Oryza Sativa L

Bacterial blight of rice, caused by Xanthomonas oryzae pv. oryzae (Xoo), is the most devastating disease of rice (Oryza sativa L). Rice lines that carry resistance (R) gene Xa10 confer race-specific resistance to Xoo strains harboring avirulence (Avr) gene avrXa10. Here we report on genetic study, disease evaluation and fine genetic mapping of the Xa10 gene. The inheritance of Xa10-mediated resistance to PXO99A(pHM1avrXa10) did not follow typical Mendelian inheritance for single dominant gene in F2 population derived from IR24 × IRBB10. A locus might be present in IRBB10 that caused distorted segregation in F2 population. To eliminate this locus, an F3 population (F3-65) was identified, which showed normal Mendelian segregation ratio of 3:1 for resistance and susceptibility. A new near-isogenic line (F3-65-1743) of Xa10 in IR24 genetic background was developed and designated as IRBB10A. IRBB10A retained similar resistance specificity as that of IRBB10 and provided complete resistance to PXO99A(pHM1avrXa10) from seedling to adult stages. Linkage analysis using existing RFLP markers and F2 mapping population mapped the Xa10 locus to the proximal side of E1981S with genetic distance at 0.93 cM. With five new RFLP markers developed from the genomic sequence of Nipponbare, Xa10 was finely mapped at genetic distance of 0.28 cM between proximal marker M491 and distal marker M419 and co-segregated with markers S723 and M604. The physical distance between M491 and M419 on Nipponbare genome is 74 kb. Seven genes have been annotated from this 74-kb region and six of them are possible Xa10 candidates. The results of this study will be useful in Xa10 cloning and marker-assisted breeding.

Allelopathy in rice (Oryza sativa, L.) effective against weeds has been found in about 3.5% of tested rice germplasm in both laboratory and field experimentation. However, the allelochemicals responsible for growth inhibition of rice-associated weeds have not yet been identified. In the literature, phenolic acids are often mentioned as putative allelochemicals. If phenolic acids commonly reach growth inhibitory concentrations in rice ecosystems, it must be expected that the degree of tolerance to phenolic acids will vary among traditional rice cultivars or plant species adapted to rice environments having inherently different phenolic acid concentrations. Phenolic acids concentrations are normally greater in submerged than in aerobic soils. A dose-response study, however, showed that seedlings of rice cultivars adapted to submerged anaerobic soils did not have higher level of tolerance against p-hydroxybenzoic acid than did seedlings of varieties adapted to aerobic upland soils. Mor...

The possible involvement of activated oxygen species in the mechanism of damage by NaCl stress was studied in leaves of four varieties of rice (Oryza sativa L.) exhibiting different sensitivities to NaCl. The 3-week-old rice seedlings were subjected to 0, 6 and 12 dS m −1 salinity ...

In Asian cultivated rice (Oryza sativa L.), aroma is one of the most valuable traits in grain quality and 2-ACP is the main volatile compound contributing to the characteristic popcorn-like odour of aromatic rices. Although the major locus for grain fragrance (frg gene) has been described recently in Basmati rice, this gene has not been characterised in true japonica varieties and molecular information available on the genetic diversity and evolutionary origin of this gene among the different varieties is still limited. Here we report on characterisation of the frg gene in the Azucena variety, one of the few aromatic japonica cultivars. We used a RIL population from a cross between Azucena and IR64, a non-aromatic indica, the reference genomic sequence of Nipponbare (japonica) and 93–11 (indica) as well as an Azucena BAC library, to identify the major fragance gene in Azucena. We thus identified a betaine aldehyde dehydrogenase gene, badh2, as the candidate locus responsible for aroma, which presented exactly the same mutation as that identified in Basmati and Jasmine-like rices. Comparative genomic analyses showed very high sequence conservation between Azucena and Nipponbare BADH2, and a MITE was identified in the promotor region of the BADH2 allele in 93–11. The badh2 mutation and MITE were surveyed in a representative rice collection, including traditional aromatic and non-aromatic rice varieties, and strongly suggested a monophylogenetic origin of this badh2 mutation in Asian cultivated rices. Altogether these new data are discussed here in the light of current hypotheses on the origin of rice genetic diversity.

