolerant accessions can be taken forward into developing better varieties by conventional breeding and exploring genes for salt tolerance.

The AP2/EREBP family transcription factors play important roles in a wide range of stress tolerance and hormone signaling. In this study, a heat-inducible rice ERF gene was isolated and functionally characterized. The OsERF115/AP2EREBP110 was categorized to Group-IIIc of the rice AP2/EREBP family and strongly induced by heat and drought treatment. The OsERF115/AP2EREBP110 protein targeted to nuclei and suppressed the ABA-induced transcriptional activation of Rab16A promoter in rice protoplasts. Overexpression of OsERF115/AP2EREBP110 enhanced thermotolerance of seeds and vegetative growth stage plants. The OsERF115/AP2EREBP110 overexpressing (OE) plants exhibited higher proline level and increased expression of a proline biosynthesis P5CS1 gene. Phenotyping of water use dynamics of the individual plant indicates that the OsERF115/AP2EREBP110-OE plant exhibited better water saving traits under heat and drought combined stress. Our combined results suggest the potential use of OsERF115/AP2EREBP110 as a candidate gene for genetic engineering approaches to develop heat and drought stress-tolerant crops.

Plant phenomics is an area of biology dealing with the analysis of phenotypic traits in plants. It can be cointegrated with other omics like functional genomics, transcriptomics, and metabolomics etc. Phenotypic traits are generated by images of RGB, hyperspectral, near-infrared, thermal, fluorescence imaging and so on. Characterized phenotypes can be revealed in various morphological and physiological measurements of size, growth pattern, biomass and color in plants. The image-base automated plant phenotyping is described as a high throughput plant facility. Despite its advantages like nondestructive phenotyping it has its own limitations such as plant’s complex architectures and environmental conditions at the time of image capture especially in the field. Phenomics generates a large number of images and metadata through phenotyping instruments, so there is a need for proper data processing and managements. Standardized data storage and sharing is also necessary for meaningful data acquisition along with statistical analysis. Processes of data management are largely consisted of data collection, storage, documentation, along with improvement of data quality. In future, plant phenomics must be developed efficiently to store, analyze, protect and share the acquired data. Modern high throughput plant phenotyping could be used effectively in plant improvement programs.

Salinity is one of the major abiotic stresses that severely effects rice production throughout the world. Previously, there have not been many studies which focused on studying diversity among rice germplasm based on specific physiological traits for salt tolerance. Our diversity study was based on physiological traits such as Na+ concentration, K+ concentration, K+/Na+ ratio, osmotic potential, and biomass which are major components determining salt tolerance. This study has systematically analyzed phenotypic data of 191 germplasms in two different salt concentrations apart from the control. The current study identified salt tolerant germplasms based on their response to a single physiological trait as well as a combination of different physiological traits. Some of the germplasm identified outperformed known salt tolerant cultivar Pokkali. This study identifies correlation among various physiological traits. The salt tolerant germplasms can be taken forward into developing better varieties by conventional breeding and exploring genes for salt tolerance.

Salt tolerance is an important constrain for rice, which is generally categorized as a typical glycophyte. Soil salinity is one of the major constraints affecting rice production worldwide, especially in the coastal areas. Susceptibility or tolerance of rice plants to high salinity is a coordinated action of multiple stress responsive genes, which also interacts with other components of stress signal transduction pathways. Salt tolerant varieties can be produced by marker-assisted selection or genetic engineering by introducing salt-tolerance genes. In this review, we have updated on mechanisms and genes which can help in transferring of the salt tolerance into high-yielding rice varieties. We have focused on the need for integrating phenotyping, genomics, metabolic profiling and phenomics into transgenic and breeding approaches to develop high-yielding as well as salt tolerant rice varieties.

