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Sample records for rice mutator-phenotype derived

  1. On genetic information uncertainty and the mutator phenotype in cancer.

    PubMed

    Chan, Jason Yongsheng

    2012-01-01

    Recent evidence supports the existence of a mutator phenotype in cancer cells, although the mechanistic basis remains unknown. In this paper, it is shown that this enhanced genetic instability is generated by an amplified measurement uncertainty on genetic information during DNA replication. At baseline, an inherent measurement uncertainty implies an imprecision of the recognition, replication and transfer genetic information, and forms the basis for an intrinsic genetic instability in all biological cells. Genetic information is contained in the sequence of DNA bases, each existing due to proton tunnelling, as a coherent superposition of quantum states composed of both the canonical and rare tautomeric forms until decoherence by interaction with DNA polymerase. The result of such a quantum measurement process may be interpreted classically as akin to a Bernoulli trial, whose outcome X is random and can be either of two possibilities, depending on whether the proton is tunnelled (X=1) or not (X=0). This inherent quantum uncertainty is represented by a binary entropy function and quantified in terms of Shannon information entropy H(X)=-P(X=1)log(2)P(X=1)-P(X=0)log(2)P(X=0). Enhanced genetic instability may either be directly derived from amplified uncertainty induced by increases in quantum and thermodynamic fluctuation, or indirectly arise from the loss of natural uncertainty reduction mechanisms.

  2. Postnatal Loss of P/Q-type Channels Confined to Rhombic Lip Derived Neurons Alters Synaptic Transmission at the Parallel Fiber to Purkinje Cell Synapse and Replicates Genomic Cacna1a Mutation Phenotype of Ataxia and Seizures in Mice

    PubMed Central

    Maejima, Takashi; Wollenweber, Patric; Teusner, Lena U. C.; Noebels, Jeffrey L.; Herlitze, Stefan; Mark, Melanie D.

    2013-01-01

    Ataxia, episodic dyskinesia and thalamocortical seizures are associated with an inherited loss of P/Q-type voltage-gated Ca2+ channel function. P/Q-type channels are widely expressed throughout the neuraxis, obscuring identification of the critical networks underlying these complex neurological disorders. We recently showed that the conditional postnatal loss of P/Q-type channels in cerebellar Purkinje cells (PCs) in mice (purky) leads to these aberrant phenotypes, suggesting that intrinsic alteration in PC output is a sufficient pathogenic factor for disease initiation. The question arises whether P/Q-type channel deletion confined to a single upstream cerebellar synapse might induce the pathophysiological abnormality of genomically inherited P/Q-type channel disorders. PCs integrate two excitatory inputs, climbing fibers from inferior olive and parallel fibers (PFs) from granule cells (GCs) that receive mossy fiber (MF) input derived from precerebellar nuclei. In this paper, we introduce a new mouse model with a selective knock-out of P/Q-type channels in rhombic lip derived neurons including PF- and MF-pathways (quirky). We found that in quirky mice, PF-PC synaptic transmission is reduced during low-frequency stimulation. Using focal light stimulation of GCs that express optogenetic light-sensitive channels, channelrhodopsin-2, we found that modulation of PC firing via GC input is reduced in quirky mice. Phenotypic analysis revealed that quirky mice display ataxia, dyskinesia and absence epilepsy. These results suggest that developmental alteration of patterned input confined to only one of the main afferent cerebellar excitatory synaptic pathways has a significant role in generating the neurological phenotype associated with the global genomic loss of P/Q-type channel function. PMID:23516282

  3. Evidence of a Mild Mutator Phenotype in Cambodian Plasmodium falciparum Malaria Parasites.

    PubMed

    Lee, Andrew H; Fidock, David A

    2016-01-01

    Malaria control efforts have been continuously stymied by drug-resistant strains of Plasmodium falciparum, which typically originate in Southeast Asia prior to spreading into high-transmission settings in Africa. One earlier proposed explanation for Southeast Asia being a hotbed of resistance has been the hypermutability or "Accelerated Resistance to Multiple Drugs" (ARMD) phenotype, whereby multidrug-resistant Southeast Asian parasites were reported to exhibit 1,000-fold higher rates of resistance to unrelated antimalarial agents when compared to drug-sensitive parasites. However, three recent studies do not recapitulate this hypermutability phenotype. Intriguingly, genome sequencing of recently derived multidrug-resistant Cambodian isolates has identified a high proportion of DNA repair gene mutations in multidrug-resistant parasites, suggesting their potential role in shaping local parasite evolution. By adapting fluctuation assays for use in P. falciparum, we have examined the in vitro mutation rates of five recent Cambodian isolates and three reference laboratory strains. For these studies we also generated a knockout parasite line lacking the DNA repair factor Exonuclease I. In these assays, parasites were typed for their ability to acquire resistance to KAE609, currently in advanced clinical trials, yielding 13 novel mutations in the Na+/H+-ATPase PfATP4, the primary resistance determinant. We observed no evidence of hypermutability. Instead, we found evidence of a mild mutator (up to a 3.4-fold increase in mutation rate) phenotype in two artemisinin-resistant Cambodian isolates, which carry DNA repair gene mutations. We observed that one such mutation in the Mismatch Repair protein Mlh1 contributes to the mild mutator phenotype when modeled in yeast (scmlh1-P157S). Compared to basal rates of mutation, a mild mutator phenotype may provide a greater overall benefit for parasites in Southeast Asia in terms of generating drug resistance without incurring

  4. Mutator phenotype of MUTYH-null mouse embryonic stem cells.

    PubMed

    Hirano, Seiki; Tominaga, Yohei; Ichinoe, Akimasa; Ushijima, Yasuhiro; Tsuchimoto, Daisuke; Honda-Ohnishi, Yoko; Ohtsubo, Toshio; Sakumi, Kunihiko; Nakabeppu, Yusaku

    2003-10-03

    To evaluate the antimutagenic role of a mammalian mutY homolog, namely the Mutyh gene, which encodes adenine DNA glycosylase excising adenine misincorporated opposite 8-oxoguanine in the template DNA, we generated MUTYH-null mouse embryonic stem (ES) cells. In the MUTYH-null cells carrying no adenine DNA glycosylase activity, the spontaneous mutation rate increased 2-fold in comparison with wild type cells. The expression of wild type mMUTYH or mutant mMUTYH protein with amino acid substitutions at the proliferating cell nuclear antigen binding motif restored the increased spontaneous mutation rates of the MUTYH-null ES cells to the wild type level. The expression of a mutant mMUTYH protein with an amino acid substitution (G365D) that corresponds to a germ-line mutation (G382D) found in patients with multiple colorectal adenomas could not suppress the elevated spontaneous mutation rate of the MUTYH-null ES cells. Although the recombinant mMUTYH(G365D) purified from Escherichia coli cells had a substantial level of adenine DNA glycosylase activity as did wild type MUTYH, no adenine DNA glycosylase activity was detected in the MUTYH-null ES cells expressing the mMUTYH(G365D) mutant protein. The germ-line mutation (G382D) of the human MUTYH gene is therefore likely to be responsible for the occurrence of a mutator phenotype in these patients.

  5. Impact of a mutator phenotype on motility and cell adherence in Salmonella Heidelberg.

    PubMed

    Le Bars, Hervé; Le Gall-David, Sandrine; Renoux, Virginie Madeleine; Bonnaure-Mallet, Martine; Jolivet-Gougeon, Anne; Bousarghin, Latifa

    2012-09-14

    In this study, we investigated adherence and motility of the hypermutator Salmonella enterica Heidelberg B182 bovine strain related to a 12bp deletion in mutS. This mutator phenotype was associated with increased adherence to epithelial cells and with high expression of fimA as shown by real-time RT-PCR. Motility studies showed that fliC were up-regulated in the B182 strain, while fljA and fljB were down-regulated. In order to determine if mutated mutS is implicated in this genes expression, isogenic strains, derived from a WT strain, containing the 12bp deletion in mutS (Δ12bpmutS) or an inactivated mutS (ΔmutS) were generated. Δ12bpmutS and ΔmutS strains showed a spontaneous mutation rate similar to the environmental strain B182, but exhibited lower adherence capacity and fimA expression. In contrast to the fimbriae genes, in Δ12bpmutS, fliC expression was up-regulated, but fljA and fljB expression were decreased, as in the B182 strain. Only fljB expression was increased in ΔmutS mutants. Taken together, our data suggest that mutS alteration does not influence fimbriae expression but can impact flagella genes.

  6. Strong mutator phenotype drives faster adaptation from growth on glucose to growth on acetate in Salmonella.

    PubMed

    Le Bars, Hervé; Bonnaure-Mallet, Martine; Barloy-Hubler, Frédérique; Jolivet-Gougeon, Anne; Bousarghin, Latifa

    2014-10-01

    The metabolic adaptation of strong mutator strains was studied to better understand the link between the strong mutator phenotype and virulence. Analysis of the growth curves of isogenic strains of Salmonella, which were previously grown in M63 glucose media, revealed that the exponential phase of growth was reached earlier in an M63 acetate medium with strong mutator strains (mutated in mutS or in mutL) than with normomutator strains (P<0.05). Complemented strains confirmed the direct role of the strong mutator phenotype in this faster metabolic adaptation to the assimilation of acetate. In a mixed cell population, proliferation of strong mutators over normomutators was observed when the carbon source was switched from glucose to acetate. These results add to the sparse body of knowledge about strong mutators and highlight the selective advantage conferred by the strong mutator phenotype to adapt to a switch of carbon source in the environment. This work may provide clinically useful information given that there is a high prevalence of strong mutators among pathogenic strains of Salmonella and that acetate is the principal short chain fatty acid of the human terminal ileum and colon where Salmonella infection is localized.

  7. Polymorphisms, Chromosomal Rearrangements, and Mutator Phenotype Development during Experimental Evolution of Lactobacillus rhamnosus GG

    PubMed Central

    Douillard, François P.; Ribbera, Angela; Xiao, Kun; Ritari, Jarmo; Rasinkangas, Pia; Paulin, Lars; Palva, Airi; Hao, Yanling

    2016-01-01

    ABSTRACT Lactobacillus rhamnosus GG is a lactic acid bacterium widely marketed by the food industry. Its genomic analysis led to the identification of a gene cluster encoding mucus-binding SpaCBA pili, which is located in a genomic island enriched in insertion sequence (IS) elements. In the present study, we analyzed by genome-wide resequencing the genomic integrity of L. rhamnosus GG in four distinct evolutionary experiments conducted for approximately 1,000 generations under conditions of no stress or salt, bile, and repetitive-shearing stress. Under both stress-free and salt-induced stress conditions, the GG population (excluding the mutator lineage in the stress-free series [see below]) accumulated only a few single nucleotide polymorphisms (SNPs) and no frequent chromosomal rearrangements. In contrast, in the presence of bile salts or repetitive shearing stress, some IS elements were found to be activated, resulting in the deletion of large chromosomal segments that include the spaCBA-srtC1 pilus gene cluster. Remarkably, a high number of SNPs were found in three strains obtained after 900 generations of stress-free growth. Detailed analysis showed that these three strains derived from a founder mutant with an altered DNA polymerase subunit that resulted in a mutator phenotype. The present work confirms the stability of the pilus production phenotype in L. rhamnosus GG under stress-free conditions, highlights the possible evolutionary scenarios that may occur when this probiotic strain is extensively cultured, and identifies external factors that affect the chromosomal integrity of GG. The results provide mechanistic insights into the stability of GG in regard to its extensive use in probiotic and other functional food products. IMPORTANCE Lactobacillus rhamnosus GG is a widely marketed probiotic strain that has been used in numerous clinical studies to assess its health-promoting properties. Hence, the stability of the probiotic functions of L. rhamnosus GG

  8. Bioremediation of Parboiled Rice Effluent Supplemented with Biodiesel-Derived Glycerol Using Pichia pastoris X-33

    PubMed Central

    Gil de los Santos, Diego; Gil Turnes, Carlos; Rochedo Conceição, Fabricio

    2012-01-01

    This paper describes the use of Pichia pastoris X-33 as a bioremediator to reduce the chemical oxygen demand (COD), total Kjeldahl nitrogen (TKN), and phosphorus (P-PO4   3−), after culture in parboiled rice effluent supplemented with p.a. glycerol or a glycerol by-product of the biodiesel industry. The greatest reduction in the COD (55%), TKN (45%), and P-PO4   3− (52%) of the effluent was observed in cultures of P. pastoris X-33 supplemented with 15 g ·L−1 of biodiesel-derived glycerol. Furthermore, the overall biomass yield was 2.1 g ·L−1. These data suggest that biodiesel-derived glycerol is an efficient carbon source for the bioremediation of parboiled rice effluent and biomass production. PMID:22919327

  9. Removal of hexavalent chromium from acidic aqueous solutions using rice straw-derived carbon.

    PubMed

    Hsu, Nai-Hua; Wang, Shan-Li; Liao, Yi-Huei; Huang, Shiuh-Tsuen; Tzou, Yu-Min; Huang, Yuh-Ming

    2009-11-15

    This study evaluates the removal of Cr(VI) from water by carbon derived from the burning of rice straw. Rice straw was burned in the air to obtain rice carbon (RC), and then the removal of Cr(VI) by RC was investigated under various pHs and ionic strengths. After the experiments, the oxidation state of Cr bound to RC was analyzed using X-ray photoelectron spectroscopy, which revealed that Cr bound to RC was predominately in the trivalent form. The results showed that upon reacting with RC, Cr(VI) was reduced to Cr(III), which was either adsorbed on RC or released back into solution. The extent and rate of Cr(VI) removal increased with decreasing solution pH because the Cr(VI) adsorption and the subsequent reduction of adsorbed Cr(VI) to Cr(III) both occur preferentially at low pH. The minimal effect of ionic strength on the rates of Cr(VI) removal and Cr(III) adsorption indicated specific interactions between Cr(VI)/Cr(III) and their surface binding sites on RC. These results suggest that rice straw-based carbon may be effectively used at low pH as a substitute for activated carbon for the treatment of Cr(VI) contaminated water.

  10. Colonization of rice roots with methanogenic archaea controls photosynthesis-derived methane emission.

    PubMed

    Pump, Judith; Pratscher, Jennifer; Conrad, Ralf

    2015-07-01

    The methane emitted from rice fields originates to a large part (up to 60%) from plant photosynthesis and is formed on the rice roots by methanogenic archaea. To investigate to which extent root colonization controls methane (CH4 ) emission, we pulse-labeled rice microcosms with (13) CO2 to determine the rates of (13) CH4 emission exclusively derived from photosynthates. We also measured emission of total CH4 ((12+13) CH4 ), which was largely produced in the soil. The total abundances of archaea and methanogens on the roots and in the soil were analysed by quantitative polymerase chain reaction of the archaeal 16S rRNA gene and the mcrA gene coding for a subunit of the methyl coenzyme M reductase respectively. The composition of archaeal and methanogenic communities was determined with terminal restriction fragment length polymorphism (T-RFLP). During the vegetative growth stages, emission rates of (13) CH4 linearly increased with the abundance of methanogenic archaea on the roots and then decreased during the last plant growth stage. Rates of (13) CH4 emission and the abundance of methanogenic archaea were lower when the rice was grown in quartz-vermiculite with only 10% rice soil. Rates of total CH4 emission were not systematically related to the abundance of methanogenic archaea in soil plus roots. The composition of the archaeal communities was similar under all conditions; however, the analysis of mcrA genes indicated that the methanogens differed between the soil and root. Our results support the hypothesis that rates of photosynthesis-driven CH4 emission are limited by the abundance of methanogens on the roots.

  11. Energy life cycle assessment of rice straw bio-energy derived from potential gasification technologies.

    PubMed

    Shie, Je-Lueng; Chang, Ching-Yuan; Chen, Ci-Syuan; Shaw, Dai-Gee; Chen, Yi-Hung; Kuan, Wen-Hui; Ma, Hsiao-Kan

    2011-06-01

    To be a viable alternative, a biofuel should provide a net energy gain and be capable of being produced in large quantities without reducing food supplies. Amounts of agricultural waste are produced and require treatment, with rice straw contributing the greatest source of such potential bio-fuel in Taiwan. Through life-cycle accounting, several energy indicators and four potential gasification technologies (PGT) were evaluated. The input energy steps for the energy life cycle assessment (ELCA) include collection, generator, torrefaction, crushing, briquetting, transportation, energy production, condensation, air pollution control and distribution of biofuels to the point of end use. Every PGT has a positive energy benefit. The input of energy required for the transportation and pre-treatment are major steps in the ELCA. On-site briquetting of refused-derived fuel (RDF) provides an alternative means of reducing transportation energy requirements. Bio-energy sources, such as waste rice straw, provide an ideal material for the bio-fuel plant.

  12. Mapping rice cropping systems using Landsat-derived Renormalized Index of Normalized Difference Vegetation Index (RNDVI) in the Poyang Lake Region, China

    NASA Astrophysics Data System (ADS)

    Li, Peng; Jiang, Luguang; Feng, Zhiming; Sheldon, Sage; Xiao, Xiangming

    2016-06-01

    Mapping rice cropping systems with optical imagery in multiple cropping regions is challenging due to cloud contamination and data availability; development of a phenology-based algorithm with a reduced data demand is essential. In this study, the Landsat-derived Renormalized Index of Normalized Difference Vegetation Index (RNDVI) was proposed based on two temporal windows in which the NDVI values of single and early (or late) rice display inverse changes, and then applied to discriminate rice cropping systems. The Poyang Lake Region (PLR), characterized by a typical cropping system of single cropping rice (SCR, or single rice) and double cropping rice (DCR, including early rice and late rice), was selected as a testing area. The results showed that NDVI data derived from Landsat time-series at eight to sixteen days captures the temporal development of paddy rice. There are two key phenological stages during the overlapping growth period in which the NDVI values of SCR and DCR change inversely, namely the ripening phase of early rice and the growing phase of single rice as well as the ripening stage of single rice and the growing stage of late rice. NDVI derived from scenes in two temporal windows, specifically early August and early October, was used to construct the RNDVI for discriminating rice cropping systems in the polder area of the PLR, China. Comparison with ground truth data indicates high classification accuracy. The RNDVI approach highlights the inverse variations of NDVI values due to the difference of rice growth between two temporal windows. This makes the discrimination of rice cropping systems straightforward as it only needs to distinguish whether the candidate rice type is in the period of growth (RNDVI<0) or senescence (RNDVI>0).