A lysimeter study was conducted to assess the impact of some crop rotations and gypsum on amelioration of a calcareous saline-sodic soil (pHs = 8.4, ECe = 8.6 dS m-1, SAR = 37.7, CaCO3 = 81.1 g kg-1) irrigated with marginal-quality water (EC = 1.0 dS m-1, SAR = 4.2, RSC = ...

A research entitled "Evaluation of Coastal Sand Land Suitability for Rice Plant Development (Oryza sativa L.) in Sanden District, Bantul Regency, Yogyakarta Province" aims to determine the characteristics of land and the suitability level of coastal sand land for rice plant in Sanden District. The research was conducted from January to May 2018. The data in this research were obtained by using the survey method, the location was chosen purposively and the data were analyzed by matching method to evaluate the coastal sand land suitability of Sanden District for rice plants. The results of laboratory analysis showed that the coastal sand land in Sanden District was characterized as sand texture, very fast soil drainage, medium effective depth, salinity level of 6-11 mmosh/cm, low cation exchange capacity (CEC), low saturation base, neutral pH, very low C-Organic, no flood hazard, moderate total N content, low to very low K content and P content was very high. These results showed that the actual and potential land suitability for rice plant in the coastal sand land of Sanden District had the same unit level those were N2rc-1,2 or and N2x-1 or not suitable permanently with limiting factors of drainage texture and soil salinity.

Soil pH and Eh play an important role in reducing heavy metal solubility in paddy soils. To assess the effects of flooding and organic matter application on changes in Eh, pH and solubility of Cd, Ni and Zn in contaminated soils, a growth chamber experiment with rice plants(Oryza sativa L.) was conducted. Eh values decreased with flooding time in all three soils. The changes of Eh values were more negative in the tannery and alum shale contaminated soils and stabilized after 30 days of submergence. The Eh changes were not so large in the city sewage contaminated soil as in the other two soils. Soil pH increased with flooding time. During the 65 days of submergence, pH increase was about 2, 1 and 0.6units in the tannery, city sewage and alum shale soils, respectively. In all three soils, organic matter treated soil showed lower Eh and higher pH values compared to untreated soil. Concentration of Cd, Ni and Zn in soil solution decreased with flooding time. The solution concentration of Cd and Zn in the city sewage soil and of Ni in the tannery soil was higher than in the alum shale soil. The soluble metal concentration in all three soils was lower inorganic matter treated soils. Reduced solubility of metals in the organic matter treated soils was related to larger changes of Eh and pH values in these soils. Correlation coefficient calculations also showed that metal solubility decreased with decreased Eh and increased pH in the soil solution.

The brown planthopper (BPH) is one of the most serious insect pests of rice throughout Asia. In this study, we constructed a linkage map to determine the locus for BPH resistance gene, using an F2 population from a cross between a resistant indica cultivar, ‘Col.5 Thailand’, and a susceptible cultivar ‘02428’. Insect resistance was evaluated using 147 F3 families and the genotype of each F2 plant was inferred from the phenotype of corresponding F3 families. Two QTLs was detected on chromosome 2 (explains 29.4% phenotypic variation) and 6 (46.2% variation explained) associated with resistance to BPH in the mapping population. Comparison of the chromosomal locations and reactions to BPH biotypes indicated that the gene on chromosome 6 is different from at least 18 of the 19 previously identified BPH resistance genes. These two genes have large effects on BPH resistance and may be a useful BPH resistance resource for rice breeding programs.