Faster and more efficient breeding cycle is not an option to deal with unpredictable and fast global climate changes. Phenomics for collecting huge number of individuals in accurate manner could be an answer to solve this problem. We collected image data to measure plant height and manual data for shoot length to be compared. QTLs clustered of plant height and shoot length were detected in 2-week old seedlings, which was consistent with many other reports using various genetic resources in matured stage. Further, these traits are highly correlated with yield by pleiotropism or tight linkage of those traits. It implies the “phenome-assisted selection” can be applied for yield trait in rice in the very early stage to shorten the breeding cycle significantly in fast but low-cost manner.

Abiotic stress like drought and salinity is the major environmental constraints that limit agricultural production. Physiological mechanisms explaining plant tolerance offer valuable insights for the development of genetically modified crops. Plant water status and alteration in photosynthetic capacity are some common physiological depictions which are induced by abiotic stress like drought and salinity. Chiefly it is because both stresses caused cellular dehydration in the plants, predominantly, during the initial phase of stress imposition. In water stress CO2 availability is greatly reduced due to stomatal limitation; subsequently leaf temperature is elevated. So that studies on plant water status and stomatal regulation are important aspects in abiotic stress environment stabilizing the temperature inside plant/leaf. Therefore phenotyping using infrared thermography (heat sensitive sensor) could be a useful tool in the selection of tolerant genotypes. Generally infrared thermography is sensitive, less time-consuming, and nondestructive methodology which detects heat produced or generated by leaf under the influence of external factors. In general, temperature display pattern on IR images is inversely proportional to leaf water status. It was observed that infrared images are significantly correlated with some of the physiological traits indicating tolerance grading among genotypes.

Regulation of tomato fruit ripening may help extend fruit shelf life and prevent losses due to spoilage. Here, tomato fruit were investigated whether sound treatment could delay their ripening. Harvested fruit were treated with low-frequency sound waves (1 kHz) for 6 h, and then monitored various characteristics of the fruit over 14-days at 23 ± 1 °C. Seven days after the treatment, 85% of the treated fruit were green, versus fewer than 50% of the non-treated fruit. Most of the tomato fruit had transitioned to the red ripening stage by 14 days after treatment. Ethylene production and respiration rate were lower in the sound-treated than non-treated tomatoes. Furthermore, changes in surface color and flesh firmness were delayed in the treated fruit. To investigate how sound wave treatment effects on fruit ripening, the expression of ethylene-related genes was analyzed by quantitative real-time RT-PCR analysis. The expression level of several ethylene biosynthetic (ACS2, ACS4, ACO1, E4 and E8) and ripening-regulated (RIN, TAGL1, HB-1, NOR, CNR) genes was influenced by sound wave treatment. These results indicated that sound wave treatment delays tomato fruit ripening by altering the expression of important genes in the ethylene biosynthesis and ethylene signaling pathways.

The phytohormone abscisic acid (ABA) enables plants to adapt to adverse environmental conditions through the modulation of metabolic pathways and of growth and developmental programs. We used comparative microarray analysis to identify genes exhibiting ABA-dependent expression and other hormone-dependent expression among them in Oryza sativa shoot and root. We identified 854 genes as significantly up- or down-regulated in root or shoot under ABA treatment condition. Most of these genes had similar expression profiles in root and shoot under ABA treatment condition, whereas 86 genes displayed opposite expression responses in root and shoot. To examine the crosstalk between ABA and other hormones, we compared the expression profiles of the ABA-dependently regulated genes under several different hormone treatment conditions. Interestingly, around half of the ABA-dependently expressed genes were also regulated by jasmonic acid based on microarray data analysis. We searched the promoter regions of these genes for cis-elements that could be responsible for their responsiveness to both hormones, and found that ABRE and MYC2 elements, among others, were common to the promoters of genes that were regulated by both ABA and JA. These results show that ABA and JA might have common gene expression regulation system and might explain why the JA could function for both abiotic and biotic stress tolerance.