  13. Mutator Phenotype and DNA Double-Strand Break Repair in BLM Helicase-Deficient Human Cells

    PubMed Central

    Suzuki, Tetsuya; Yasui, Manabu

    2016-01-01

    Bloom syndrome (BS), an autosomal recessive disorder of the BLM gene, predisposes sufferers to various cancers. To investigate the mutator phenotype and genetic consequences of DNA double-strand breaks (DSBs) in BS cells, we developed BLM helicase-deficient human cells by disrupting the BLM gene. Cells with a loss of heterozygosity (LOH) due to homologous recombination (HR) or nonhomologous end joining (NHEJ) can be restored with or without site-directed DSB induction. BLM cells exhibited a high frequency of spontaneous interallelic HR with crossover, but noncrossover events with long-tract gene conversions also occurred. Despite the highly interallelic HR events, BLM cells predominantly produced hemizygous LOH by spontaneous deletion. These phenotypes manifested during repair of DSBs. Both NHEJ and HR appropriately repaired DSBs in BLM cells, resulting in hemizygous and homozygous LOHs, respectively. However, the magnitude of the LOH was exacerbated in BLM cells, as evidenced by large deletions and long-tract gene conversions with crossover. BLM helicase suppresses the elongation of branch migration and crossover of double Holliday junctions (HJs) during HR repair, and a deficiency in this enzyme causes collapse, abnormal elongation, and/or preferable resolution to crossover of double HJs, resulting in a large-scale LOH. This mechanism underlies the predisposition for cancer in BS. PMID:27601585

  14. Different Bacterial Populations Associated with the Roots and Rhizosphere of Rice Incorporate Plant-Derived Carbon

    PubMed Central

    Hernández, Marcela; Yuan, Quan; Conrad, Ralf

    2015-01-01

    Microorganisms associated with the roots of plants have an important function in plant growth and in soil carbon sequestration. Rice cultivation is the second largest anthropogenic source of atmospheric CH4, which is a significant greenhouse gas. Up to 60% of fixed carbon formed by photosynthesis in plants is transported below ground, much of it as root exudates that are consumed by microorganisms. A stable isotope probing (SIP) approach was used to identify microorganisms using plant carbon in association with the roots and rhizosphere of rice plants. Rice plants grown in Italian paddy soil were labeled with 13CO2 for 10 days. RNA was extracted from root material and rhizosphere soil and subjected to cesium gradient centrifugation followed by 16S rRNA amplicon pyrosequencing to identify microorganisms enriched with 13C. Thirty operational taxonomic units (OTUs) were labeled and mostly corresponded to Proteobacteria (13 OTUs) and Verrucomicrobia (8 OTUs). These OTUs were affiliated with the Alphaproteobacteria, Betaproteobacteria, and Deltaproteobacteria classes of Proteobacteria and the “Spartobacteria” and Opitutae classes of Verrucomicrobia. In general, different bacterial groups were labeled in the root and rhizosphere, reflecting different physicochemical characteristics of these locations. The labeled OTUs in the root compartment corresponded to a greater proportion of the 16S rRNA sequences (∼20%) than did those in the rhizosphere (∼4%), indicating that a proportion of the active microbial community on the roots greater than that in the rhizosphere incorporated plant-derived carbon within the time frame of the experiment. PMID:25616793

  15. Root-Derived Short-Chain Suberin Diacids from Rice and Rape Seed in a Paddy Soil under Rice Cultivar Treatments

    PubMed Central

    Ji, Haishi; Ding, Yuanjun; Liu, Xiaoyu; Li, Lianqing; Zhang, Dengxiao; Li, Zichuan; Sun, Jingling; Lashari, Muhammad Siddique; Joseph, Stephen; Meng, Yuanduo; Kuzyakov, Yakov; Pan, Genxing

    2015-01-01

    Suberin-derived substituted fatty acids have been shown to be potential biomarkers for plant-derived carbon (C) in soils across ecosystems. Analyzing root derived suberin compounds bound in soil could help to understand the root input into a soil organic carbon pool. In this study, bound lipids were extracted and identified in root and topsoil samples. Short-chain suberin diacids were quantified under rice (Oryza sativa L.) and rape (Brassica campestris) rotations with different cultivar combinations in a Chinese rice paddy. After removal of free lipids with sequential extraction, the residual bound lipids were obtained with saponification and derivatization before analysis using gas chromatography–mass spectrometry (GC-MS). Diacids C16 and C18 in bound lipids were detected both in rice and rape root samples, while diacids C20 and C22 were detected only in rape root samples. Accordingly, diacids were quantified in both rhizosphere and bulk soil (0–15 cm). The amount of total root-derived diacids in bulk soil varied in a range of 5.6–9.6 mg/kg across growth stages and crop seasons. After one year-round rice-rape rotation, root-derived suberin diacids were maintained at a level of 7–9 mg/kg in bulk soil; this was higher under a super rice cultivar LY than under a hybrid cultivar IIY. While concentrations of the analyzed diacids were generally higher in rhizosphere than in bulk soil, the total diacid (DA) concentration was higher at the time of rape harvest than at rice harvest, suggesting that rape roots made a major contribution to the preservation of diacids in the paddy. Moreover, the net change in the concentration and the ratios of C16:0 DA to C18:1 DA, and of C16:0 DA to C18:0 DA, over a whole growing season, were greater under LY than under IIY, though there was no difference between cultivars within a single growth stage. Overall, total concentration of root-derived suberin diacids was found to be positively correlated to soil organic carbon

  16. Root-Derived Short-Chain Suberin Diacids from Rice and Rape Seed in a Paddy Soil under Rice Cultivar Treatments.

    PubMed

    Ji, Haishi; Ding, Yuanjun; Liu, Xiaoyu; Li, Lianqing; Zhang, Dengxiao; Li, Zichuan; Sun, Jingling; Lashari, Muhammad Siddique; Joseph, Stephen; Meng, Yuanduo; Kuzyakov, Yakov; Pan, Genxing

    2015-01-01

    Suberin-derived substituted fatty acids have been shown to be potential biomarkers for plant-derived carbon (C) in soils across ecosystems. Analyzing root derived suberin compounds bound in soil could help to understand the root input into a soil organic carbon pool. In this study, bound lipids were extracted and identified in root and topsoil samples. Short-chain suberin diacids were quantified under rice (Oryza sativa L.) and rape (Brassica campestris) rotations with different cultivar combinations in a Chinese rice paddy. After removal of free lipids with sequential extraction, the residual bound lipids were obtained with saponification and derivatization before analysis using gas chromatography-mass spectrometry (GC-MS). Diacids C16 and C18 in bound lipids were detected both in rice and rape root samples, while diacids C20 and C22 were detected only in rape root samples. Accordingly, diacids were quantified in both rhizosphere and bulk soil (0-15 cm). The amount of total root-derived diacids in bulk soil varied in a range of 5.6-9.6 mg/kg across growth stages and crop seasons. After one year-round rice-rape rotation, root-derived suberin diacids were maintained at a level of 7-9 mg/kg in bulk soil; this was higher under a super rice cultivar LY than under a hybrid cultivar IIY. While concentrations of the analyzed diacids were generally higher in rhizosphere than in bulk soil, the total diacid (DA) concentration was higher at the time of rape harvest than at rice harvest, suggesting that rape roots made a major contribution to the preservation of diacids in the paddy. Moreover, the net change in the concentration and the ratios of C16:0 DA to C18:1 DA, and of C16:0 DA to C18:0 DA, over a whole growing season, were greater under LY than under IIY, though there was no difference between cultivars within a single growth stage. Overall, total concentration of root-derived suberin diacids was found to be positively correlated to soil organic carbon concentration

  17. Black liquor-derived carbonaceous solid acid catalyst for the hydrolysis of pretreated rice straw in ionic liquid.

    PubMed

    Bai, Chenxi; Zhu, Linfeng; Shen, Feng; Qi, Xinhua

    2016-11-01

    Lignin-containing black liquor from pretreatment of rice straw by KOH aqueous solution was applied to prepare a carbonaceous solid acid catalyst, in which KOH played dual roles of extracting lignin from rice straw and developing porosity of the carbon material as an activation agent. The synthesized black liquor-derived carbon material was applied in catalytic hydrolysis of the residue solid from the pretreatment of rice straw, which was mainly composed of cellulose and hemicellulose, and showed excellent activity for the production of total reducing sugars (TRS) in ionic liquid, 1-butyl-3-methyl imidazolium chloride. The highest TRS yield of 63.4% was achieved at 140°C for 120min, which was much higher than that obtained from crude rice straw under the same reaction conditions (36.6% TRS yield). Overall, this study provides a renewable strategy for the utilization of all components of lignocellulosic biomass.

  18. Interactive effects of straw-derived biochar and N fertilization on soil C storage and rice productivity in rice paddies of Northeast China.

    PubMed

    Sui, Yanghui; Gao, Jiping; Liu, Caihong; Zhang, Wenzhong; Lan, Yu; Li, Shuhang; Meng, Jun; Xu, Zhengjin; Tang, Liang

    2016-02-15

    Impacts of biochar on greenhouse gas emissions and C sequestration in agricultural soils have been considered as the key to mitigate climate change. There is limited knowledge regarding the effects of rice straw-derived biochar and interaction with N fertilization on soil C sequestration and rice productivity in fertile paddy fields. A 2-year (2013 and 2014) consecutive field trial was performed using straw treatment (5.05 t ha(-1)) and biochar amendment (0, 1.78, 14.8 and 29.6 t ha(-1)) with or without urea application in a rice paddy in Northeast China. A super high yielding rice variety (Oryza sativa L. subsp. Japonica cv. 'Shennong 265') was cultivated with permanent flooding. Results showed that biochar amendments significantly decreased CH4 emissions relative to straw treatment irrespective of N fertilization, especially in N-fertilized soils with 1.78 t ha(-1) biochar. There were no differences in CO2 emissions with respect to biochar amendments, except for 14.8 t ha(-1) biochar with N fertilization. Straw treatment had the highest global warming potential over a 100-year time frame, which was nearly 1.5 times that of 14.8 t ha(-1) biochar amendment without N fertilization. Biochar addition increased total soil C by up to 5.75 mg g(-1) and 11.69 mg g(-1) (with 14.8 and 29.6 t ha(-1) biochar, respectively), whereas straw incorporation increased this value by only 3.92 mg g(-1). The aboveground biomass of rice in biochar-amended soils increased to varying degrees compared with that in straw-treated soils. However, biochar application had no effects on rice yield, regardless of N fertilization. This study indicated that transforming straw to biochar was more stabilized and more suitable to mitigate greenhouse gas emissions and increase C storage in agriculture soils in Northeast China.

  19. Novel Alleviation Mechanisms of Aluminum Phytotoxicity via Released Biosilicon from Rice Straw-Derived Biochars

    PubMed Central

    Qian, Linbo; Chen, Baoliang; Chen, Mengfang

    2016-01-01

    Replacing biosilicon and biocarbon in soil via biochar amendment is a novel approach for soil amelioration and pollution remediation. The unique roles of silicon (Si)-rich biochar in aluminum (Al) phytotoxicity alleviation have not been discovered. In this study, the alleviation of Al phytotoxicity to wheat plants (root tips cell death) by biochars fabricated from rice straw pyrolyzed at 400 and 700 °C (RS400 and RS700) and the feedstock (RS100) were studied using a slurry system containing typical acidic soils for a 15-day exposure experiment. The distributions of Al and Si in the slurry solution, soil and plant root tissue were monitored by staining methods, chemical extractions and SEM-EDS observations. We found that the biological sourced silicon in biochars served dual roles in Al phytotoxicity alleviation in acidic soil slurry. On one hand, the Si particles reduced the amount of soil exchangeable Al and prevented the migration of Al to the plant. More importantly, the Si released from biochars synchronously absorbed by the plants and coordinated with Al to form Al-Si compounds in the epidermis of wheat roots, which is a new mechanism for Al phytotoxicity alleviation in acidic soil slurry by biochar amendment. In addition, the steady release of Si from the rice straw-derived biochars was a sustainable Si source for aluminosilicate reconstruction in acidic soil. PMID:27385598

  20. Novel Alleviation Mechanisms of Aluminum Phytotoxicity via Released Biosilicon from Rice Straw-Derived Biochars

    NASA Astrophysics Data System (ADS)

    Qian, Linbo; Chen, Baoliang; Chen, Mengfang

    2016-07-01

    Replacing biosilicon and biocarbon in soil via biochar amendment is a novel approach for soil amelioration and pollution remediation. The unique roles of silicon (Si)-rich biochar in aluminum (Al) phytotoxicity alleviation have not been discovered. In this study, the alleviation of Al phytotoxicity to wheat plants (root tips cell death) by biochars fabricated from rice straw pyrolyzed at 400 and 700 °C (RS400 and RS700) and the feedstock (RS100) were studied using a slurry system containing typical acidic soils for a 15-day exposure experiment. The distributions of Al and Si in the slurry solution, soil and plant root tissue were monitored by staining methods, chemical extractions and SEM-EDS observations. We found that the biological sourced silicon in biochars served dual roles in Al phytotoxicity alleviation in acidic soil slurry. On one hand, the Si particles reduced the amount of soil exchangeable Al and prevented the migration of Al to the plant. More importantly, the Si released from biochars synchronously absorbed by the plants and coordinated with Al to form Al-Si compounds in the epidermis of wheat roots, which is a new mechanism for Al phytotoxicity alleviation in acidic soil slurry by biochar amendment. In addition, the steady release of Si from the rice straw-derived biochars was a sustainable Si source for aluminosilicate reconstruction in acidic soil.

  1. Methanogenic degradation of lignin-derived monoaromatic compounds by microbial enrichments from rice paddy field soil.

    PubMed

    Kato, Souichiro; Chino, Kanako; Kamimura, Naofumi; Masai, Eiji; Yumoto, Isao; Kamagata, Yoichi

    2015-09-24

    Anaerobic degradation of lignin-derived aromatics is an important metabolism for carbon and nutrient cycles in soil environments. Although there are some studies on degradation of lignin-derived aromatics by nitrate- and sulfate-reducing bacteria, knowledge on their degradation under methanogenic conditions are quite limited. In this study, methanogenic microbial communities were enriched from rice paddy field soil with lignin-derived methoxylated monoaromatics (vanillate and syringate) and their degradation intermediates (protocatechuate, catechol, and gallate) as the sole carbon and energy sources. Archaeal community analysis disclosed that both aceticlastic (Methanosarcina sp.) and hydrogenotrophic (Methanoculleus sp. and Methanocella sp.) methanogens dominated in all of the enrichments. Bacterial community analysis revealed the dominance of acetogenic bacteria (Sporomusa spp.) only in the enrichments on the methoxylated aromatics, suggesting that Sporomusa spp. initially convert vanillate and syringate into protocatechuate and gallate, respectively, with acetogenesis via O-demethylation. As the putative ring-cleavage microbes, bacteria within the phylum Firmicutes were dominantly detected from all of the enrichments, while the dominant phylotypes were not identical between enrichments on vanillate/protocatechuate/catechol (family Peptococcaceae bacteria) and on syringate/gallate (family Ruminococcaceae bacteria). This study demonstrates the importance of cooperation among acetogens, ring-cleaving fermenters/syntrophs and aceticlastic/hydrogenotrophic methanogens for degradation of lignin-derived aromatics under methanogenic conditions.

  2. Methanogenic degradation of lignin-derived monoaromatic compounds by microbial enrichments from rice paddy field soil

    PubMed Central

    Kato, Souichiro; Chino, Kanako; Kamimura, Naofumi; Masai, Eiji; Yumoto, Isao; Kamagata, Yoichi

    2015-01-01

    Anaerobic degradation of lignin-derived aromatics is an important metabolism for carbon and nutrient cycles in soil environments. Although there are some studies on degradation of lignin-derived aromatics by nitrate- and sulfate-reducing bacteria, knowledge on their degradation under methanogenic conditions are quite limited. In this study, methanogenic microbial communities were enriched from rice paddy field soil with lignin-derived methoxylated monoaromatics (vanillate and syringate) and their degradation intermediates (protocatechuate, catechol, and gallate) as the sole carbon and energy sources. Archaeal community analysis disclosed that both aceticlastic (Methanosarcina sp.) and hydrogenotrophic (Methanoculleus sp. and Methanocella sp.) methanogens dominated in all of the enrichments. Bacterial community analysis revealed the dominance of acetogenic bacteria (Sporomusa spp.) only in the enrichments on the methoxylated aromatics, suggesting that Sporomusa spp. initially convert vanillate and syringate into protocatechuate and gallate, respectively, with acetogenesis via O-demethylation. As the putative ring-cleavage microbes, bacteria within the phylum Firmicutes were dominantly detected from all of the enrichments, while the dominant phylotypes were not identical between enrichments on vanillate/protocatechuate/catechol (family Peptococcaceae bacteria) and on syringate/gallate (family Ruminococcaceae bacteria). This study demonstrates the importance of cooperation among acetogens, ring-cleaving fermenters/syntrophs and aceticlastic/hydrogenotrophic methanogens for degradation of lignin-derived aromatics under methanogenic conditions. PMID:26399549

  3. Kinetics and equilibrium studies of malachite green adsorption on rice straw-derived char.

    PubMed

    Hameed, B H; El-Khaiary, M I

    2008-05-01

    In this work, the potential feasibility of rice straw-derived char (RSC) for removal of C.I. Basic Green 4 (malachite green (MG)), a cationic dye from aqueous solution was investigated. The isotherm parameters were estimated by non-linear regression analysis. The equilibrium process was described well by the Langmuir isotherm model. The maximum RSC sorption capacity was found to be 148.74 mg/L at 30 degrees C. The kinetics of MG sorption on RSC followed the Lagergren's pseudo-first-order model and the overall rate of dye uptake was found to be controlled by external mass transfer at the beginning of adsorption, while intraparticle diffusion controlled the overall rate of adsorption at a later stage. The results indicated that RSC was an attractive adsorbent for removing basic dye from aqueous solutions.

  4. Characterization, refining and antioxidant activity of saccharides derived from hemicelluloses of wood and rice husks.

    PubMed

    Rivas, Sandra; Conde, Enma; Moure, Andrés; Domínguez, Herminia; Parajó, Juan Carlos

    2013-11-01

    Samples of rice husks, Eucalyptus globulus wood and Pinus pinaster wood (containing arabinoxylan, acetylated glucuronoxylan and acetylated glucomannan as major hemicellulose components, respectively) were subjected to autohydrolysis. The resulting liquid phases, containing mainly hemicellulose-derived saccharides, were refined by physicochemical methods to reduce their contents of monosaccharides and non-saccharide compounds. Raw autohydrolysis liquors and refined concentrates coming from aqueous treatments were assayed for antioxidant activity using the following assays: reducing power (FRAP), DPPH and ABTS radical scavenging activity and protection of β-carotene-linoleic emulsions from oxidation. The reducing power and radical scavenging capacity of the non refined fractions were comparable to the ones determined for the reference compound butylhydroxytoluene. Hemicellulose concentrated from the different feedstocks and refining protocols showed a dose dependent antioxidant activity in the range of concentrations evaluated. The in vitro antioxidant activity of concentrates correlated with their phenolic content.

  5. Mismatch repair genes of Streptococcus pneumoniae: HexA confers a mutator phenotype in Escherichia coli by negative complementation.