The climatic conditions of North East India are favorable for trees to produce biomass in the form of foliage and twigs that are very rich in essential plant nutrients. Effective recycling of this biomass would help meet the nutritional requirement of crops. Field experiment was conducted in kharif (June–November) seasons for consecutive 3 years (2003, 2004, and 2005) at a lowland farm, subtropical Meghalaya (950 m asl), India, to study the effect of incorporating N-fixing tree biomass (leaves and twigs) on productivity and economics of rice (Oryza sativa L.). Fresh biomass from five tree species including erythrina (Erythrina indica), acacia (Acacia auriculiformis), alder (Alnus nepalensis), tree bean (Parkia roxburghii), and cassia (Cassia siamea) were applied at a rate of 10 t/ha. A plot with recommended NPK rate (80:60:40 kg/ha) and a control plot were also maintained for comparison. Among the tree species used, the biomass of E. indica was superior in terms of N (3.2%), P (0.47%), K (1.5%), and organic C (18.8%) contents. In the first and second year, productivity of rice was high with recommended NPK rate (4.82 t/ha in 2003 and 5.08 t/ha in 2004) followed by rice with incorporation of E. indica biomass. In the third year of the experiment, effects of tree biomass incorporation on growth, yield and yield attributes surpassed those of the recommended NPK rate, with the exception of A. nepalensis biomass. In that year, the maximum grain yield was recorded under E. indica treatments, exceeding yields under the recommended NPK rate and control by 10.5 and 69.3%, respectively. Incorporation of tree biomass significantly improved (14–19% N and 62–83% P over control) the stocks of soil available N and P. Treatment with A. auriculiformis and E. indica biomass resulted in significantly higher soil organic C content which exceeded that under the recommended NPK rate by 10.3 and 9.2% and that under the control by 15.2 and 14%, respectively higher by species. The highest net return was recorded with the recommended NPK rate ($ 381/ha) followed by E. indica ($ 303/ha). Since the local farmers are resource poor and rarely use chemical fertilizers, application of plant biomass, particularly that of E. indica, to lowland rice is a recommendable option to improve productivity and income, and to sustain soil health.

The possible involvement of activated oxygen species in the mechanism of damage by NaCl stress was studied in leaves of four varieties of rice (Oryza sativa L.) exhibiting different sensitivities to NaCl. The 3-week-old rice seedlings were subjected to 0, 6 and 12 dS m −1 salinity ...

A simple and efficient protocol for the Agrobacterium-mediated transformation of an agronomically useful abiotic sensitive popular indica rice cv. ADT 43 has been developed. Initiation of calli were best achieved from the leaf bases of 4 days old rice seedlings on LS medium supplemented with 2.5mg/L 2,4-D and 1.0mg/L thiamine-HCl. Rice calli immersed in Agrobacterium suspension (strain EHA 105, OD(600)=0.8) were co-cultured on LS30-AsPC medium for 2 days at 25±2°C in the dark. Based on GUS expression analysis, 10min co-cultivation time with 100μM acetosyringone was found optimum for the delivery of gus gene. Calli were proved to be very sensitive to Agrobacterium infection and we found that the level of necrotic response can be minimized after co-cultivation with 30% LS, 10g/L PVP, 10% coconut water and 250mg/L timentin which improved the final transformation efficiency to 9.33%. Molecular and genetic analysis of transgenic plants reveals the integration, expression and inheritance of transgene in the progeny (T(1)) of these plants. The copy number of transgenes has been found to vary from 1 to 2 in transgenic plants (T(0) and T(1)).

Blast is a serious disease caused by a fungal pathogen Pyricularia oryzae Cavara of rice (Oryza sativa L.). The use of resistant varieties is considered one of the most efficient ways of crop protection from the disease. In addition to a large amount of information accumulated during the long history of ge- netic studies on resistance to rice blast, recent

Although F2s are the most informative populations for genetic analysis, it has been difficult to use F2 populations directly for QTL analysis because it is usually difficult to assess the reliability of the data, due to an inability to estimate the experimental errors. In this study, we performed a QTL analysis for yield and yield-component traits of an F2 population based on data from replicated field trials over 2 years using vegetative shoots of ratooned plants, making use of the ratooning habit of rice. The objective of this study was to explore the possibility of conducting QTL analyses directly based on an F2 population by means of ratooning plants. The experimental population was from a cross between ’Zhenshan 97’ and ’Minghui 63’, the parents of ’Shanyou 63’, an elite rice hybrid widely grown in China. A genetic linkage map containing 151 molecular markers was constructed for QTL mapping. A total of 20 distinct QTLs were detected; eight of these were detected in both years and remaining 12 in only 1 year. Compared with the results of our previous analysis of the F2:3 families from the same cross, it was shown that most of the QTLs detected in the ratooned F2 population were also detected in the F2:3 population. However, the estimates of both additive and dominant types of genetic effects for many of the QTLs based on F2 ratoons were substantially larger than those based on F2:3 families. The results indicate that vegetatively ratooned F2 populations may have considerable utility in the mapping of QTLs, especially if dominant types of gene actions are of concern, although there were certain technical limitations in making use of such populations in the experiments.