Transgenic potatoes expressing glyceraldehyde-3-phosphate dehydrogenase (GPD), isolated from the oyster mushroom, Pleurotus sajor-caju, had increased tolerance to salt stress (Jeong et al. Biochem Biophys Res Commun 278:192-196, 2000). To examine the physiological mechanisms enhancing salt tolerance in GPD-transgenic rice plants, the salt tolerance of five GPD transgenic rice lines (T1-T5) derived from Dongjin rice cultivar were evaluated in a fixed 150 mM saline environment in comparison to two known wild-type rice cultivars, Dongjin (salt sensitive) and Pokali (salt tolerant). Transgenic lines, T2, T3, and T5, had a substantial increase in biomass and relative water content compared to Dongjin. Stomatal conductance and osmotic potential were higher in the GPD transgenic lines and were similar to those in Pokali. The results are discussed based on the comparative physiological response of GPD transgenic lines with those of the salt-sensitive and salt-tolerant rice cultivars.

The methionine sulfoxide reductase B2 (MsrB2) gene catalyzes the reduction of free and protein-bound methionine sulfoxide to methionine and is known to provide tolerance to biotic and abiotic environmental stresses. There are yet to be any reports that MsrB2 enhances drought tolerance. Two drought-tolerant transgenic rice lines, L-8 (single copy) and L-23 (two copy), expressing the Capsicum annuum MsrB2 (CaMsrB2) gene were selected for stress tolerance phenotyping under drought stress conditions. CaMsrB2 enhanced relative water content, maintained substantial quantum yield (Fv/Fm ratio), and subsequently improved photosynthetic pigments. Interestingly, L-23, carrying two-copy T-DNA insertion, showed greater drought tolerance through more effective stomatal regulation, carotenoid concentration, and osmotic potential than the wild type. High-tech infrared technology (FLIR SC620) was used for the selection of stress-tolerant physiotypes. Later, the IR results were correlated with other tested physiological parameters. The IR images, average plant temperature, and physiological parameters of the treated plants are discussed in detail.

Early seedling establishment in rice (Oryza sativa L.), which is measured by primary/secondary tiller, shoot length, biomass, root-related traits, and leaf area index, is an important trait because it helps to compete for light, air, and water for better tolerating various abiotic stresses. Consequently, it can affect the yield. However, there are not many research studies on this subject. Furthermore, previous studies have only measured the target traits once. However, this does not reflect the variation of growth rate during the seedling stage. Thus, two data points, two weeks and four weeks after planting, were used in the current study. As a result, two QTL regions were detected for the growth differences via plant height and green area (reflecting tillering). We expect that these results can be utilized by breeders to evaluate and select vigorous seedlings for their breeding programs.

Protein phosphatase 2C clade A members are major signaling components in the ABA-dependent signaling cascade that regulates seed germination. To elucidate the role of PP2CA genes in germination of rice seed, we selected OsPP2C51, which shows highly specific expression in the embryo compared with other protein phosphatases based on microarray data. GUS histochemical assay confirmed that OsPP2C51 is expressed in the seed embryo and that this expression pattern is unique compared with those of other OsPP2CA genes. Data obtained from germination assays and alpha-amylase assays of OsPP2C51 knockout and overexpression lines suggest that OsPP2C51 positively regulates seed germination in rice. The expression of alpha-amylase synthesizing genes was high in OsPP2C51 overexpressing plants, suggesting that elevated levels of OsPP2C51 might enhance gene expression related to higher rates of seed germination. Analysis of protein interactions between ABA signaling components showed that OsPP2C51 interacts with OsPYL/RCAR5 in an ABA-dependent manner. Furthermore, interactions were observed between OsPP2C51 and SAPK2, and between OsPP2C51 and OsbZIP10 and we found out that OsPP2C51 can dephosphorylates OsbZIP10. These findings suggest the existence of a new branch in ABA signaling pathway consisting of OsPYL/RCAR-OsPP2C-bZIP apart from the previously reported OsPYL/RCAR-OsPP2C-SAPK-bZIP. Overall, our result suggests that OsPP2C51 is a positive regulator of seed germination by directly suppressing active phosphorylated OsbZIP10.