    PubMed

    Prudhomme, M; Méjean, V; Martin, B; Claverys, J P

    1991-11-01

    DNA repair systems able to correct base pair mismatches within newly replicated DNA or within heteroduplex molecules produced during recombination are widespread among living organisms. Evidence that such generalized mismatch repair systems evolved from a common ancestor is particularly strong for two of them, the Hex system of the gram-positive Streptococcus pneumoniae and the Mut system of the gram-negative Escherichia coli and Salmonella typhimurium. The homology existing between HexA and MutS and between HexB and MutL prompted us to investigate the effect of expressing hex genes in E. coli. Complementation of mutS or mutL mutations, which confer a mutator phenotype, was assayed by introducing on a multicopy plasmid the hexA and hexB genes, under the control of an inducible promoter, either individually or together in E. coli strains. No decrease in mutation rate was conferred by either hexA or hexB gene expression. However, a negative complementation effect was observed in wild-type E. coli cells: expression of hexA resulted in a typical Mut- mutator phenotype. hexB gene expression did not increase the mutation rate either individually or in conjunction with hexA. Since expression of hexA did not affect the mutation rate in mutS mutant cells and the hexA-induced mutator effect was recA independent, it is concluded that this effect results from inhibition of the Mut system. We suggest that HexA, like its homolog MutS, binds to mismatches resulting from replication errors, but in doing so it protects them from repair by the Mut system. In agreement with this hypothesis, an increase in mutS gene copy number abolished the hexA-induced mutator phenotype. HexA protein could prevent repair either by being unable to interact with Mut proteins or by producing nonfunctional repair complexes.

  6. Expression of hypoallergenic Der f 2 derivatives with altered intramolecular disulphide bonds induces the formation of novel ER-derived protein bodies in transgenic rice seeds

    PubMed Central

    Yang, Lijun; Hirose, Sakiko; Suzuki, Kazuya; Hiroi, Takachika; Takaiwa, Fumio

    2012-01-01

    House dust mites (HDM) are the most common source of indoor allergens and are associated with allergic diseases worldwide. To benefit allergic patients, safer and non-invasive mucosal routes of oral administration are considered to be the best alternative to conventional allergen-specific immunotherapy. In this study, transgenic rice was developed expressing derivatives of the major HDM allergen Der f 2 with reduced Der f 2-specific IgE reactivity by disrupting intramolecular disulphide bonds in Der f 2. These derivatives were produced specifically as secretory proteins in the endosperm tissue of seeds under the control of the endosperm-specific glutelin GluB-1 promoter. Notably, modified Der f 2 derivatives aggregated in the endoplasmic reticulum (ER) lumen and were deposited in a unique protein body (PB)-like structure tentatively called the Der f 2 body. Der f 2 bodies were characterized by their intracellular localization and physico-chemical properties, and were distinct from ER-derived PBs (PB-Is) and protein storage vacuoles (PB-IIs). Unlike ER-derived organelles such as PB-Is, Der f 2 bodies were rapidly digested in simulated gastric fluid in a manner similar to that of PB-IIs. Oral administration in mice of transgenic rice seeds containing Der f 2 derivatives encapsulated in Der f 2 bodies suppressed Der f 2-specific IgE and IgG production compared with that in mice fed non-transgenic rice seeds, and the effect was dependent on the type of Der f 2 derivative expressed. These results suggest that engineered hypoallergenic Der f 2 derivatives expressed in the rice seed endosperm could serve as a basis for the development of viable strategies for the oral delivery of vaccines against HDM allergy. PMID:22378952

  7. Assimilation of MODIS-derived LAI by radiative transfer modelling to crop growth simulation model for rice crop monitoring and yield estimation in the Mekong delta, Vietnam

    NASA Astrophysics Data System (ADS)

    Nguyen, H.; de Bie, K.; Verhoef, W.

    2014-12-01

    Successful monitoring of rice crops and estimation of its yields in Mekong delta provide vital information to government agencies, rice production stakeholders and insurance companies in making their decisions and plans to establish solutions to protect rice smallholders from the risks involved. Remote sensing-based information promises a cost-effective way to observe rice crop growth in the largest rice producing region of Vietnam. For an extensive rice cultivation region as the Mekong delta, the use of divergence statistic to extract information from long-term or hypertemporal optical remote sensing NDVI profile to map rice cropping patterns has shown a high degree of success. The result map provides accurate information on where rice grew, when it was seeded and harvested, how many time it was cultivated every year. In addition, by using 8-day MODIS TERRA surface reflectance in Soil-Leaf-Canopy (SLC) radiative transfer model, 70 percent variation of seasonal rice LAI values was able to capture, making it useful to be assimilated into a rice crop growth simulation model (ORYZA 2000) to estimate the regional rice production in the season of 2008-2009. Tested results from 56 rice fields located in different rice cropping patterns showed that yields estimated using ORYZA2000 can explain 83 percent variation of field measured yields. However, simulated yields by ORYZA 2000 were used to overestimate by the model since some of model parameters could not be recalibrated due to the lack of field experiment data. This suggest that in the future, in order to gain a better results of rice crop monitoring and yield estimation, apart from improving the estimation of MODIS -derived LAIs by using SLC, calibrating crop growth simulation's parameter have to be taken into account.

  8. Rice seed ER-derived protein body as an efficient delivery vehicle for oral tolerogenic peptides.

    PubMed

    Takagi, Hidenori; Hiroi, Takachika; Hirose, Sakiko; Yang, Lijun; Takaiwa, Fumio

    2010-08-01

    Mucosal delivery of peptide/protein therapeutics via the oral route is a desirable strategy in human immunotherapy. A key step for enhancing the bioavailability of orally administered therapeutics is to protect them from enzymatic digestion in the gastrointestinal tract. Here, we generated transgenic rice seeds accumulating allergen-derived T cell epitopes, a model tolerogen for the control of pollen allergy, in either ER-derived protein body-I (PB-I) or protein storage vacuole protein body-II (PB-II). Compared with PB-II-localized or chemically synthesized forms, PB-I-localized T cell epitopes showed higher resistance to enzymatic digestion in simulated gastric fluid. Moreover, the dose of T cell epitope required for suppression of allergen-specific IgE in mice was about 20-fold lower when fed in PB-I localized form than when unprotected. These findings demonstrate the potential of bioencapsulation in PB-I for broad applications as a viable strategy to achieve efficient mucosal delivery of oral peptide/protein therapeutics.

  9. Sorption of sulphamethoxazole by the biochars derived from rice straw and alligator flag.

    PubMed

    Li, Tingqiang; Han, Xuan; Liang, Chengfeng; Shohag, M J I; Yang, Xiaoe

    2015-01-01

    The sorption ability of sulphamethoxazole (SMX) by biochar derived from rice straw (RS) and alligator flag (AF) at 600°C was studied to assess the ability of biochar as adsorbent to remove SMX from aqueous solution. The results indicated that sorption of SMX by biochars was well described using the Langmuir equation (R2>0.94), and the maximum sorption parameter (Q) of RS (3650 mg kg(-1)) was much higher than that of AF (1963 mg kg(-1)). Temperature had no effect on SMX sorption by biochars, while thermodynamics analysis indicated that the sorption of SMX on both biochars was a spontaneous physical process. The d 250 RS (diameter of RS sieved through 250 µm) and d 150 AF (diameter of AF sieved through 150 µm) showed excellent sorption ability for SMX. The sorption amount of RS was larger than that of AF when pH<7, whereas, the sorption amount of AF surpassed RS when pH≥7. The presence of Cu2+ and/or Cd2+ ion at low concentrations (20 mg L(-1)) significantly (P<0.05) increased the sorption of SMX on both RS and AF. Our study confirms that biochar derived from the wetland plants could be used as effective adsorbents to remove SMX from aqueous solution.

  10. Characterization of rice black-streaked dwarf virus- and rice stripe virus-derived siRNAs in singly and doubly infected insect vector Laodelphax striatellus.

    PubMed

    Li, Junmin; Andika, Ida Bagus; Shen, Jiangfeng; Lv, Yuanda; Ji, Yongqiang; Sun, Liying; Chen, Jianping

    2013-01-01

    Replication of RNA viruses in insect cells triggers an antiviral defense that is mediated by RNA interference (RNAi) which generates viral-derived small interfering RNAs (siRNAs). However, it is not known whether an antiviral RNAi response is also induced in insects by reoviruses, whose double-stranded RNA genome replication is thought to occur within core particles. Deep sequencing of small RNAs showed that when the small brown planthopper (Laodelphax striatellus) was infected by Rice black-streaked dwarf virus (RBSDV) (Reoviridae; Fijivirus), more viral-derived siRNAs accumulated than when the vector insect was infected by Rice stripe virus (RSV), a negative single-stranded RNA virus. RBSDV siRNAs were predominantly 21 and 22 nucleotides long and there were almost equal numbers of positive and negative sense. RBSDV siRNAs were frequently generated from hotspots in the 5'- and 3'-terminal regions of viral genome segments but these hotspots were not associated with any predicted RNA secondary structures. Under laboratory condition, L. striatellus can be infected simultaneously with RBSDV and RSV. Double infection enhanced the accumulation of particular genome segments but not viral coat protein of RBSDV and correlated with an increase in the abundance of siRNAs derived from RBSDV. The results of this study suggest that reovirus replication in its insect vector potentially induces an RNAi-mediated antiviral response.

  11. Use of Nitrogen Isotope To Determine Fertilizer- and Soil-Derived Ammonia Volatilization in a Rice/Wheat Rotation System.

    PubMed

    Zhao, Xu; Yan, Xiaoyuan; Xie, Yingxin; Wang, Shenqiang; Xing, Guangxi; Zhu, Zhaoliang

    2016-04-20

    The nitrogen (N) isotope method reveals that application of fertilizer N can increase crop uptake or denitrification and leaching losses of native soil N via the "added N interaction". However, there is currently little evidence of the impact of added N on soil N losses through NH3 volatilization using (15)N methodologies. In the present study, a three-year rice/wheat rotated experiment with 30% (15)N-labeled urea applied in the first rice season and unlabeled urea added in the following five crop seasons was performed to investigate volatilization of NH3 from fertilizer and soil N. We found 9.28% of NH3 loss from (15)N urea and 2.88-7.70% declines in (15)N-NH3 abundance occurred during the first rice season, whereas 0.11% of NH3 loss from (15)N urea and 0.02-0.21% enrichments in (15)N-NH3 abundance happened in the subsequent seasons. The contributions of fertilizer- and soil-derived N to NH3 volatilization from a rice/wheat rotation were 75.8-88.4 and 11.6-24.2%, respectively. These distinct variations in (15)N-NH3 and substantial soil-derived NH3 suggest that added N clearly interacts with the soil source contributing to NH3 volatilization.

  12. Remotely sensed rice yield prediction using multi-temporal NDVI data derived from NOAA's-AVHRR.

    PubMed

    Huang, Jingfeng; Wang, Xiuzhen; Li, Xinxing; Tian, Hanqin; Pan, Zhuokun

    2013-01-01

    Grain-yield prediction using remotely sensed data have been intensively studied in wheat and maize, but such information is limited in rice, barley, oats and soybeans. The present study proposes a new framework for rice-yield prediction, which eliminates the influence of the technology development, fertilizer application, and management improvement and can be used for the development and implementation of provincial rice-yield predictions. The technique requires the collection of remotely sensed data over an adequate time frame and a corresponding record of the region's crop yields. Longer normalized-difference-vegetation-index (NDVI) time series are preferable to shorter ones for the purposes of rice-yield prediction because the well-contrasted seasons in a longer time series provide the opportunity to build regression models with a wide application range. A regression analysis of the yield versus the year indicated an annual gain in the rice yield of 50 to 128 kg ha(-1). Stepwise regression models for the remotely sensed rice-yield predictions have been developed for five typical rice-growing provinces in China. The prediction models for the remotely sensed rice yield indicated that the influences of the NDVIs on the rice yield were always positive. The association between the predicted and observed rice yields was highly significant without obvious outliers from 1982 to 2004. Independent validation found that the overall relative error is approximately 5.82%, and a majority of the relative errors were less than 5% in 2005 and 2006, depending on the study area. The proposed models can be used in an operational context to predict rice yields at the provincial level in China. The methodologies described in the present paper can be applied to any crop for which a sufficient time series of NDVI data and the corresponding historical yield information are available, as long as the historical yield increases significantly.

  13. Remotely Sensed Rice Yield Prediction Using Multi-Temporal NDVI Data Derived from NOAA's-AVHRR

    PubMed Central

    Huang, Jingfeng; Wang, Xiuzhen; Li, Xinxing; Tian, Hanqin; Pan, Zhuokun

    2013-01-01

    Grain-yield prediction using remotely sensed data have been intensively studied in wheat and maize, but such information is limited in rice, barley, oats and soybeans. The present study proposes a new framework for rice-yield prediction, which eliminates the influence of the technology development, fertilizer application, and management improvement and can be used for the development and implementation of provincial rice-yield predictions. The technique requires the collection of remotely sensed data over an adequate time frame and a corresponding record of the region's crop yields. Longer normalized-difference-vegetation-index (NDVI) time series are preferable to shorter ones for the purposes of rice-yield prediction because the well-contrasted seasons in a longer time series provide the opportunity to build regression models with a wide application range. A regression analysis of the yield versus the year indicated an annual gain in the rice yield of 50 to 128 kg ha−1. Stepwise regression models for the remotely sensed rice-yield predictions have been developed for five typical rice-growing provinces in China. The prediction models for the remotely sensed rice yield indicated that the influences of the NDVIs on the rice yield were always positive. The association between the predicted and observed rice yields was highly significant without obvious outliers from 1982 to 2004. Independent validation found that the overall relative error is approximately 5.82%, and a majority of the relative errors were less than 5% in 2005 and 2006, depending on the study area. The proposed models can be used in an operational context to predict rice yields at the provincial level in China. The methodologies described in the present paper can be applied to any crop for which a sufficient time series of NDVI data and the corresponding historical yield information are available, as long as the historical yield increases significantly. PMID:23967112

  14. Rice Husk Silica-Derived Nanomaterials for Battery Applications: A Literature Review.

    PubMed

    Shen, Yafei

    2017-02-08

    Silica-rich rice husk (RH) is an abundant and sustainable agricultural waste. The recovery of value-added products from RH or its ash to explore an economic way for the valorization of agricultural wastes has attracted wide attention. For instance, RH can be converted to biofuels and biochars simultaneously via thermochemical processes. In general, the applications of RH biochars include soil remediation, pollutant removal, silicon battery materials, and so forth. This review concludes recent progress in the synthesis of RH-derived silicon materials for lithium-ion battery (LIB) applications. Silica nanomaterials produced from RH are initially discussed. RH amorphous silica can also be fabricated to crystal silicon used for battery materials via widely used magnesiothermic reduction. However, the RH-derived Si nanoparticles suffer from a low Coulombic efficiency in the initial charge/discharge and limited cycle life as anode materials due to high surface reactions and low thermodynamic stability. The synthesis of Si materials with nano/microhierarchical structure would be an ideal way to improve their electrochemical performances. Embedding nano-Si into 3D conductive matrix is an effective way to improve the structural stability. Among the Si/carbon composite materials, carbon nanotubdes (CNTs) are a promising matrix due to the wired morphology, high electronic conductivity, and robust structure. Additionally, CNTs can easily form 3D cross-linked conducting networks, ensuring effective electron transportation among active particles. Si nanomaterials with microhierarchical structures in which CNTs are tightly intertwined between the RH-derived Si nanoparticles have been proven to be ideal LIB anode materials.

  15. Microbial utilization of rice straw and its derived biochar in a paddy soil.

    PubMed

    Pan, Fuxia; Li, Yaying; Chapman, Stephen James; Khan, Sardar; Yao, Huaiying

    2016-07-15

    The application of straw and biochar to soil has received great attention because of their potential benefits such as fertility improvement and carbon (C) sequestration. The abiotic effects of these materials on C and nitrogen (N) cycling in the soil ecosystem have been previously investigated, however, the effects of straw or its derived biochar on the soil microbial community structure and function are not well understood. For this purpose, a short-term incubation experiment was conducted using (13)C-labeled rice straw and its derived biochar ((13)C-labeled biochar) to deepen our understanding about soil microbial community dynamics and function in C sequestration and greenhouse gas emission in the acidic paddy soil amended with these materials. Regarding microbial function, biochar and straw applications increased CO2 emission in the initial stage of incubation and reached the highest level (0.52 and 3.96mgCkg(-1)soilh(-1)) at 1d and 3d after incubation, respectively. Straw amendment significantly (p<0.01) increased respiration rate, total phospholipid fatty acids (PLFAs) and (13)C-PLFA as compared to biochar amendment and the control. The amount and percent of Gram positive bacteria, fungi and actinomycetes were also significantly (p<0.05) higher in (13)C-labeled straw amended soil than the (13)C-labeled biochar amended soil. According to the (13)C data, 23 different PLFAs were derived from straw amended paddy soil, while only 17 PLFAs were derived from biochar amendments. The profile of (13)C-PLFAs derived from straw amendment was significantly (p<0.01) different from biochar amendment. The PLFAs18:1ω7c and cy17:0 (indicators of Gram negative bacteria) showed high relative abundances in the biochar amendment, while 10Me18:0, i17:0 and 18:2ω6,9c (indicators of actinomycetes, Gram positive bacteria and fungi, respectively) showed high relative abundance in the straw amendments. Our results suggest that the function, size and structure of the microbial

  16. Hepatoprotective effects of rice-derived peptides against acetaminophen-induced damage in mice

    PubMed Central

    Kawakami, Kayoko; Moritani, Chie; Uraji, Misugi; Fujita, Akiko; Kawakami, Koji; Hatanaka, Tadashi; Suzaki, Etsuko; Tsuboi, Seiji

    2017-01-01

    Glutathione, the most abundant intracellular antioxidant, protects cells against reactive oxygen species induced oxidative stress and regulates intracellular redox status. We found that rice peptides increased intracellular glutathione levels in human hepatoblastoma HepG2 cells. Acetaminophen is a commonly used analgesic. However, an overdose of acetaminophen causes severe hepatotoxicity via depletion of hepatic glutathione. Here, we investigated the protective effects of rice peptides on acetaminophen-induced hepatotoxicity in mice. ICR mice were orally administered rice peptides (0, 100 or 500 mg/kg) for seven days, followed by the induction of hepatotoxicity via intraperitoneal injection of acetaminophen (700 mg/kg). Pretreatment with rice peptides significantly prevented increases in serum alanine aminotransferase, aspartate aminotransferase, and lactate dehydrogenase levels and protected against hepatic glutathione depletion. The expression of γ-glutamylcysteine synthetase, a key regulatory enzyme in the synthesis of glutathione, was decreased by treatment with acetaminophen, albeit rice peptides treatment recovered its expression compared to that achieved treatment with acetaminophen. In addition, histopathological evaluation of the livers also revealed that rice peptides prevented acetaminophen-induced centrilobular necrosis. These results suggest that rice peptides increased intracellular glutathione levels and could protect against acetaminophen-induced hepatotoxicity in mice.

  17. Identification of gonadal soma-derived factor involvement in Monopterus albus (protogynous rice field eel) sex change.

    PubMed

    Zhu, Yefei; Wang, Chunlei; Chen, Xiaowu; Guan, Guijun

    2016-07-01

    We studied molecular events and potential mechanisms underlying the process of female-to-male sex transformation in the rice field eel (Monopterus albus), a protogynous hermaphrodite fish in which the gonad is initially a female ovary and transforms into male testes. We cloned and identified a novel gonadal soma derived factor (GSDF), which encodes a member of the transforming growth factor-beta superfamily. gsdf expression was measured in gonads of female, intersex and male with reverse transcription-PCR and gsdf's role in sex transformation was studied with qPCR, histological analysis and dual-color in situ hybridization assays and compared to other sex-related genes. gsdf was correlated to Sertoli cell differentiation, indicating involvement in testicular differentiation and sex transformation from female to male in this species. A unique expression pattern reveals a potential role of gsdf essential for the sex transformation of rice field eels.

  18. Characterisation of silica derived from rice husk (Muar, Johor, Malaysia) decomposition at different temperatures

    NASA Astrophysics Data System (ADS)

    Azmi, M. A.; Ismail, N. A. A.; Rizamarhaiza, M.; W. M. Hasif. A. A., K.; Taib, H.

    2016-07-01

    Rice husk was thermally decomposed to yield powder composed of silica (SiO2). Temperatures of 700°C and 1000°C were chosen as the decomposition temperatures. X-Ray Diffraction (XRD), X-Ray Florescence (XRF), Fourier Transform Infrared (FTIR), and Field Emission Scanning Electron Microscope (FESEM) analyses were conducted on a synthetic silica powder (SS-SiO2) and the rice husk ash as for the comparative characterisation study. XRD analyses clearly indicated that the decomposed rice husk yielded silica of different nature which are Crystalline Rice Husk Silica (C-RHSiO2) and Amorphous Rice Husk Silica (A-RHSiO2). Moreover, it was found that SS-SiO2 was of Quartz phase, C-RHSiO2 was of Trydimite and Cristobalite. Through XRF detection, the highest SiO2 purity was detected in SS-SiO2 followed by C-RHSiO2 and A-RHSiO2 with purity percentages of 99.60%, 82.30% and 86.30% respectively. FTIR results clearly indicated silica (SiO2) bonding 1056, 1064, 1047, 777, 790 and 798 cm-1) increased as the crystallinity silica increased. The Cristobalite phase was detected in C-RH SiO2 at the wavelength of 620 cm-1. Morphological features as observed by FESEM analyses confirmed that, SS-SiO2 and C-RH SiO2 showed prominent coarse granular morphology.

  19. Transgenic Rice Expressing Ictb and FBP/Sbpase Derived from Cyanobacteria Exhibits Enhanced Photosynthesis and Mesophyll Conductance to CO2.

    PubMed

    Gong, Han Yu; Li, Yang; Fang, Gen; Hu, Dao Heng; Jin, Wen Bin; Wang, Zhao Hai; Li, Yang Sheng

    2015-01-01

    To find a way to promote the rate of carbon flux and further improve the photosynthetic rate in rice, two CO2-transporting and fixing relevant genes, Ictb and FBP/Sbpase, which were derived from cyanobacteria with the 35SCaMV promotor in the respective constructs, were transformed into rice. Three homologous transgenic groups with Ictb, FBP/Sbpase and the two genes combined were constructed in parallel, and the functional effects of these two genes were investigated by physiological, biochemical and leaf anatomy analyses. The results indicated that the mesophyll conductance and net photosynthetic rate were higher at approximately 10.5-36.8% and 13.5-34.6%, respectively, in the three groups but without any changes in leaf anatomy structure compared with wild type. Other physiological and biochemical parameters increased with the same trend in the three groups, which showed that the effect of FBP/SBPase on improving photosynthetic capacity was better than that of ICTB and that there was an additive effect in ICTB+FBP/SBPase. ICTB localized in the cytoplasm, whereas FBP/SBPase was successfully transported to the chloroplast. The two genes might show a synergistic interaction to promote carbon flow and the assimilation rate as a whole. The multigene transformation engineering and its potential utility for improving the photosynthetic capacity and yield in rice were discussed.

  20. Transgenic Rice Expressing Ictb and FBP/Sbpase Derived from Cyanobacteria Exhibits Enhanced Photosynthesis and Mesophyll Conductance to CO2

    PubMed Central

    Gong, Han Yu; Li, Yang; Fang, Gen; Hu, Dao Heng; Jin, Wen Bin; Wang, Zhao Hai; Li, Yang Sheng

    2015-01-01

    To find a way to promote the rate of carbon flux and further improve the photosynthetic rate in rice, two CO2-transporting and fixing relevant genes, Ictb and FBP/Sbpase, which were derived from cyanobacteria with the 35SCaMV promotor in the respective constructs, were transformed into rice. Three homologous transgenic groups with Ictb, FBP/Sbpase and the two genes combined were constructed in parallel, and the functional effects of these two genes were investigated by physiological, biochemical and leaf anatomy analyses. The results indicated that the mesophyll conductance and net photosynthetic rate were higher at approximately 10.5–36.8% and 13.5–34.6%, respectively, in the three groups but without any changes in leaf anatomy structure compared with wild type. Other physiological and biochemical parameters increased with the same trend in the three groups, which showed that the effect of FBP/SBPase on improving photosynthetic capacity was better than that of ICTB and that there was an additive effect in ICTB+FBP/SBPase. ICTB localized in the cytoplasm, whereas FBP/SBPase was successfully transported to the chloroplast. The two genes might show a synergistic interaction to promote carbon flow and the assimilation rate as a whole. The multigene transformation engineering and its potential utility for improving the photosynthetic capacity and yield in rice were discussed. PMID:26488581

  1. Pedigree-based analysis of derivation of genome segments of an elite rice reveals key regions during its breeding.

    PubMed

    Zhou, Degui; Chen, Wei; Lin, Zechuan; Chen, Haodong; Wang, Chongrong; Li, Hong; Yu, Renbo; Zhang, Fengyun; Zhen, Gang; Yi, Junliang; Li, Kanghuo; Liu, Yaoguang; Terzaghi, William; Tang, Xiaoyan; He, Hang; Zhou, Shaochuan; Deng, Xing Wang

    2016-02-01

    Analyses of genome variations with high-throughput assays have improved our understanding of genetic basis of crop domestication and identified the selected genome regions, but little is known about that of modern breeding, which has limited the usefulness of massive elite cultivars in further breeding. Here we deploy pedigree-based analysis of an elite rice, Huanghuazhan, to exploit key genome regions during its breeding. The cultivars in the pedigree were resequenced with 7.6× depth on average, and 2.1 million high-quality single nucleotide polymorphisms (SNPs) were obtained. Tracing the derivation of genome blocks with pedigree and information on SNPs revealed the chromosomal recombination during breeding, which showed that 26.22% of Huanghuazhan genome are strictly conserved key regions. These major effect regions were further supported by a QTL mapping of 260 recombinant inbred lines derived from the cross of Huanghuazhan and a very dissimilar cultivar, Shuanggui 36, and by the genome profile of eight cultivars and 36 elite lines derived from Huanghuazhan. Hitting these regions with the cloned genes revealed they include numbers of key genes, which were then applied to demonstrate how Huanghuazhan were bred after 30 years of effort and to dissect the deficiency of artificial selection. We concluded the regions are helpful to the further breeding based on this pedigree and performing breeding by design. Our study provides genetic dissection of modern rice breeding and sheds new light on how to perform genomewide breeding by design.

  2. Fermentation RS3 derived from sago and rice starch with Clostridium butyricum BCC B2571 or Eubacterium rectale DSM 17629.

    PubMed

    Purwani, Endang Yuli; Purwadaria, Tresnawati; Suhartono, Maggy Thenawidjaja

    2012-02-01

    Resistant starch type 3 (RS3) is retrograded starch which is not digested by human starch degrading enzyme, and will thus undergo bacterial degradation in the colon. The main fermentation products are the Short Chain Fatty Acid (SCFA): acetate, propionate and butyrate. SCFA has significant benefit impact on the metabolism of the host. The objectives of this research were to study the SCFA profile produced by colonic butyrate producing bacteria grown in medium containing RS3. RS3 was made from sago or rice starch treated with amylase, pullulanase and the combination of amylase and pullulanase. Fermentation study was performed by using Clostridium butyricum BCC B2571 or Eubacterium rectale DSM 17629, which has been identified as capable of degradation of starch residue and also regarded as beneficial bacteria. Experimental result revealed that enzyme hydrolysis of retrograded sago or rice starch was beneficial to RS formation. RS3 derived from sago contained higher RS (31-38%) than those derived from rice starch (21-26%). This study indicated that C. butyricum BCC B2571 produced acetate, propionate and butyrate at molar ratio of 1.8 : 1 : 1, when the medium was supplemented with RSSA at concentration 1%. In the medium containing similar substrate, E. rectale DSM 17629 produced acetate, propionate and butyrate at molar ratio of 1.7 : 1 : 1.2. High levels of acetate, propionate and butyrate at molar ratio of 1.8 : 1 : 1.1 was also produced by E. rectale DSM 17629 in medium supplemented with RSSP at concentration 1%. The results showed that both bacteria responded differently to the RS3 supplementation. Such result provided insight into the possibility of designing RS3 as prebiotic with featured regarding SCFA released in the human colon with potential health implication.

  3. Reinforcement of natural rubber hybrid composites based on marble sludge/Silica and marble sludge/rice husk derived silica

    PubMed Central

    Ahmed, Khalil; Nizami, Shaikh Sirajuddin; Riza, Nudrat Zahid

    2013-01-01

    A research has been carried out to develop natural rubber (NR) hybrid composites reinforced with marble sludge (MS)/Silica and MS/rice husk derived silica (RHS). The primary aim of this development is to scrutinize the cure characteristics, mechanical and swelling properties of such hybrid composite. The use of both industrial and agricultural waste such as marble sludge and rice husk derived silica has the primary advantage of being eco-friendly, low cost and easily available as compared to other expensive fillers. The results from this study showed that the performance of NR hybrid composites with MS/Silica and MS/RHS as fillers is extremely better in mechanical and swelling properties as compared with the case where MS used as single filler. The study suggests that the use of recently developed silica and marble sludge as industrial and agricultural waste is accomplished to provide a probable cost effective, industrially prospective, and attractive replacement to the in general purpose used fillers like china clay, calcium carbonate, and talc. PMID:25685484

  4. Reinforcement of natural rubber hybrid composites based on marble sludge/Silica and marble sludge/rice husk derived silica.

    PubMed

    Ahmed, Khalil; Nizami, Shaikh Sirajuddin; Riza, Nudrat Zahid

    2014-03-01

    A research has been carried out to develop natural rubber (NR) hybrid composites reinforced with marble sludge (MS)/Silica and MS/rice husk derived silica (RHS). The primary aim of this development is to scrutinize the cure characteristics, mechanical and swelling properties of such hybrid composite. The use of both industrial and agricultural waste such as marble sludge and rice husk derived silica has the primary advantage of being eco-friendly, low cost and easily available as compared to other expensive fillers. The results from this study showed that the performance of NR hybrid composites with MS/Silica and MS/RHS as fillers is extremely better in mechanical and swelling properties as compared with the case where MS used as single filler. The study suggests that the use of recently developed silica and marble sludge as industrial and agricultural waste is accomplished to provide a probable cost effective, industrially prospective, and attractive replacement to the in general purpose used fillers like china clay, calcium carbonate, and talc.

  5. Role of a short tandem leucine/arginine repeat in strong mutator phenotype acquisition in a clinical isolate of Salmonella Typhimurium.

    PubMed

    Le Bars, Hervé; Bousarghin, Latifa; Bonnaure-Mallet, Martine; Jolivet-Gougeon, Anne

    2013-01-01

    In this prospective study, a strong mutator strain of Salmonella Typhimurium was isolated from a collection of 130 human clinical strains of Salmonella. Sequence analysis of the mutS, mutL, and mutH genes, which encode three proteins that are essential for initiation of methyl-directed DNA mismatch repair, revealed insertion of a short tandem repeat (STR) of leucine/alanine in the histidine kinase-like ATPase domain of MutL. The role of this STR in the acquisition of the strong mutator phenotype was confirmed by the construction of an isogenic mutant (6bpinsmutL) from a normomutator strain of Salmonella Heidelberg. This result adds to the sparse body of knowledge about strong mutators and highlights the role of this STR as a hotspot for the acquisition of a strong mutator phenotype in Salmonella.

  6. Highly stable rice-straw-derived charcoal in 3700-year-old ancient paddy soil: evidence for an effective pathway toward carbon sequestration.

    PubMed

    Wu, Mengxiong; Yang, Min; Han, Xingguo; Zhong, Ting; Zheng, Yunfei; Ding, Pin; Wu, Weixiang

    2016-01-01

    Recalcitrant charcoal application is predicted to decelerate global warming through creating a long-term carbon sink in soil. Although many studies have showed high stability of charcoal derived from woody materials, few have focused on the dynamics of straw-derived charcoal in natural environment on a long timescale to evaluate its potential for agricultural carbon sequestration. Here, we examined straw-derived charcoal in an ancient paddy soil dated from ~3700 calendar year before present (cal. year BP). Analytical results showed that soil organic matter consisted of more than 25% of charcoal in charcoal-rich layer. Similarities in morphology and molecular structure between the ancient and the fresh rice-straw-derived charcoal indicated that ancient charcoal was derived from rice straw. The lower carbon content, higher oxygen content, and obvious carbonyl of the ancient charcoal compared with fresh rice straw charcoal implied that oxidation occurred in the scale of thousands years. However, the dominant aromatic C of ancient charcoal indicated that rice-straw-derived charcoal was highly stable in the buried paddy soil due to its intrinsic chemical structures and the physical protection of ancient paddy wetland. Therefore, it may suggest that straw charcoal application is a potential pathway for C sequestration considering its longevity.

  7. Quantitation of the residual DNA from rice-derived recombinant human serum albumin.

    PubMed

    Chen, Zhen; Dai, Huixia; Liu, Zhenwei; Zhang, Liping; Pang, Jianlei; Ou, Jiquan; Yang, Daichang

    2014-04-01

    Residual DNA in recombinant protein pharmaceuticals can potentially cause safety issues in clinical applications; thus, maximum residual limit has been established by drug safety authorities. Assays for residual DNA in Escherichia coli, yeast, and Chinese hamster ovary (CHO) cell expression systems have been established, but no rice residual DNA assay for rice expression systems has been designed. To develop an assay for the quantification of residual DNA that is produced from rice seed, we established a sensitive assay using quantitative real-time polymerase chain reaction (qPCR) based on the 5S ribosomal RNA (rRNA) genes. We found that a 40-cycle qPCR exhibited a linear response when the template concentration was in the range of 2×10(4) to 0.2pg of DNA per reaction in TaqMan and SYBR Green I assays. The amplification efficiency was 103 to 104%, and the amount of residual DNA from recombinant human serum albumin from Oryza sativa (OsrHSA) was less than 3.8ng per dosage, which was lower than that recommended by the World Health Organization (WHO). Our results indicate that the current purification protocol could efficiently remove residual DNA during manufacturing and processing. Furthermore, this protocol could be viable in other cereal crop endosperm expression systems for developing a residual DNA quantitation assay using the highly conserved 5S rRNA gene of the crops.

  8. Rice Husk Ash-Derived Silica Nanofluids: Synthesis and Stability Study.

    PubMed

    Zhang, Zhiliang; He, Wenxiu; Zheng, Jianzhong; Wang, Guangquan; Ji, Jianbing

    2016-12-01

    Nanofluids, colloidal suspensions consisting of base fluids and nanoparticles, are a new generation of engineering working fluids. Nanofluids have shown great potential in heat/mass transfer applications. However, their practical applications are limited by the high production cost and low stability. In this study, a low-cost agricultural waste, rice husk ash (RHA), was used as a silicon source to the synthesis of silica nanofluids. First, silica nanoparticles with an average size of 47 nm were synthesized. Next, by dispersing the silica nanoparticles in water with ultrasonic vibration, silica nanofluids were formed. The results indicated that the dispersibility and stability of nanofluids were highly dependent on sonication time and power, dispersant types and concentrations, as well as pH; an optimal experiment condition could result in the highest stability of silica nanofluid. After 7 days storage, the nanofluid showed no sedimentation, unchanged particle size, and zeta potential. The results of this study demonstrated that there is a great potential for the use of RHA as a low-cost renewable resource for the production of stable silica nanofluids. Graphical Abstract Rice husk ash was used as a low-cost renewable resource for production of silica nanofluids with high stability.

  9. Biocompatibility assessment of rice husk-derived biogenic silica nanoparticles for biomedical applications.

    PubMed

    Alshatwi, Ali A; Athinarayanan, Jegan; Periasamy, Vaiyapuri Subbarayan

    2015-02-01

    Synthetic forms of silica have low biocompatibility, whereas biogenic forms have myriad beneficial effects in current toxicological applications. Among the various sources of biogenic silica, rice husk is considered a valuable agricultural biomass material and a cost-effective resource that can provide biogenic silica for biomedical applications. In the present study, highly pure biogenic silica nanoparticles (bSNPs) were successfully harvested from rice husks using acid digestion under pressurized conditions at 120°C followed by a calcination process. The obtained bSNPs were subjected to phase identification analysis using X-ray diffraction, which revealed the amorphous nature of the bSNPs. The morphologies of the bSNPs were observed using transmission electron microscopy (TEM), which revealed spherical particles 10 to 30 nm in diameter. Furthermore, the biocompatibility of the bSNPs with human lung fibroblast cells (hLFCs) was investigated using a viability assay and assessing cellular morphological changes, intracellular ROS generation, mitochondrial transmembrane potential and oxidative stress-related gene expression. Our results revealed that the bSNPs did not have any significant incompatibility in these in vitro cell-based approaches. These preliminary findings suggest that bSNPs are biocompatible, could be the best alternative to synthetic forms of silica and are applicable to food additive and biomedical applications.

  10. Functional and physiological properties of total, soluble, and insoluble dietary fibres derived from defatted rice bran.

    PubMed

    Daou, Cheickna; Zhang, Hui

    2014-12-01

    Enzymatic- gravimetric method was used to obtain three fractions of dietary from defatted rice bran. The functional and physiological properties such as viscosity, cation exchange capacity (CEC), and glucose dialysis retardation index (GDRI), cholesterol and bile salt adsorption capacity of the resultant fractions were evaluated. Insoluble dietary fibre (IDF) and soluble dietary fibre (SDF) when compared showed that SDF exhibited significantly (p < 0.05) higher viscosity (2.35 mPa.s), greater GDRI value (17.65 %) at 60 min and significantly lowered concentration of cholesterol at pH 7 (29.90 %, p < 0.05). However IDF showed the highest CEC and its adsorption capacity of bile salt was higher than SDF (18.20 % vs. 13.76 %; p < 0.05), while CEC and cholesterol absorption capacity of TDF were similar to SDF. These properties indicate that rice bran soluble, insoluble and total fibres are functional ingredients which can be added to various food products and dietetic, low-calorie high-fiber foods to enhance their nutraceutical properties and health benefits.

  11. Arsenic and chromium removal from water using biochars derived from rice husk, organic solid wastes and sewage sludge.

    PubMed

    Agrafioti, Evita; Kalderis, Dimitrios; Diamadopoulos, Evan

    2014-01-15

    Biochars derived from rice husk, the organic fraction of municipal solid wastes and sewage sludge, as well as a sandy loam soil, were used as adsorbents for As(V), Cr(III) and Cr(VI) removal from aqueous solutions. The kinetic study showed that sorption can be well described by the pseudo-second order kinetic model, while simulation of sorption isotherms gave better fit for the Freundlich model. The materials examined removed more than 95% of the initial Cr(III). However, removal rates for As(V) and Cr(VI) anions were significantly lower. Biochar derived from sewage sludge was efficient in removing 89% of Cr(VI) and 53% of As(V). Its ash high Fe2O3 content may have enhanced metal adsorption via precipitation. Soil was the most effective material for the removal of As(V), yet it could not strongly retain metal anions compared to biochars, as a significant amount of the adsorbed metal was released during desorption experiments.