Effects of three supplemental calcium (Ca++; 2.5, 5.0, and 10 mole m−3) concentrations on ion accumulation, transport, selectivity, and plant growth of salt-sensitive species, Brassica rapa ‘Sani’ in saline medium were investigated. Supplemental Ca++ in the presence of 125 mol m−3 sodium chloride (NaCl) did not improve the dry weight and leaf area indicating no role played by Ca++ in the alleviation of salinity induced growth inhibition. However, calcium chloride (CaCl2) did significantly affect sodium (Na+), potassium (K+), and Ca++ contents of roots and shoots. The ion contents of shoots were significantly greater than those of roots per g dry weight, indicating ion transportation to shoots is greater than ion accumulation in roots. Use of CaCl2 in 125 mol m−3 NaCl reduced the Na+ content but increased K+ and Ca++ contents in shoots. Sodium contents in shoots differed among the supplemental Ca++ treatments indicating the role of CaCl2 in Na+ ions transportation. Calcium content in shoots declin...

The success of salt tolerance breeding programs employing traditional screening and selection has been limited in the past decades. This study was designed to characterize the genetic diversity within a subset of rice germplasm with different adaptations to saline soils using microsatellit e markers. Salt tolerance was then analyzed among molecularly characterized genotypes. Plants of 33 genotypes were grown in sand tanks under greenhouse condition and irrigated with Yoshida nutrient solution. Two salt treatments were imposed with electrical conductivities of 0.9 dS m −1 (control) and 6.5 dS m −1 (6:1 molar ratio of NaCl and CaCl2). A total of 123 alleles were generated at 25 microsatellite loci among the 33 genotypes. Genotypes of japonica rice grouped into three clusters and those of indica rice grouped into two clusters based on microsatellite markers. Thirty percent of the alleles detected in 20 breeding lines were not identified in the cultivars analyzed. These alleles may provide favorable allelic combinations if the breeding lines are used for intercrosses. Physiological and morphological characters under salt stress were significantly ( P = 0.05) different among microsatellite clusters. There was a highly significant correlation ( r =− 0.25; P = 0.005) between the matrices of Jaccard genetic similarity based on microsatellite markers and taxonomic distance based on ion data. These results indicate that the adaptation of rice to saline soils is different among genotypes with diverse genetic backgrounds. Implications for engineering salt tolerance are: (1) Improving salt tolerance can be achieved by selecting parental genotypes prior to intercrossing based on microsatellite markers. (2) Phenotypic variation of ion contents in segregating populations can be increased by selecting parental genotypes prior to intercrossing based on microsatellite markers. (3) Different salt tolerance components can be combined into a cultivar by intercrossing genotypes from different microsatellite clusters with diverse salt tolerance mechanisms. © 2003 Elsevier Ireland Ltd. All rights reserved.

The importance of plant secondary metabolites for both mankind and the plant itself has long been established. However, despite extensive research on plant secondary metabolites, plant secondary metabolism and its regulation still remained poorly characterized. In this present study, cDNA-amplified fragment length polymorphism (cDNA-AFLP) transcript profiling was applied to generate the expression profiles of Polygonum minus in response to salicylic acid (SA) and methyl jasmonate (MeJA) elicitations. This study reveals two different sets of genes induced by SA and MeJA, respectively where stress-related genes were proved to lead to the expression of genes involved in plant secondary metabolite biosynthetic pathways. A total of 98 transcript-derived fragments (TDFs) were up-regulated, including 46 from SA-treated and 52 from MeJA-treated samples. The cDNA-AFLP transcripts generated using 64 different Mse1/Taq1 primer combinations showed that treatments with SA and MeJA induced genes mostly involved in scavenging reactive oxygen species, including zeaxanthin epoxidase, cytosolic ascorbate peroxidase 1 and peroxidase. Of these stress-related genes, 15 % of other annotated TDFs are involved mainly in secondary metabolic processes where among these, two genes encoding (+)-delta cadinene synthase and cinnamoyl-CoA reductase were highlighted.