  12. Quantitative trait loci mapping for leaf length and leaf width in rice cv. IR64 derived lines.

    PubMed

    Farooq, Muhammad; Tagle, Analiza G; Santos, Rizza E; Ebron, Leodegario A; Fujita, Daisuke; Kobayashi, Nobuya

    2010-06-01

    The present study was conducted to identify quantitative trait loci (QTLs) for leaf size traits in IR64 introgression lines (INLs). For this purpose, selected F(2) populations derived from crosses between recurrent parent IR64 and its derived INLs, unique for leaf length and leaf width, were used to confirm QTLs. A total of eight QTLs, mapped on three chromosomes, were identified for the four leaf size traits in six F(2) populations. A QTL for leaf length, qLLnpt-1, in HKL69 was identified around simple sequence repeat (SSR) marker RM3709 on chromosome 1. Two QTLs for flag leaf length, qFLLnpt-2 and qFLLnpt-4, in HFG39 were indentified on chromosomes 2 and 4, respectively. For flag leaf width, a QTL, qFLWnpt-4, in HFG39 was identified around RM17483 on chromosome 4. While another QTL for flag leaf width, qFLWnpt-1, in HFG27 was identified around RM3252 on chromosome 1. A QTL for leaf width, qLWnpt-2, in HKL75 was identified around RM7451 on chromosome 2. For leaf width, two QTLs, qLWnpt-4a, qLWnpt-4b, in HKL48 and HKL99 were identified around RM7208 and RM6909, respectively on chromosome 4. Results from this study suggest the possibilities to use marker-assisted selection and pyramiding these QTLs to improve rice water productivity.

  13. Microstructure and growth model for rice-hull-derived SiC whiskers

    NASA Technical Reports Server (NTRS)

    Nutt, Steven R.

    1988-01-01

    The microstructure of silicon carbide whiskers grown from rice hulls has been studied using methods of high-resolution analytical electron microscopy. Small, partially crystalline inclusions (about 10 nm) containing calcium, manganese, and oxygen are concentrated in whisker core regions, while peripheral regions are generally inclusion free. The distinct microphase distribution is evidence of a two-stage growth process in which the core region grows first, followed by normal growth toward whisker sides. Partial dislocations extend radially from the core region to the surface and tend to be paired in V-shaped configurations. Whisker surfaces exhibit microroughness due to a tendency to develop small facets on close-packed planes. The microstructural data obtained from TEM observations are used as a basis for discussion of the mechanisms involved in whisker growth, and a model of the growth process is proposed. The model includes a two-dimensional growth mechanism involving vapor, liquid, and solid phases, although it is significantly different from the classical vapor-liquid-solid (VLS) process of whisker growth.

  14. Rice Husk Ash-Derived Silica Nanofluids: Synthesis and Stability Study

    NASA Astrophysics Data System (ADS)

    Zhang, Zhiliang; He, Wenxiu; Zheng, Jianzhong; Wang, Guangquan; Ji, Jianbing

    2016-11-01

    Nanofluids, colloidal suspensions consisting of base fluids and nanoparticles, are a new generation of engineering working fluids. Nanofluids have shown great potential in heat/mass transfer applications. However, their practical applications are limited by the high production cost and low stability. In this study, a low-cost agricultural waste, rice husk ash (RHA), was used as a silicon source to the synthesis of silica nanofluids. First, silica nanoparticles with an average size of 47 nm were synthesized. Next, by dispersing the silica nanoparticles in water with ultrasonic vibration, silica nanofluids were formed. The results indicated that the dispersibility and stability of nanofluids were highly dependent on sonication time and power, dispersant types and concentrations, as well as pH; an optimal experiment condition could result in the highest stability of silica nanofluid. After 7 days storage, the nanofluid showed no sedimentation, unchanged particle size, and zeta potential. The results of this study demonstrated that there is a great potential for the use of RHA as a low-cost renewable resource for the production of stable silica nanofluids.

  15. Outcrossing potential between U.S. red rice (Oryza sativa) and Chinese indica rice (Oryza sativa) lines

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Red rice in southern U.S. rice fields remains a widespread, economically challenging problem despite nearly a decade of rice production systems that include true-breeding rice cultivars and indica-derived hybrid rice with resistance to imazethapyr. Both of these herbicide-resistant rice systems hav...

  16. Endosperm-specific expression of tyramine N-hydroxycinnamoyltransferase and tyrosine decarboxylase from a single self-processing polypeptide produces high levels of tyramine derivatives in rice seeds.

    PubMed

    Park, Sangkyu; Kang, Kiyoon; Kim, Young Soon; Back, Kyoungwhan

    2009-06-01

    The plant-specific tyramine derivatives, feruloyltyramine (FT) and 4-coumaroyltyramine (CT), represent bioactive compounds found at low levels in many plant species. We generated transgenic rice seeds that produce high levels of CT (14 microg g(-1) seeds) and FT (2.7 microg g(-1) seeds) through the dual expression of tyramine N-hydroxycinnamoyltransferase and tyrosine decarboxylase, using the self-processing foot-and-mouth disease virus 2A sequence and the endosperm-specific prolamin promoter.

  17. Cycloartenyl ferulate, a component of rice bran oil-derived gamma-oryzanol, attenuates mast cell degranulation.

    PubMed

    Oka, T; Fujimoto, M; Nagasaka, R; Ushio, H; Hori, M; Ozaki, H

    2010-02-01

    IgE-targeting therapy could provide significant progress in the treatment of allergic inflammation. In this study, we examined the effect of cycloartenyl ferulate (cycloartenol ferulic acid ester; CAF), a natural product from rice bran oil-derived gamma-oryzanol, on allergic reaction. When CAF and gamma-oryzanol were injected intradermally with anti-DNP IgE into the dorsal skin of rats, the passive cutaneous anaphylaxis reaction induced by DNP-HSA was attenuated. CAF and gamma-oryzanol also inhibited the degranulation of DNP-IgE sensitized RBL-2H3 mast cells stimulated with anti-DNP-HSA. IgE conjugated with CAF could not be detected by anti-IgE antibody in the ELISA analysis. Although incubation of IgE with CAF did not decrease the amount of IgE, it was possible to precipitate IgE by centrifugation. These results demonstrate that CAF captures IgE, prevents it from binding to FcepsilonRI, and attenuates mast cell degranulation.

  18. Recovery of Green Plantlets from Albino Shoot Primordia Derived from Anther Culture of Indica Rice (Oryza sativa L.)

    PubMed Central

    Mohiuddin, Abul Kashem Md.; Karim, Nilufer Hye; Sultana, Shahanaz; Ferdous, Zannatul

    2011-01-01

    A simple method was developed to permit albino plant regeneration from anther culture of Hobigonj Boro (Hbj B) IV and Hbj B VI, two local varieties of aromatic indica rice from Bangladesh. Three crucial factors were identified for the albino shoot primordia to change into green plantlets in culture; components of M10 induction medium, callus size (range 0.2–0.4 cm long) and height of shoot primordia (range 2–3 mm). Immediate transfer of shoot primordia (2–3 mm) from M10 medium to regeneration medium followed by continuous incubation under fluorescent light (100-lux, 25±1°C) triggered albino shoot primordia to turn green in 2–3 days. Callus size did not show any effect on the change. Albino plantlets derived from anther callus cultured in KA, KB, KC, KD and KE media did not recover in both the varieties. Transfer of albino shoot primordia shorter or longer than 2–3 mm from the above 5 cultures to regeneration medium did not cause the shoot primordia to turn green. 100% albino shoot primordia initiated from Hbj B VI and 79% from Hbj B IV in M10 medium changed to green plantlets upon transfer to regeneration medium. Subsequent culture and subculture of green plantlets showed rapid formation of many new green plantlets. PMID:24575205

  19. EMS mutagenesis in mature seed-derived rice calli as a new method for rapidly obtaining TILLING mutant populations

    PubMed Central

    2014-01-01

    Background TILLING (Targeting Induced Local Lesions IN Genomes) is a reverse genetic method that combines chemical mutagenesis with high-throughput genome-wide screening for point mutation detection in genes of interest. However, this mutation discovery approach faces a particular problem which is how to obtain a mutant population with a sufficiently high mutation density. Furthermore, plant mutagenesis protocols require two successive generations (M1, M2) for mutation fixation to occur before the analysis of the genotype can begin. Results Here, we describe a new TILLING approach for rice based on ethyl methanesulfonate (EMS) mutagenesis of mature seed-derived calli and direct screening of in vitro regenerated plants. A high mutagenesis rate was obtained (i.e. one mutation in every 451 Kb) when plants were screened for two senescence-related genes. Screening was carried out in 2400 individuals from a mutant population of 6912. Seven sense change mutations out of 15 point mutations were identified. Conclusions This new strategy represents a significant advantage in terms of time-savings (i.e. more than eight months), greenhouse space and work during the generation of mutant plant populations. Furthermore, this effective chemical mutagenesis protocol ensures high mutagenesis rates thereby saving in waste removal costs and the total amount of mutagen needed thanks to the mutagenesis volume reduction. PMID:24475756

  20. Design, synthesis, and antibacterial activity against rice bacterial leaf blight and leaf streak of 2,5-substituted-1,3,4-oxadiazole/thiadiazole sulfone derivative.

    PubMed

    Li, Pei; Shi, Li; Yang, Xia; Yang, Lei; Chen, Xue-Wen; Wu, Fang; Shi, Qing-Cai; Xu, Wei-Ming; He, Ming; Hu, De-Yu; Song, Bao-An

    2014-04-01

    A series of 2,5-substituted-1,3,4-oxadiazole/thiadiazole sulfone derivatives were synthesized and evaluated for their antibacterial activities against rice bacterial leaf blight and leaf streak caused by Xanthomonas oryzae pv. oryzae and Xanthomonas oryzae pv. oryzicolaby via the turbidimeter test in vitro. Antibacterial bioassay results indicated that most compounds demonstrated good inhibitory effect antibacterial bioactivities against rice bacterial leaf blight and leaf streak. Among the title compounds, compound 6c demonstrated the best inhibitory effect against rice bacterial leaf blight and leaf streak with half-maximal effective concentration (EC50) values of 1.07 and 7.14 μg/mL, respectively, which were even better than those of commercial agents such as Bismerthiazol and Thiediazole Copper. In vivo antibacterial activities tests at greenhouse conditions demonstrated that the controlling effect of compounds 6c (43.5%) and 6g (42.4%) against rice bacterial leaf blight were better than those of Bismerthiazol (25.5%) and Thiediazole Copper (37.5%).

  1. Antibacterial Activity and Mechanism of Action of Sulfone Derivatives Containing 1,3,4-Oxadiazole Moieties on Rice Bacterial Leaf Blight.

    PubMed

    Shi, Li; Li, Pei; Wang, Wenli; Gao, Manni; Wu, Zengxue; Song, Xianpeng; Hu, Deyu

    2015-06-24

    In this study, sulfone derivatives containing 1,3,4-oxadiazole moieties indicated good antibacterial activities against rice bacterial leaf blight caused by the pathogen Xanthomonas oryzaepv. pv. oryzae (Xoo). In particular, 2-(methylsulfonyl)-5-(4-fluorobenzyl)-1,3,4-oxadiazole revealed the best antibacterial activity against Xoo, with a half-maximal effective concentration (EC50) of 9.89 μg/mL, which was better than those of the commercial agents of bismerthiazole (92.61 μg/mL) and thiodiazole copper (121.82 μg/mL). In vivo antibacterial activity tests under greenhouse conditions and field trials demonstrated that 2-(methylsulfonyl)-5-(4-fluorophenyl)-1,3,4-oxadiazole was effective in reducing rice bacterial leaf blight. Meanwhile, 2-(methylsulfonyl)-5-(4-fluorophenyl)-1,3,4-oxadiazole stimulate the increase in superoxide dismutase (SOD) and peroxidase (POD) activities in rice, causing marked enhancement of plant resistance against rice bacterial leaf blight. It could also improve the chlorophyll content and restrain the increase in the malondialdehyde (MDA) content in rice to considerably reduce the amount of damage caused by Xoo. Moreover, 2-(methylsulfonyl)-5-(4-fluorophenyl)-1,3,4-oxadiazole, at a concentration of 20 μg/mL, could inhibit the production of extracellular polysaccharide (EPS) with an inhibition ratio of 94.52%, and reduce the gene expression levels of gumB, gumG, gumM, and xanA, with inhibition ratios of 94.88%, 68.14%, 86.76%, and 79.21%, respectively.

  2. Loss of Msp1p in Schizosaccharomyces pombe induces a ROS-dependent nuclear mutator phenotype that affects mitochondrial fission genes.

    PubMed

    Delerue, Thomas; Khosrobakhsh, Farnoosh; Daloyau, Marlène; Emorine, Laurent Jean; Dedieu, Adrien; Herbert, Christopher J; Bonnefoy, Nathalie; Arnauné-Pelloquin, Laetitia; Belenguer, Pascale

    2016-10-01

    Mitochondria continually fuse and divide to dynamically adapt to changes in metabolism and stress. Mitochondrial dynamics are also required for mitochondrial DNA (mtDNA) integrity; however, the underlying reason is not known. In this study, we examined the link between mitochondrial fusion and mtDNA maintenance in Schizosaccharomyces pombe, which cannot survive without mtDNA, by screening for suppressors of the lethality induced by loss of the dynamin-related large GTPase Msp1p. Our findings reveal that inactivation of Msp1p induces a ROS-dependent nuclear mutator phenotype that affects mitochondrial fission genes involved in suppressing mitochondrial fragmentation and mtDNA depletion. This indicates that mitochondrial fusion is crucial for maintaining the integrity of both mitochondrial and nuclear genetic information. Furthermore, our study suggests that the primary roles of Msp1p are to organize mitochondrial membranes, thus making them competent for fusion, and maintain the integrity of mtDNA.

  3. Acid dye removal: comparison of surfactant-modified mesoporous FSM-16 with activated carbon derived from rice husk.

    PubMed

    Mohamed, Mohamed Mokhtar

    2004-04-01

    Cetyltrimethylammonium bromide (CTAB)-modified mesoporous molecular sieve FSM-16, prepared by a hydrothermal process (373 K, 3 days), was tested as an adsorbent for acid dye (acid yellow, AY, and acid blue, AB) removal in comparison with as-prepared FSM-16 and activated carbon (AC) derived from rice husk (50 vol% H3PO4, 773 K, 2.5 h). The adsorption isotherms, sorption kinetics, and pH effects upon acid dyes sorption on the adsorbents were thoroughly investigated. The structures of different adsorbents were characterized by XRD, FTIR spectroscopy, N2 adsorption measurements, and thermogravimetric (TG) analysis. It was found that the ultimate capacity of the adsorbents varied in the order FSM-16 > modified FSM-16 > AC and followed first-order rate kinetics. The adsorption isotherm of acid dyes on FSM-16 is of type IV, according to the IUPAC classification, drastically different from that of CTAB/FSM-16, which showed a type I isotherm. The latter sample had better adsorption performance at low concentration of acid dyes than the former. As compared to activated carbon of microporous character, the CTAB/FSM-16 sample achieved higher performance at low concentrations. This was due to the successful narrowing of the pore opening of FSM-16 using CTAB with maintenance of a considerable portion of the pore volume. Powder XRD and N2 adsorption studies of the CTAB/FSM-16 material indicated that the textural properties of the support were preserved during the hydrothermal synthesis and that the channels remained accessible, despite a significant reduction in surface area (ca. 26%). TG studies, on the other hand, confirmed that the modified material presented a higher hydrophobicity than that of the CTAB-free FSM-16 sample.

  4. Molecular and Functional Characterization of GR2-R1 Event Based Backcross Derived Lines of Golden Rice in the Genetic Background of a Mega Rice Variety Swarna.

    PubMed

    Bollinedi, Haritha; S, Gopala Krishnan; Prabhu, Kumble Vinod; Singh, Nagendra Kumar; Mishra, Sushma; Khurana, Jitendra P; Singh, Ashok Kumar

    2017-01-01

    Homozygous Golden Rice lines developed in the background of Swarna through marker assisted backcross breeding (MABB) using transgenic GR2-R1 event as a donor for the provitamin A trait have high levels of provitamin A (up to 20 ppm) but are dwarf with pale green leaves and drastically reduced panicle size, grain number and yield as compared to the recurrent parent, Swarna. In this study, we carried out detailed morphological, biochemical and molecular characterization of these lines in a quest to identify the probable reasons for their abnormal phenotype. Nucleotide blast analysis with the primer sequences used to amplify the transgene revealed that the integration of transgene disrupted the native OsAux1 gene, which codes for an auxin transmembrane transporter protein. Real time expression analysis of the transgenes (ZmPsy and CrtI) driven by endosperm-specific promoter revealed the leaky expression of the transgene in the vegetative tissues. We propose that the disruption of OsAux1 disturbed the fine balance of plant growth regulators viz., auxins, gibberellic acid and abscisic acid, leading to the abnormalities in the growth and development of the lines homozygous for the transgene. The study demonstrates the conserved roles of OsAux1 gene in rice and Arabidopsis.

  5. Molecular and Functional Characterization of GR2-R1 Event Based Backcross Derived Lines of Golden Rice in the Genetic Background of a Mega Rice Variety Swarna

    PubMed Central

    Bollinedi, Haritha; S., Gopala Krishnan; Prabhu, Kumble Vinod; Singh, Nagendra Kumar; Mishra, Sushma; Khurana, Jitendra P.; Singh, Ashok Kumar

    2017-01-01

    Homozygous Golden Rice lines developed in the background of Swarna through marker assisted backcross breeding (MABB) using transgenic GR2-R1 event as a donor for the provitamin A trait have high levels of provitamin A (up to 20 ppm) but are dwarf with pale green leaves and drastically reduced panicle size, grain number and yield as compared to the recurrent parent, Swarna. In this study, we carried out detailed morphological, biochemical and molecular characterization of these lines in a quest to identify the probable reasons for their abnormal phenotype. Nucleotide blast analysis with the primer sequences used to amplify the transgene revealed that the integration of transgene disrupted the native OsAux1 gene, which codes for an auxin transmembrane transporter protein. Real time expression analysis of the transgenes (ZmPsy and CrtI) driven by endosperm-specific promoter revealed the leaky expression of the transgene in the vegetative tissues. We propose that the disruption of OsAux1 disturbed the fine balance of plant growth regulators viz., auxins, gibberellic acid and abscisic acid, leading to the abnormalities in the growth and development of the lines homozygous for the transgene. The study demonstrates the conserved roles of OsAux1 gene in rice and Arabidopsis. PMID:28068433

  6. Antibacterial activities against rice bacterial leaf blight and tomato bacterial wilt of 2-mercapto-5-substituted-1,3,4-oxadiazole/thiadiazole derivatives.

    PubMed

    Li, Pei; Shi, Li; Gao, Man-Ni; Yang, Xia; Xue, Wei; Jin, Lin-Hong; Hu, De-Yu; Song, Bao-An

    2015-02-01

    In this study, a series of 2-mercapto-5-substituted-1,3,4-oxadiazole/thiadiazole derivatives were synthesized and evaluated for their antibacterial activities against rice bacterial leaf blight and tomato bacterial wilt caused by Xanthomonas oryzae pv. oryzae (Xoo) and Ralstonia solanacearum (R. solanacearum) via the turbidimeter test in vitro. Antibacterial bioassays indicated that most compounds demonstrated appreciable antibacterial bioactivities against Xoo and R. solanacearum. Among the title compounds, compound 4i demonstrated the best inhibitory effect against Xoo and R. solanacearum with half-maximal effective concentration (EC50) values of 14.69 and 15.14μg/mL, respectively, which were even better than those of commercial agents Bismerthiazol and Thiodiazole Copper. In vivo antibacterial activities tests under greenhouse conditions revealed that the control efficiency of compound 4i against rice bacterial leaf blight and tobacco bacterial wilt were better than those of Bismerthiazol and Thiodiazole Copper. Meanwhile, field trials also indicated that compound 4i demonstrated appreciable control efficiency against rice bacterial leaf blight and tomato bacterial wilt.

  7. Root mass ratio: index derived by assimilation of synthetic aperture radar and the improved World Food Study model for heavy metal stress monitoring in rice

    NASA Astrophysics Data System (ADS)

    Liu, Ming; Liu, Xiangnan; Liu, Meiling; Liu, Feng; Jin, Ming; Wu, Ling

    2016-04-01

    Dynamic assessment of heavy metal contamination in crops is essential for food security and the farmland ecological environment. A new index for monitoring heavy metal stress based on the assimilation of synthetic aperture radar (SAR) data and the crop growth model is performed. The improved World Food Study (WOFOST) model was used in this study, which is embedded with two stress factors to improve the accuracy of assimilation. Biomass (BM) values retrieved by SAR data were assimilated into the improved WOFOST model to simulate dry weight of rice roots (WRT), and the root mass ratio (RMR, WRT/BM) was calculated as an index for monitoring heavy metal stress. SAR shows enormous potential for monitoring crop growth status in cloudy area. Compared with other physiological indices, RMR could weaken the weight change of rice caused by other background factors. In the temporal scale, RMR showed a faster significant decrease when the stress was greater. The spatial distribution of RMR and the stress factors exhibited good consistency. These results suggest that RMR derived from the assimilation method based on SAR data and the improved WOFOST model is effective for dynamically monitoring the rice growth status in cloudy regions under heavy metal stress.

  8. Expression Analysis of Hairpin RNA Carrying Sugarcane mosaic virus (SCMV) Derived Sequences and Transgenic Resistance Development in a Model Rice Plant

    PubMed Central

    Akbar, Sehrish; Wang, Ming-Bo; Liu, Qing

    2017-01-01

    Developing transgenic resistance in monocotyledonous crops against pathogens remains a challenging area of research. Sugarcane mosaic virus (SCMV) is a serious pathogen of many monocotyledonous crops including sugarcane. The objective of present study was to analyze transgenic expression of hairpin RNA (hpRNA), targeting simultaneously CP (Coat Protein) and Hc-Pro (helper component-proteinase) genes of SCMV, in a model rice plant. Conserved nucleotide sequences, exclusive for DAG (Aspartic acid-Alanine-Glycine) and KITC (Lycine-Isoleucine-Threonine-Cysteine) motifs, derived from SCMV CP and Hc-Pro genes, respectively, were fused together and assembled into the hpRNA cassette under maize ubiquitin promoter to form Ubi-hpCP:Hc-Pro construct. The same CP:Hc-Pro sequence was fused with the β-glucuronidase gene (GUS) at the 3′ end under CaMV 35S promoter to develop 35S-GUS:CP:Hc-Pro served as a target reporter gene construct. When delivered into rice callus tissues by particle bombardment, the Ubi-hpCP:Hc-Pro construct induced strong silencing of 35S-GUS:CP:Hc-Pro. Transgenic rice plants, containing Ubi-hpCP:Hc-Pro construct, expressed high level of 21–24 nt small interfering RNAs, which induced specific suppression against GUS:CP:Hc-Pro delivered by particle bombardment and conferred strong resistance to mechanically inoculated SCMV. It is concluded that fusion hpRNA approach is an affordable method for developing resistance against SCMV in model rice plant and it could confer SCMV resistance when transformed into sugarcane. PMID:28255554

  9. Simple and rapid determination of free fatty acids in brown rice by FTIR spectroscopy in conjunction with a second-derivative treatment.

    PubMed

    Genkawa, Takuma; Ahamed, Tofael; Noguchi, Ryozo; Takigawa, Tomohiro; Ozaki, Yukihiro

    2016-01-15

    A simple and rapid method for the determination of free fatty acid (FFA) content in brown rice using Fourier transform infrared spectroscopy (FTIR) in conjunction with second-derivative treatment was proposed. Ground brown rice (10g) was soaked in toluene (20mL) for 30min, and the filtrate of the extract was placed in a 1mm CaF2 liquid cell. The transmittance spectrum of the filtrate was recorded using toluene for the background spectrum. The absorption band due to the CO stretching mode of FFAs was detected at 1710cm(-1), and the Savitzky-Golay second-derivative treatment was performed for band separation. A single linear regression model for FFA was developed using the 1710cm(-1) band in the second-derivative spectra of oleic acid in toluene (0.25-2.50gL(-1)), and the model displayed high prediction accuracy with a determination coefficient of 0.998 and a root mean square error of 0.03gL(-1).

  10. The Tyr-265-to-Cys mutator mutant of DNA polymerase β induces a mutator phenotype in mouse LN12 cells

    PubMed Central

    Clairmont, Caroline A.; Narayanan, Latha; Sun, Ka-Wai; Glazer, Peter M.; Sweasy, Joann B.

    1999-01-01

    DNA polymerase β functions in both base excision repair and meiosis. Errors committed by polymerase β during these processes could result in mutations. Using a complementation system, in which rat DNA polymerase β substitutes for DNA polymerase I of Escherichia coli, we previously isolated a DNA polymerase β mutant in which Tyr-265 was altered to Cys (Y265C). The Y265C mutant is dominant to wild-type DNA polymerase β and possesses an intrinsic mutator activity. We now have expressed the wild-type DNA polymerase and the Y265C mutator mutant in mouse LN12 cells, which have endogenous DNA polymerase β activity. We demonstrate that expression of the Y265C mutator mutant in the LN12 cells results in an 8-fold increase in the spontaneous mutation frequency of λcII mutants compared with expression of the wild-type protein. Expression of Y265C results in at least a 40-fold increase in the frequency of deletions of three bases or more and a 7-fold increase in point mutations. Our results suggest that the mutations we observe in vivo result directly from the action of the mutator polymerase. To our knowledge, this is the first demonstration of a mutator phenotype resulting from expression of a DNA polymerase mutator mutant in mammalian cells. This work raises the possibility that variant polymerases may act in a dominant fashion in human cells, leading to genetic instability and carcinogenesis. PMID:10449735

  11. 3,4-Dichloroaniline revisited: A study on the fate of the priority pollutant in a sediment-water system derived from a rice growing region in Italy.

    PubMed

    Yuan, Ye; Zhang, Peng; Schäffer, Andreas; Schmidt, Burkhard

    2017-01-01

    As ultimate sink for xenobiotics released into the environment, sediments play an important role concerning the evaluation of the fate of foreign compounds. 3,4-Dichloroaniline (3,4-DCA) is a degradation product of herbicide propanil and some urea herbicides. Propanil was extensively used worldwide in rice cultivation. The aim of the study was to examine the fate of (14)C-labeled 3,4-DCA in a sediment-water system; the sediment was derived from a rice field in Northern Italy. After application of (14)C-3,4-DCA, a time-course study was performed using incubation periods from 4h to 56days. Fractions obtained from assays were water phase, sediment phase including methanol and Soxhlet extract as well as non-extractable residues (NER), and mineralized portion ((14)CO2). Soluble fractions were examined by TLC, HPLC and GC-MS. NER found in sediment phases were further fractionated in non-humics, humic acids, fulvic acids and humin. Stability of systems was checked by microbial activity, dissolved oxygen and pH. After 56days of incubation, 23.1% of applied (14)C was mineralized, only 1.30% remained in the water phase, whereas 60.8% was found in the sediment phase, 53.3% of which were NER. Minor metabolites identified were 3,4-dichloroacetanilide (3,4-DCAA) and 3,3',4,4'-tetrachloroazobenzene (TCAB; 2.63% after 56days). According to pH, dissolved oxygen and microbial activity, systems appeared to be stable and not influenced by applied 3,4-DCA. Most striking result was the high mineralization rate as compared to previously published data. This finding suggested an adaptation of the microbial community in the sediment possibly due to decade-long treatment of rice fields with propanil.

  12. Mineral Status in Cattle Fed Rice Straw and Para Grass Combined with Different Levels of Protein Derived from Cassava Foliage

    PubMed Central

    Sath, K.; Pauly, T.; Holtenius, K.

    2013-01-01

    Eight male cattle of the Local Yellow breed with an average live weight of 121 kg and an average age of 18 months were used to evaluate the effects of different levels of sun-dried cassava (Manihot esculenta) foliage supplementation on mineral metabolism in growing cattle fed rice straw and para grass as basal diet. Rice straw ad libitum and para grass (Brachiaria mutica) at 1% DM of BW comprised the basal diet. The study was arranged as a 4×4 double Latin square design, with cassava foliage contributing 0, 0.8, 1.6 or 2.4 g CP/kg BW. The cassava foliage intake was lower than the planned levels. DM consumption was significantly affected by cassava foliage supplementation, with the largest intake observed at the two highest levels of cassava foliage supplementation. Rice straw intake showed the opposite pattern, with lower intake at higher cassava foliage supplementation. No refusals occurred for para grass in any of the treatments. Ca, P, Mg, K, S and Mn intake increased significantly with increasing intake of cassava foliage, but Na intake was not affected by treatment. Faecal excretion of Ca, Mg, S and Mn increased significantly with increasing cassava foliage intake. There were no differences between P, K and Na excretion in faeces. There was a significant diet effect on Mg, S and Mn digestibility. Mg and Mn digestibility increased with increasing cassava foliage supplementation, while S digestibility decreased. Ca, P, K and Na digestibility was not affected by diet. There was a significant effect of treatment on P retention, with the highest value observed for supplementation with 1.6 g CP/kg BW cassava foliage. Ca and Mg showed similar trends, with the highest retention again for supplementation with 1.6 g CP/kg BW cassava foliage. There were weak but significant positive correlations between nitrogen retention and the macro minerals Ca, P and Mg. Furthermore, retention of all these minerals was positively correlated. Mineral losses in urine were not affected

  13. In vitro antibacterial activity of sphaeropsidins and chemical derivatives toward Xanthomonas oryzae pv. oryzae, the causal agent of rice bacterial blight.

    PubMed

    Evidente, Antonio; Venturi, Vittorio; Masi, Marco; Degrassi, Giuliano; Cimmino, Alessio; Maddau, Lucia; Andolfi, Anna

    2011-12-27

    Sphaeropsidin A, the main phytotoxin produced by Diplodia cupressi, as well as the two natural analogues sphaeropsidins B and C and 14 derivatives obtained by chemical modifications were assayed for antibacterial activity against Xanthomonas oryzae pv. oryzae, Pseudomonas fuscovaginae, and Burkholderia glumae, the causal agents of severe bacterial rice diseases. The results showed a strong and specific activity of sphaeropsidin A against X. oryzae pv. oryzae, while no activity was observed against the other two pathogens. The results of structure-activity relationship studies showed that structural features important to impart this antibacterial activity are the presence of the C-7 carbonyl group and the hemiketalic lactone functionality. The C-13 vinyl group, the double bond of ring C, and/or the tertiary C-9 hydroxy group, as well as the pimarane arrangement of the tricylic carbon skeleton, were also important for the antibacterial activity. These findings may be useful in designing novel compounds for practical applications in agriculture.

  14. Statistical derivation of fPAR and LAI for irrigated cotton and rice in arid Uzbekistan by combining multi-temporal RapidEye data and ground measurements

    NASA Astrophysics Data System (ADS)

    Ehammer, Andrea; Fritsch, Sebastian; Conrad, Christopher; Lamers, John; Dech, Stefan

    2010-10-01

    Land surface biophysical parameters such as the fraction of photosynthetic active radiation (fPAR) and leaf area index (LAI) are keys for monitoring vegetation dynamics and in particular for biomass and carbon flux simulation. This study aimed at deriving accurate regression equations from the newly available RapidEye satellite sensor to be able to map regional fPAR and LAI which could be used as inputs for crop growth simulations. Therefore, multi-temporal geo- and atmospherically corrected RapidEye scenes were segmented to derive homogeneous patches within the experimental fields. Various vegetation indices (VI) were calculated for each patch focusing on indices that include RapidEye's red edge band and further correlated with in situ measured fPAR and LAI values of cotton and rice. Resulting coefficients of determination ranged from 0.55 to 0.95 depending on the indices analysed, object scale, crop type and regression function type. The general relationships between VI and fPAR were found to be linear. Nonlinear models gave a better fit for VI-LAI relation. VIs derived from the red edge channel did not prove to be generally superior to other VIs.

  15. Comparative analysis of normalised difference spectral indices derived from MODIS for detecting surface water in flooded rice cropping systems.

    PubMed

    Boschetti, Mirco; Nutini, Francesco; Manfron, Giacinto; Brivio, Pietro Alessandro; Nelson, Andrew

    2014-01-01

    Identifying managed flooding in paddy fields is commonly used in remote sensing to detect rice. Such flooding, followed by rapid vegetation growth, is a reliable indicator to discriminate rice. Spectral indices (SIs) are often used to perform this task. However, little work has been done on determining which spectral combination in the form of Normalised Difference Spectral Indices (NDSIs) is most appropriate for surface water detection or which thresholds are most robust to separate water from other surfaces in operational contexts. To address this, we conducted analyses on satellite and field spectral data from an agronomic experiment as well as on real farming situations with different soil and plant conditions. Firstly, we review and select NDSIs proposed in the literature, including a new combination of visible and shortwave infrared bands. Secondly, we analyse spectroradiometric field data and satellite data to evaluate mixed pixel effects. Thirdly, we analyse MODIS data and Landsat data at four sites in Europe and Asia to assess NDSI performance in real-world conditions. Finally, we test the performance of the NDSIs on MODIS temporal profiles in the four sites. We also compared the NDSIs against a combined index previously used for agronomic flood detection. Analyses suggest that NDSIs using MODIS bands 4 and 7, 1 and 7, 4 and 6 or 1 and 6 perform best. A common threshold for each NDSI across all sites was more appropriate than locally adaptive thresholds. In general, NDSIs that use band 7 have a negligible increase in Commission Error over those that use band 6 but are more sensitive to water presence in mixed land cover conditions typical of moderate spatial resolution analyses. The best performing NDSI is comparable to the combined index but with less variability in performance across sites, suggesting a more succinct and robust flood detection method.

  16. Comparative Analysis of Normalised Difference Spectral Indices Derived from MODIS for Detecting Surface Water in Flooded Rice Cropping Systems

    PubMed Central

    Boschetti, Mirco; Nutini, Francesco; Manfron, Giacinto; Brivio, Pietro Alessandro; Nelson, Andrew

    2014-01-01

    Identifying managed flooding in paddy fields is commonly used in remote sensing to detect rice. Such flooding, followed by rapid vegetation growth, is a reliable indicator to discriminate rice. Spectral indices (SIs) are often used to perform this task. However, little work has been done on determining which spectral combination in the form of Normalised Difference Spectral Indices (NDSIs) is most appropriate for surface water detection or which thresholds are most robust to separate water from other surfaces in operational contexts. To address this, we conducted analyses on satellite and field spectral data from an agronomic experiment as well as on real farming situations with different soil and plant conditions. Firstly, we review and select NDSIs proposed in the literature, including a new combination of visible and shortwave infrared bands. Secondly, we analyse spectroradiometric field data and satellite data to evaluate mixed pixel effects. Thirdly, we analyse MODIS data and Landsat data at four sites in Europe and Asia to assess NDSI performance in real-world conditions. Finally, we test the performance of the NDSIs on MODIS temporal profiles in the four sites. We also compared the NDSIs against a combined index previously used for agronomic flood detection. Analyses suggest that NDSIs using MODIS bands 4 and 7, 1 and 7, 4 and 6 or 1 and 6 perform best. A common threshold for each NDSI across all sites was more appropriate than locally adaptive thresholds. In general, NDSIs that use band 7 have a negligible increase in Commission Error over those that use band 6 but are more sensitive to water presence in mixed land cover conditions typical of moderate spatial resolution analyses. The best performing NDSI is comparable to the combined index but with less variability in performance across sites, suggesting a more succinct and robust flood detection method. PMID:24586381

  17. Biogenic Hierarchical TiO2/SiO2 Derived from Rice Husk and Enhanced Photocatalytic Properties for Dye Degradation

    PubMed Central

    Yang, Dalong; Fan, Tongxiang; Zhou, Han; Ding, Jian; Zhang, Di

    2011-01-01

    Background Rice husk, an agricultural bioresource, is utilized as a non-metallic bio-precursor to synthesize biogenic hierarchical TiO2/SiO2 (BH-TiO2/SiO2) and the products are applied to dye degradation. Methodology/Principal Findings The as-prepared BH-TiO2/SiO2 samples are characterized by X-ray diffraction(XRD), X-ray photoelectron spectroscopy(XPS), nitrogen-adsorption measurement, UV-vis spectroscopy and electronic paramagnetic resonance (EPR). The results show that BH-TiO2/SiO2 possesses both anatase and rutile phases with amorphous SiO2 as background, which contains mesopore structure, and nitrogen derived from original rice husk is self-doped into the lattice. Besides, the light-harvesting within the visible-light range of BH-TiO2/SiO2 has been enhanced. Moreover, the catalytic activity of BH-TiO2/SiO2 has been proven by EPR, and both the photocatalytic activity and stability of BH-TiO2/SiO2 are improved as well, which has been illustrated by cycled degradation of methylene blue dye under irradiation. Conclusions/Significance This work provides a good way to combine natural hierarchical porous structure with synthetic material chemistry based on available biomass in the vast natural environment for the sustainable development of human society, and extends potentials of biomass in applications such as photocatalysts, sunlight splitting water and so forth. PMID:21931853

  18. Genetic basis of sRNA quantitative variation analyzed using an experimental population derived from an elite rice hybrid.