Mitogen-activated protein kinases (MAPK) signalling cascades are activated by extracellular stimuli such as environmental stresses and pathogens in higher eukaryotic plants. To know more about MAPK signalling in plants, a MAPK cDNA clone, OsMAPK33, was isolated from rice. The gene is mainly induced by drought stress. In phylogenetic analysis, OsMAPK33 (Os02g0148100) showed approximately 47–93% identity at the amino acid level with other plant MAPKs. It was found to exhibit organ-specific expression with relatively higher expression in leaves as compared with roots or stems, and to exist as a single copy in the rice genome. To investigate the biological functions of OsMAPK33 in rice MAPK signalling, transgenic rice plants that either overexpressed or suppressed OsMAPK33 were made. Under dehydration conditions, the suppressed lines showed lower osmotic potential compared with that of wild-type plants, suggesting a role of OsMAPK33 in osmotic homeostasis. Nonetheless, the suppressed lines did not display any significant difference in drought tolerance compared with their wild-type plants. With increased salinity, there was still no difference in salt tolerance between OsMAPK33-suppressed lines and their wild-type plants. However, the overexpressing lines showed greater reduction in biomass accumulation and higher sodium uptake into cells, resulting in a lower K+/Na+ ratio inside the cell than that in the wild-type plants and OsMAPK33-suppressed lines. These results suggest that OsMAPK33 could play a negative role in salt tolerance through unfavourable ion homeostasis. Gene expression profiling of OsMAPK33 transgenic lines through rice DNA chip analysis showed that OsMAPK33 altered expression of genes involved in ion transport. Further characterization of downstream components will elucidate various biological functions of this novel rice MAPK.

Calcineurin B-like protein-interacting protein kinases (CIPKs) are a group of typical Ser/Thr protein kinases that mediate calcium signals. Extensive studies using Arabidopsis plants have demonstrated that many calcium signatures that activate CIPKs originate from abiotic stresses. However, there are few reports on the functional demonstration of CIPKs in other plants, especially in grasses. In this study, we used a loss-of-function mutation to characterize the function of the rice CIPK gene OsCIPK31. Exposure to high concentrations of NaCl or mannitol effected a rapid and transient enhancement of OsCIPK31 expression. These findings were observed only in the light. However, longer exposure to most stresses resulted in downregulation of OsCIPK31 expression in both the presence and absence of light. To determine the physiological roles of OsCIPK31 in rice plants, the sensitivity of oscipk31::Ds, which is a transposon Ds insertion mutant, to abiotic stresses was examined during germination and seedling stages. oscipk31::Ds mutants exhibited hypersensitive phenotypes to ABA, salt, mannitol, and glucose. Compared with wild-type rice plants, mutants exhibited retarded germination and slow seedling growth. In addition, oscipk31::Ds seedlings exhibited enhanced expression of several stress-responsive genes after exposure to these abiotic stresses. However, the expression of ABA metabolic genes and the endogenous levels of ABA were not altered significantly in the oscipk31::Ds mutant. This study demonstrated that rice plants use OsCIPK31 to modulate responses to abiotic stresses during the seed germination and seedling stages and to modulate the expression of stress-responsive genes.

Genetically modified herbicide-tolerant (GMHT) and non-GM chile pepper plants (Capsicum annuum L. cv. `Subicho') were grown in an isolated GMO field to evaluate horticultural characteristics. Phosphinotricin acetyltransferase (bar gene), which has a function of herbicide-resistance in plant, was introduced into chile pepper plants using the protocol of Agrobacterium-mediated transformation. Thirty nine characteristics were evaluated, consisting of 14 qualitative, 18 quantitative and 7 other characters. The evaluations were achieved by visual assessment for qualitative characteristics and numerical measurement for quantitative ones. The GMHT and non-GM plants did not differ in the 39 characteristics tested. Pollen viability and germination rate were not significant different between the GMHT plants and the non-GM plants. These results indicated that genetic transformation of bar gene into the chile pepper did not affect those horticultural characteristics and pollen viability.