    PubMed

    Wang, Jia; Yao, Wen; Zhu, Dan; Xie, Weibo; Zhang, Qifa

    2015-03-30

    We performed a genetic analysis of sRNA abundance in flag leaf from an immortalized F2 (IMF2) population in rice. We identified 53,613,739 unique sRNAs and 165,797 sRNA expression traits (s-traits). A total of 66,649 s-traits mapped 40,049 local-sQTLs and 30,809 distant-sQTLs. By defining 80,362 sRNA clusters, 22,263 sRNA cluster QTLs (scQTLs) were recovered for 20,249 of all the 50,139 sRNA cluster expression traits (sc-traits). The expression levels for most of s-traits from the same genes or the same sRNA clusters were slightly positively correlated. While genetic co-regulation between sRNAs from the same mother genes and between sRNAs and their mother genes was observed for a portion of the sRNAs, most of the sRNAs and their mother genes showed little co-regulation. Some sRNA biogenesis genes were located in distant-sQTL hotspots and showed correspondence with specific length classes of sRNAs suggesting their important roles in the regulation and biogenesis of the sRNAs.

  19. An ionic liquid tolerant cellulase derived from chemically polluted microhabitats and its application in in situ saccharification of rice straw.

    PubMed

    Xu, Jiaxing; He, Bingfang; Wu, Bin; Wang, Bin; Wang, Chenghua; Hu, Lei

    2014-04-01

    A cellulase-producing fungus was isolated from chemically polluted microhabitats by [Amim][Cl] enrichment and identified as Aspergillus fumigatus. The maximum activity of the cellulase in 30% (v/v) ionic liquids (ILs) was detected in [Emim][DMP], [Amim][Cl] and [Emim][MA] as 127%, 111% and 109%, respectively, of its activity in buffer, suggesting its superior performance in high concentration ILs. Strikingly, although its initial activity varied in each IL, its half-life was longer in most ILs than in buffer, evidence of a high conformational stability of the enzyme that is essential for maintaining the remaining activity in relevant media. It noteworthy that 1-3M NaCl can activate the cellulase somewhat. More gratifyingly, a compatible IL-cellulase system based on the cellulase was developed, and its use significantly improved the saccharification rate of rice straw from 53% to 88% versus the control, demonstrating its potential for efficient transformation of lignocellulose to glucose in a single-step process.

  20. Bioactivity of a Rice Bran-Derived Peptide and its Sensory Evaluation and Storage Stability in Orange Juice.

    PubMed

    Graves, Amanda M; Hettiarachchy, Navam; Rayaprolu, Srinivas; Li, Ruiqi; Horax, Ronny; Seo, Han-Seok

    2016-04-01

    A pentapeptide prepared from rice bran demonstrated growth inhibition on human lung, liver, breast, and colon cancer cell lines. The objectives of this study were to evaluate the human prostate cancer growth inhibition by the pentapeptide and its 6-mo storage stability by incorporating spray-dried orange juice, and determining sensory acceptability. The pentapeptide showed inhibition of human prostate cancer cells by 45% at 460 μg/mL concentration. When incorporated in spray-dried orange juice, and reconstituted with water and tested, there was an approximately 10% degradation of the peptide at 620 μg/mL concentration under refrigerated conditions over a 6 mo storage period, whereas at ambient temperature the degradation was 30%. Larger degradation was observed when 240 or 460 μg/mL pentapeptide was used. Overall, consumer panelists liked sensory aspect of the reconstituted pentapeptide incorporated orange juice beverage. Also consumer panelists liked the color and mouthfeel attributes, their hedonic impression of flavor attribute was slightly low due to unpalatable bitter note caused by the presence of the peptide. Incorporation of the pentapeptide in spray-dried orange juice has the potential to serve as a functional food ingredient that can offer health benefits to consumers. It is possible that the structural instability can be minimized by encapsulation.

  1. Microarray-based gene expression analysis of strong seed dormancy in rice cv. N22 and less dormant mutant derivatives.

    PubMed

    Wu, Tao; Yang, Chunyan; Ding, Baoxu; Feng, Zhiming; Wang, Qian; He, Jun; Tong, Jianhua; Xiao, Langtao; Jiang, Ling; Wan, Jianmin

    2016-02-01

    Seed dormancy in rice is an important trait related to the pre-harvest sprouting resistance. In order to understand the molecular mechanisms of seed dormancy, gene expression was investigated by transcriptome analysis using seeds of the strongly dormant cultivar N22 and its less dormant mutants Q4359 and Q4646 at 24 days after heading (DAH). Microarray data revealed more differentially expressed genes in Q4359 than in Q4646 compared to N22. Most genes differing between Q4646 and N22 also differed between Q4359 and N22. GO analysis of genes differentially expressed in both Q4359 and Q4646 revealed that some genes such as those for starch biosynthesis were repressed, whereas metabolic genes such as those for carbohydrate metabolism were enhanced in Q4359 and Q4646 seeds relative to N22. Expression of some genes involved in cell redox homeostasis and chromatin remodeling differed significantly only between Q4359 and N22. The results suggested a close correlation between cell redox homeostasis, chromatin remodeling and seed dormancy. In addition, some genes involved in ABA signaling were down-regulated, and several genes involved in GA biosynthesis and signaling were up-regulated. These observations suggest that reduced seed dormancy in Q4359 was regulated by ABA-GA antagonism. A few differentially expressed genes were located in the regions containing qSdn-1 and qSdn-5 suggesting that they could be candidate genes underlying seed dormancy. Our work provides useful leads to further determine the underling mechanisms of seed dormancy and for cloning seed dormancy genes from N22.

  2. O-glycans and O-glycosylation sites of recombinant human GM-CSF derived from suspension-cultured rice cells, and their structural role.

    PubMed

    Kim, Jihye; Park, Heajin; Park, Byung Tae; Hwang, Hye Seong; Kim, Jae Il; Kim, Dae Kyong; Kim, Ha Hyung

    2016-10-14

    Recombinant human GM-CSF (rhGM-CSF) from yeast has been clinically applied to immunosuppressed patients. The production of suspension-cultured rice-cell-derived rhGM-CSF (rrhGM-CSF), which has a longer blood clearance time and the same bioactivity as yeast-derived rhGM-CSF, and the analysis of its N-glycans have been reported recently. However, there are no previous reports of the O-glycosylation of rhGM-CSF from plant cells, and so this study investigated O-glycans, O-glycosylation sites, and their structural role in rrhGM-CSF. Monosaccharide analysis revealed the presence of O-glycans comprising arabinose and galactose. Eight O-glycans comprising four arabinose residues with zero to seven galactose residues along with their relative quantities were analyzed. Analysis of pronase-digested glycopeptides indicated that the O-glycans are partially attached to Ser 5, Ser 7, Ser 9, or Thr 10 residues, and glycan heterogeneity was confirmed at each site. Pro-to-hydroxyproline conversions occurred at Pro 2, Pro 6, and Pro 8 residues. The preparation of deglycosylated rrhGM-CSFs revealed that deglycosylation greatly affects their α-helix structures. These findings indicate that O-glycans of rrhGM-CSF are essential for maintaining its structural stability and result in an extended in vivo half-life, but without affecting its biological function. This is the first report on the O-glycosylation of rhGM-CSF derived from plant cells.

  3. Changes in CH4 emission from rice fields from 1960 to 1990s: 1. Impacts of modern rice technology

    NASA Astrophysics Data System (ADS)

    Gon, Hugo Denier

    2000-03-01

    Four countries (Indonesia, Philippines, Thailand, and Nepal) were taken as an example to assess the impact of changes in rice cultivation on methane emissions from rice fields since the 1960s. The change of rice area by type of culture from 1960-1990s is estimated, and its relative contribution to national harvested rice area is calculated and multiplied with an emission factor, to derive the relative methane emission per unit rice land. Relative methane emission per ha rice land has increased since 1960 for all four countries, largely due to an increase in irrigated rice area and partly due to a decrease in upland rice area. Patterns of rice area changes and related emission changes differ considerably among countries. On the basis of the rice area increases between 1960 and the 1990s, significant increases in methane emissions from rice fields due to increases in total rice cultivated area are not to be expected in the future. The impact of modern rice variety adoption is assessed by relating methane emissions to rice production. The organic matter returned to the paddy soil is largely determined by rice biomass production which, given a certain yield, is different for traditional and modern rice varieties. By calculating total organic matter returned to rice paddy soils and assuming a constant fraction to be emitted as methane, rice production and methane emission can be related. The analysis indicates that (1) up to now, rice yield increases in countries with high modern rice variety adoption have not resulted in increased methane emissions per unit of harvested area and, (2) global annual emission from rice fields may be considerably lower than generally assumed. The introduction of modern rice varieties can be regarded as a historical methane emission mitigation strategy because higher rice yields resulted in lower or equal methane emissions.

  4. Changes in CH4 emission from rice fields from 1960 to 1990s. 1. Impacts of modern rice technology

    NASA Astrophysics Data System (ADS)

    van der Gon, Hugo Denier

    2000-03-01

    Four countries (Indonesia, Philippines, Thailand, and Nepal) were taken as an example to assess the impact of changes in rice cultivation on methane emissions from rice fields since the 1960s. The change of rice area by type of culture from 1960-1990s is estimated, and its relative contribution to national harvested rice area is calculated and multiplied with an emission factor, to derive the relative methane emission per unit rice land. Relative methane emission per ha rice land has increased since 1960 for all four countries, largely due to an increase in irrigated rice area and partly due to a decrease in upland rice area. Patterns of rice area changes and related emission changes differ considerably among countries. On the basis of the rice area increases between 1960 and the 1990s, significant increases in methane emissions from rice fields due to increases in total rice cultivated area are not to be expected in the future. The impact of modern rice variety adoption is assessed by relating methane emissions to rice production. The organic matter returned to the paddy soil is largely determined by rice biomass production which, given a certain yield, is different for traditional and modern rice varieties. By calculating total organic matter returned to rice paddy soils and assuming a constant fraction to be emitted as methane, rice production and methane emission can be related. The analysis indicates that (1) up to now, rice yield increases in countries with high modern rice variety adoption have not resulted in increased methane emissions per unit of harvested area and, (2) global annual emission from rice fields may be considerably lower than generally assumed. The introduction of modern rice varieties can be regarded as a historical methane emission mitigation strategy because higher rice yields resulted in lower or equal methane emissions.

  5. Extracellular protease derived from lactic acid bacteria stimulates the fermentative lactic acid production from the by-products of rice as a biomass refinery function.

    PubMed

    Watanabe, Masanori; Techapun, Charin; Kuntiya, Ampin; Leksawasdi, Noppol; Seesuriyachan, Phisit; Chaiyaso, Thanongsak; Takenaka, Shinji; Maeda, Isamu; Koyama, Masahiro; Nakamura, Kozo

    2017-02-01

    A lactic acid producing bacterium, Lactobacillus rhamnosus M-23, newly isolated from a rice washing drainage storage tank was found to produce l-(+)-lactic acid from a non-sterilized mixture of rice washing drainage and rice bran without any additions of nutrients under the simultaneous saccharification and fermentation (SSF) process. This strain has the ability to utilize the non-sterilized rice washing drainage and rice bran as a source of carbohydrate, saccharifying enzymes and nutrients for lactic acid production. Observation of extracellular protease activity in SSF culture broth showed that a higher protease activity was present in strain M-23 than in other isolated lactic acid producing bacteria (LABs). To investigate the structural changes of solid particles of rice washing drainage throughout LAB cultivation, scanning electron microscopic (SEM) observation and Fourier transform infrared-spectroscopy (FT-IR) analysis were performed. The results of the SEM observation showed that the surface material could be removed from solid particles of rice washing drainage treated by culture broth (supernatant) of strain M-23, thus exposing the crystal structure of the starch particle surface. The results of the FT-IR analysis revealed that the specific transmittance decrease of the CC and CO stretching and OH group of the solid particles of the rice washing drainage were highly correlated with the produced lactic acid concentration and extracellular protease activity, respectively. These results demonstrate the high lactic acid producing ability of strain M-23 from a non-sterilized mixture of rice washing drainage and rice bran under the SSF condition due to the removal of proteinaceous material and exposure of the starch particle surface by extracellular protease.

  6. In situ generation of a hydroxyl radical by nanoporous activated carbon derived from rice husk for environmental applications: kinetic and thermodynamic constants.

    PubMed

    Karthikeyan, S; Sekaran, G

    2014-03-07

    The objective of this investigation is to evaluate the hydroxyl radical (˙OH) generation using nanoporous activated carbon (NPAC), derived from rice husk, and dissolved oxygen in water. The in situ production of the ˙OH radical was confirmed through the DMPO spin trapping method in EPR spectroscopy and quantitative determination by a deoxyribose assay procedure. NPAC served as a heterogeneous catalyst to degrade 2-deoxy-d-ribose (a reference compound) using hydroxyl radical generated from dissolved oxygen in water at temperatures in the range 313-373 K and pH 6, with first order rate constants (k = 9.2 × 10(-2) min(-1), k = 1.2 × 10(-1) min(-1), k = 1.3 × 10(-1) min(-1) and k = 1.68 × 10(-1) min(-1)). The thermodynamic constants for the generation of hydroxyl radicals by NPAC and dissolved oxygen in water were ΔG -1.36 kJ mol(-1) at 313 K, ΔH 17.73 kJ mol(-1) and ΔS 61.01 J mol(-1) K(-1).

  7. Separation of high-purity syringol and acetosyringone from rice straw-derived bio-oil by combining the basification-acidification process and column chromatography.

    PubMed

    Hao, Shilai; Chen, Kaifei; Cao, Leichang; Zhu, Xiangdong; Luo, Gang; Zhang, Shicheng; Chen, Jianmin

    2016-10-01

    Numerous technologies have been used to reclaim valuable chemicals from bio-oil. In this study, a combination of the basification-acidification process and column chromatography was employed for the separation of high-purity syringol and acetosyringone from rice straw-derived bio-oil. The optimal conditions for the basification-acidification process and the possible precipitation mechanism of the basification were explored. The results showed the following as the optimal conditions for the basification process: mass ratio of calcium hydroxide (Ca(OH)2 ) to bio-oil, 2.0; reaction temperature, 70°C; and reaction time, 30 min. The results also showed that 1.6 mol of hydrochloric acid (HCl) per gram of bio-oil was optimal for the acidification. The precipitation was found to proceed via a possible mechanism involving the reaction of the phenolic compounds in the bio-oil with Ca(OH)2 to produce a precipitate. After further separation by column chromatography, purities of 91.4 and 96.2% (from gas chromatography-mass spectrometry) were obtained for syringol and acetosyringone, respectively. Their recoveries for the whole process were 73.0 and 39.3%, respectively.

  8. Chlorella starch branching enzyme II (BEII) can complement the function of BEIIb in rice endosperm.

    PubMed

    Sawada, Takayuki; Francisco, Perigio B; Aihara, Satomi; Utsumi, Yoshinori; Yoshida, Mayumi; Oyama, Yasunori; Tsuzuki, Mikio; Satoh, Hikaru; Nakamura, Yasunori

    2009-06-01

    In monocots, starch branching enzyme II (BEII) was functionally differentiated into BEIIa and BEIIb after separation from the dicots, and in cereals BEIIb plays a distinct role in amylopectin biosynthesis in the endosperm. The present study was conducted to examine to what extent a green algal BEII has an overlapping function with BEIIb in starch biosynthesis by introducing the Chlorella BEII gene into an amylose-extender (ae) mutant of rice. Chlorella BEII was found to complement the contribution of the rice endosperm BEIIb to the structures of amylopectin and starch granules because these mutated phenotypes were recovered almost completely to those of the wild type by the expression of Chlorella BEII. When the recombinant BE enzymes were incubated with the rice ae amylopectin, the branching pattern of Chlorella BEII was much more similar to that of rice BEIIb rather than rice BEIIa. Detailed analyses of BE reaction products suggests that BEIIb and Chlorella BEII only transfer chains with a degree of polymerization (DP) of 6 and 7, whereas BEIIa preferably transfers short chains with a DP of about 6-11. These results show that the Chlorella BEII is functionally similar to rice BEIIb rather than BEIIa.

  9. Antimicrobial activity and mechanism of action of a novel cationic α-helical octadecapeptide derived from α-amylase of rice.

    PubMed

    Taniguchi, Masayuki; Ochiai, Akihito; Takahashi, Kiyoshi; Nakamichi, Shun-ichi; Nomoto, Takafumi; Saitoh, Eiichi; Kato, Tetsuo; Tanaka, Takaaki

    2015-03-01

    AmyI-1-18, an octadecapeptide derived from α-amylase (AmyI-1) of rice (Oryza sativa L. japonica), is a novel cationic α-helical antimicrobial peptide (AMP) that contains two lysine and two arginine residues. The antimicrobial activity of AmyI-1-18 against human pathogens was quantitatively evaluated using a chemiluminescence method that measures ATP derived from viable cells. Of the ten kinds of human pathogens, AmyI-1-18 exhibited antimicrobial activity against nine. Its 50% growth-inhibitory concentrations (ICs50 ) against Porphyromonas gingivalis, Propionibacterium acnes, Pseudomonas aeruginosa, Candida albicans, and Streptococcus mutans were 13, 19, 50, 64, and 77 μM, respectively. AmyI-1-18 had little or no hemolytic activity even at 500 μM, and showed negligible cytotoxicity up to 1200 μM. The degree of 3,3'-dipropylthiadicarbocyanine iodide release from P. gingivalis cells induced by the addition of AmyI-1-18 was significantly lower than that induced by the addition of melittin. Flow cytometric analysis showed that the percentages of P. aeruginosa, S. mutans, and C. albicans cells stained with propidium iodide (PI), a DNA-intercalating dye, were 89%, 43%, and 3%, respectively, when AmyI-1-18 was added at a concentration equal to its 4×IC50 . Therefore, the antimicrobial activity of AmyI-1-18 against P. aeruginosa and S. mutans appears to be mainly attributable to its membrane-disrupting activity. In contrast, its antimicrobial activity against P. gingivalis and C. albicans most likely depends upon interactions with intracellular targets other than their cell membranes. Collectively, these results indicate that AmyI-1-18 is useful as a safe and potent AMP against the pathogens described above in many fields of healthcare.

  10. The 3,000 rice genomes project: new opportunities and challenges for future rice research.

    PubMed

    Li, Jia-Yang; Wang, Jun; Zeigler, Robert S

    2014-01-01

    Rice is the world's most important staple grown by millions of small-holder farmers. Sustaining rice production relies on the intelligent use of rice diversity. The 3,000 Rice Genomes Project is a giga-dataset of publically available genome sequences (averaging 14× depth of coverage) derived from 3,000 accessions of rice with global representation of genetic and functional diversity. The seed of these accessions is available from the International Rice Genebank Collection. Together, they are an unprecedented resource for advancing rice science and breeding technology. Our immediate challenge now is to comprehensively and systematically mine this dataset to link genotypic variation to functional variation with the ultimate goal of creating new and sustainable rice varieties that can support a future world population that will approach 9.6 billion by 2050.

  11. Recombinant, rice-produced yeast phytase shows the ability to hydrolyze phytate derived from seed-based feed, and extreme stability during ensilage treatment.

    PubMed

    Hamada, Akira; Yamaguchi, Ken-Ichi; Harada, Michiko; Horiguchi, Ken-Ichi; Takahashi, Toshiyoshi; Honda, Hideo

    2006-06-01

    When fresh rice leaves producing yeast Schwanniomyces occidentalis phytase were grounded and mixed with the whole extract of seed-based feed for pigs, the release of orthophosphate increased significantly. More specifically, phytate, a major source of phosphorus in the seeds, was hydrolyzed by heterologous phytase. Moreover, when transgenic rice plants were ensiled for up to 12 weeks, no decrease in the phytase activity of the heterologous enzyme was observed. This result strongly suggests that transgenic rice plants producing yeast phytase can be stored as silage without any loss of enzyme activity until usage as a feed additive.

  12. Efficient in vitro plant regeneration through leaf base derived callus cultures of abiotic stress sensitive popular Asian Indica rice cultivar IR 64 (Oryza sativa L.).

    PubMed

    Mohana Priya, A; Karutha Pandian, S; Ramesh, M

    2011-12-01

    A simple and efficient protocol has been developed for high frequency plant regeneration through callus cultures derived from leaf bases of abiotic stress sensitive Asian indica rice variety IR 64. Leaf base segments (4-5 mm diameter) were obtained from 6-day-old dark grown seedlings germinated on halfstrength Murashige and Skoog medium and cultured on MS medium supplemented with different concentrations of 2,4-Dichlorophenoxyacetic acid (2.2-18 μM) and Kinetin (0.2-1.7 μM). Among the various combinations, 13.5 μM 2,4-D and 1.3 μM Kn resulted in high callus induction frequency (87.5%) with a maximum fresh weight of 0.22 g per segment. The regeneration frequency was 75.5% with multiple shoots within 3 weeks of transfer on MS medium supplemented with 13.3 μM 6-benzylamino purine and 8 μM Naphthaleneacetic acid. The shoots readily rooted on half-strength MS medium without any hormonal supplements. In vitro regenerated plantlets with multiple shoots and roots were transferred to sterile soil and vermiculite mix and maintained in shade house for 30 days. Complete plantlets were then transferred to nursery and acclimatized to the external environment until seed set. RAPD profile reveals monomorphism and thus confirming the genetic stability of the regenerated plants. This method has the potential for both direct as well as indirect method of transformation for the production of genetically modified plants.

  13. Mapping paddy rice planting area in rice-wetland coexistent areas through analysis of Landsat 8 OLI and MODIS images.

    PubMed

    Zhou, Yuting; Xiao, Xiangming; Qin, Yuanwei; Dong, Jinwei; Zhang, Geli; Kou, Weili; Jin, Cui; Wang, Jie; Li, Xiangping

    2016-04-01

    Accurate and up-to-date information on the spatial distribution of paddy rice fields is necessary for the studies of trace gas emissions, water source management, and food security. The phenology-based paddy rice mapping algorithm, which identifies the unique flooding stage of paddy rice, has been widely used. However, identification and mapping of paddy rice in rice-wetland coexistent areas is still a challenging task. In this study, we found that the flooding/transplanting periods of paddy rice and natural wetlands were different. The natural wetlands flood earlier and have a shorter duration than paddy rice in the Panjin Plain, a temperate region in China. We used this asynchronous flooding stage to extract the paddy rice planting area from the rice-wetland coexistent area. MODIS Land Surface Temperature (LST) data was used to derive the temperature-defined plant growing season. Landsat 8 OLI imagery was used to detect the flooding signal and then paddy rice was extracted using the difference in flooding stages between paddy rice and natural wetlands. The resultant paddy rice map was evaluated with in-situ ground-truth data and Google Earth images. The estimated overall accuracy and Kappa coefficient were 95% and 0.90, respectively. The spatial pattern of OLI-derived paddy rice map agrees well with the paddy rice layer from the National Land Cover Dataset from 2010 (NLCD-2010). The differences between RiceLandsat and RiceNLCD are in the range of ±20% for most 1-km grid cell. The results of this study demonstrate the potential of the phenology-based paddy rice mapping algorithm, via integrating MODIS and Landsat 8 OLI images, to map paddy rice fields in complex landscapes of paddy rice and natural wetland in the temperate region.

  14. Mapping paddy rice planting area in rice-wetland coexistent areas through analysis of Landsat 8 OLI and MODIS images

    PubMed Central

    Zhou, Yuting; Xiao, Xiangming; Qin, Yuanwei; Dong, Jinwei; Zhang, Geli; Kou, Weili; Jin, Cui; Wang, Jie; Li, Xiangping

    2016-01-01

    Accurate and up-to-date information on the spatial distribution of paddy rice fields is necessary for the studies of trace gas emissions, water source management, and food security. The phenology-based paddy rice mapping algorithm, which identifies the unique flooding stage of paddy rice, has been widely used. However, identification and mapping of paddy rice in rice-wetland coexistent areas is still a challenging task. In this study, we found that the flooding/transplanting periods of paddy rice and natural wetlands were different. The natural wetlands flood earlier and have a shorter duration than paddy rice in the Panjin Plain, a temperate region in China. We used this asynchronous flooding stage to extract the paddy rice planting area from the rice-wetland coexistent area. MODIS Land Surface Temperature (LST) data was used to derive the temperature-defined plant growing season. Landsat 8 OLI imagery was used to detect the flooding signal and then paddy rice was extracted using the difference in flooding stages between paddy rice and natural wetlands. The resultant paddy rice map was evaluated with in-situ ground-truth data and Google Earth images. The estimated overall accuracy and Kappa coefficient were 95% and 0.90, respectively. The spatial pattern of OLI-derived paddy rice map agrees well with the paddy rice layer from the National Land Cover Dataset from 2010 (NLCD-2010). The differences between RiceLandsat and RiceNLCD are in the range of ±20% for most 1-km grid cell. The results of this study demonstrate the potential of the phenology-based paddy rice mapping algorithm, via integrating MODIS and Landsat 8 OLI images, to map paddy rice fields in complex landscapes of paddy rice and natural wetland in the temperate region. PMID:27688742

  15. Long-term rice cultivation stabilizes soil organic carbon and promotes soil microbial activity in a salt marsh derived soil chronosequence.

    PubMed

    Wang, Ping; Liu, Yalong; Li, Lianqing; Cheng, Kun; Zheng, Jufeng; Zhang, Xuhui; Zheng, Jinwei; Joseph, Stephen; Pan, Genxing

    2015-10-27

    Soil organic carbon (SOC) sequestration with enhanced stable carbon storage has been widely accepted as a very important ecosystem property. Yet, the link between carbon stability and bio-activity for ecosystem functioning with OC accumulation in field soils has not been characterized. We assessed the changes in microbial activity versus carbon stability along a paddy soil chronosequence shifting from salt marsh in East China. We used mean weight diameter, normalized enzyme activity (NEA) and carbon gain from straw amendment for addressing soil aggregation, microbial biochemical activity and potential C sequestration, respectively. In addition, a response ratio was employed to infer the changes in all analyzed parameters with prolonged rice cultivation. While stable carbon pools varied with total SOC accumulation, soil respiration and both bacterial and fungal diversity were relatively constant in the rice soils. Bacterial abundance and NEA were positively but highly correlated to total SOC accumulation, indicating an enhanced bio-activity with carbon stabilization. This could be linked to an enhancement of particulate organic carbon pool due to physical protection with enhanced soil aggregation in the rice soils under long-term rice cultivation. However, the mechanism underpinning these changes should be explored in future studies in rice soils where dynamic redox conditions exist.

  16. Long-term rice cultivation stabilizes soil organic carbon and promotes soil microbial activity in a salt marsh derived soil chronosequence

    PubMed Central

    Wang, Ping; Liu, Yalong; Li, Lianqing; Cheng, Kun; Zheng, Jufeng; Zhang, Xuhui; Zheng, Jinwei; Joseph, Stephen; Pan, Genxing

    2015-01-01

    Soil organic carbon (SOC) sequestration with enhanced stable carbon storage has been widely accepted as a very important ecosystem property. Yet, the link between carbon stability and bio-activity for ecosystem functioning with OC accumulation in field soils has not been characterized. We assessed the changes in microbial activity versus carbon stability along a paddy soil chronosequence shifting from salt marsh in East China. We used mean weight diameter, normalized enzyme activity (NEA) and carbon gain from straw amendment for addressing soil aggregation, microbial biochemical activity and potential C sequestration, respectively. In addition, a response ratio was employed to infer the changes in all analyzed parameters with prolonged rice cultivation. While stable carbon pools varied with total SOC accumulation, soil respiration and both bacterial and fungal diversity were relatively constant in the rice soils. Bacterial abundance and NEA were positively but highly correlated to total SOC accumulation, indicating an enhanced bio-activity with carbon stabilization. This could be linked to an enhancement of particulate organic carbon pool due to physical protection with enhanced soil aggregation in the rice soils under long-term rice cultivation. However, the mechanism underpinning these changes should be explored in future studies in rice soils where dynamic redox conditions exist. PMID:26503629

  17. A novel gene, Pi40(t), linked to the DNA markers derived from NBS-LRR motifs confers broad spectrum of blast resistance in rice.

    PubMed

    Jeung, J U; Kim, B R; Cho, Y C; Han, S S; Moon, H P; Lee, Y T; Jena, K K

    2007-11-01

    Rice blast disease caused by Magnaporthe grisea is a continuous threat to stable rice production worldwide. In a modernized agricultural system, the development of varieties with broad-spectrum and durable resistance to blast disease is essential for increased rice production and sustainability. In this study, a new gene is identified in the introgression line IR65482-4-136-2-2 that has inherited the resistance gene from an EE genome wild Oryza species, O. australiensis (Acc. 100882). Genetic and molecular analysis localized a major resistance gene, Pi40(t), on the short arm of chromosome 6, where four blast resistance genes (Piz, Piz-5, Piz-t, and Pi9) were also identified, flanked by the markers S2539 and RM3330. Through e-Landing, 14 BAC/PAC clones within the 1.81-Mb equivalent virtual contig were identified on Rice Pseudomolecule3. Highly stringent primer sets designed for 6 NBS-LRR motifs located within PAC clone P0649C11 facilitated high-resolution mapping of the new resistance gene, Pi40(t). Following association analysis and detailed haplotyping approaches, a DNA marker, 9871.T7E2b, was identified to be linked to the Pi40(t) gene at the 70 Kb chromosomal region, and differentiated the Pi40(t) gene from the LTH monogenic differential lines possessing genes Piz, Piz-5, Piz-t, and Pi-9. Pi40(t) was validated using the most virulent isolates of Korea as well as the Philippines, suggesting a broad spectrum for the resistance gene. Marker-assisted selection (MAS) and pathotyping of BC progenies having two japonica cultivar genetic backgrounds further supported the potential of the resistance gene in rice breeding. Our study based on new gene identification strategies provides insight into novel genetic resources for blast resistance as well as future studies on cloning and functional analysis of a blast resistance gene useful for rice improvement.

  18. [Index screening and comprehensive evaluation of phenotypic traits of low nitrogen tolerance using BILs population derived from Dongxiang wild rice (Oryza rufipogon Griff)].

    PubMed

    Hu, Biao-lin; Li, Xia; Wan, Yong; Qiu, Zai-hui; Nie, Yuan-yuan; Xie, Jian-kun

    2015-08-01

    To identify the low nitrogen tolerance of Dongxiang wild rice (DXWR) and its progenies, ten phenotypic traits including plant height (PH), heading day (HD), panicle length (PL), number of effective tillers per plant (NETP), number of filled grains per panicle (NFGP), number of grains per panicle (NGP), grain density (GD), spikelet fertility (SF), 1000-grain mass (TGM) and grain yield per plant (GYP) were studied under normal and low nitrogen treatments, using backcross inbred lines (BILs) of Xieqingzao B//DXWR/Xieqingzao B in BC1 F12. Comprehensive evaluation on the low nitrogen tolerance of the BILs population was conducted using principal component analysis and the subordinate function. The evaluation results indicated that the low nitrogen tolerance of the line 116, 143 and 157 was the strongest, which could be served as the intermediate materials for genetic studies on the low nitrogen tolerance of DXWR and breeding for the low nitrogen tolerance in rice. The optimal regression equation of the low nitrogen tolerance in rice was established using stepwise regression analysis. The relative values of five traits including PH, NGP, SF, TGM and GYP were screened out and could be used as comprehensive evaluation indices for the low nitrogen tolerance in the whole growth stage. Therefore, more attention should be paid to the relative values of these five traits, especially for NGP and GYP, in the genetic improvement of the low nitrogen tolerance in rice.

  19. Gene flow from transgenic rice to red rice (Oryza sativa L.) in the field.

    PubMed

    Busconi, M; Baldi, G; Lorenzoni, C; Fogher, C

    2014-01-01

    In this study, we simulate a transgenic rice crop highly infested with red rice to examine transgene transfer from a transgenic line (A2504) resistant to glufosinate ammonium to cohabitant red rice. The red rice was sown along with the transgenic line at the highest density found in naturally infested crops in the region. Agricultural practices similar to those used to control red rice infestation in northern Italy rice fields were used to reproduce the local rice production system. During the first 2 years, the field was treated with herbicide at the appropriate time; in the first year the dosage of herbicide was three times the recommended amount. In this first year, detectable red rice plants that escaped herbicide treatment were manually removed. Nevertheless, two herbicide-resistant hybrid plants (named 101 and 104) were identified in the experimental field during the second year of cultivation. Phenotypic and molecular characterisation suggests the hybrid nature of these two plants, deriving from crossing events involving A2504, respectively, with red rice (plant 101) and the buffer cultivar Gladio (plant 104). The progeny of two subsequent generations of the two plants were examined and the presence of the transgene detected, indicating stable transfer of the transgene across generations. In conclusion, despite control methods, red rice progeny tolerant to the herbicide can be expected following use of transgenic rice and, consequently, difficulties in controlling this weed with chemicals will emerge in a relatively short time.

  20. Gene Editing by Co-Transformation of TALEN and Chimeric RNA/DNA Oligonucleotides on the Rice OsEPSPS Gene and the Inheritance of Mutations

    PubMed Central

    Wang, Mugui; Liu, Yujun; Zhang, Cuicui; Liu, Jianping; Liu, Xin; Wang, Liangchao; Wang, Wenyi; Chen, Hao; Wei, Chuchu; Ye, Xiufen; Li, Xinyuan; Tu, Jumin

    2015-01-01

    Although several site-specific nucleases (SSNs), such as zinc-finger nucleases (ZFNs), transcription activator-like effector nucleases (TALENs), and the clustered regularly interspaced short palindromic repeat (CRISPR)/Cas, have emerged as powerful tools for targeted gene editing in many organisms, to date, gene targeting (GT) in plants remains a formidable challenge. In the present study, we attempted to substitute a single base in situ on the rice OsEPSPS gene by co-transformation of TALEN with chimeric RNA/DNA oligonucleotides (COs), including different strand composition such as RNA/DNA (C1) or DNA/RNA (C2) but contained the same target base to be substituted. In contrast to zero GT event obtained by the co-transformation of TALEN with homologous recombination plasmid (HRP), we obtained one mutant showing target base substitution although accompanied by undesired deletion of 12 bases downstream the target site from the co-transformation of TALEN and C1. In addition to this typical event, we also obtained 16 mutants with different length of base deletions around the target site among 105 calli lines derived from transformation of TALEN alone (4/19) as well as co-transformation of TELAN with either HRP (5/30) or C1 (2/25) or C2 (5/31). Further analysis demonstrated that the homozygous gene-edited mutants without foreign gene insertion could be obtained in one generation. The induced mutations in transgenic generation were also capable to pass to the next generation stably. However, the genotypes of mutants did not segregate normally in T1 population, probably due to lethal mutations. Phenotypic assessments in T1 generation showed that the heterozygous plants with either one or three bases deletion on target sequence, called d1 and d3, were more sensitive to glyphosate and the heterozygous d1 plants had significantly lower seed-setting rate than wild-type. PMID:25856577

  1. Deriving the Characteristic Scale for Effectively Monitoring Heavy Metal Stress in Rice by Assimilation of GF-1 Data with the WOFOST Model

    PubMed Central

    Huang, Zhi; Liu, Xiangnan; Jin, Ming; Ding, Chao; Jiang, Jiale; Wu, Ling

    2016-01-01

    Accurate monitoring of heavy metal stress in crops is of great importance to assure agricultural productivity and food security, and remote sensing is an effective tool to address this problem. However, given that Earth observation instruments provide data at multiple scales, the choice of scale for use in such monitoring is challenging. This study focused on identifying the characteristic scale for effectively monitoring heavy metal stress in rice using the dry weight of roots (WRT) as the representative characteristic, which was obtained by assimilation of GF-1 data with the World Food Studies (WOFOST) model. We explored and quantified the effect of the important state variable LAI (leaf area index) at various spatial scales on the simulated rice WRT to find the critical scale for heavy metal stress monitoring using the statistical characteristics. Furthermore, a ratio analysis based on the varied heavy metal stress levels was conducted to identify the characteristic scale. Results indicated that the critical threshold for investigating the rice WRT in monitoring studies of heavy metal stress was larger than 64 m but smaller than 256 m. This finding represents a useful guideline for choosing the most appropriate imagery. PMID:26959033

  2. Deriving the Characteristic Scale for Effectively Monitoring Heavy Metal Stress in Rice by Assimilation of GF-1 Data with the WOFOST Model.

    PubMed

    Huang, Zhi; Liu, Xiangnan; Jin, Ming; Ding, Chao; Jiang, Jiale; Wu, Ling

    2016-03-07

    Accurate monitoring of heavy metal stress in crops is of great importance to assure agricultural productivity and food security, and remote sensing is an effective tool to address this problem. However, given that Earth observation instruments provide data at multiple scales, the choice of scale for use in such monitoring is challenging. This study focused on identifying the characteristic scale for effectively monitoring heavy metal stress in rice using the dry weight of roots (WRT) as the representative characteristic, which was obtained by assimilation of GF-1 data with the World Food Studies (WOFOST) model. We explored and quantified the effect of the important state variable LAI (leaf area index) at various spatial scales on the simulated rice WRT to find the critical scale for heavy metal stress monitoring using the statistical characteristics. Furthermore, a ratio analysis based on the varied heavy metal stress levels was conducted to identify the characteristic scale. Results indicated that the critical threshold for investigating the rice WRT in monitoring studies of heavy metal stress was larger than 64 m but smaller than 256 m. This finding represents a useful guideline for choosing the most appropriate imagery.

  3. Cytoplasmic-genetic male sterility gene provides direct evidence for some hybrid rice recently evolving into weedy rice

    PubMed Central

    Zhang, Jingxu; Lu, Zuomei; Dai, Weimin; Song, Xiaoling; Peng, Yufa; Valverde, Bernal E.; Qiang, Sheng

    2015-01-01

    Weedy rice infests paddy fields worldwide at an alarmingly increasing rate. There is substantial evidence indicating that many weedy rice forms originated from or are closely related to cultivated rice. There is suspicion that the outbreak of weedy rice in China may be related to widely grown hybrid rice due to its heterosis and the diversity of its progeny, but this notion remains unsupported by direct evidence. We screened weedy rice accessions by both genetic and molecular marker tests for the cytoplasmic male sterility (CMS) genes (Wild abortive, WA, and Boro type, BT) most widely used in the production of indica and japonica three-line hybrid rice as a diagnostic trait of direct parenthood. Sixteen weedy rice accessions of the 358 tested (4.5%) contained the CMS-WA gene; none contained the CMS-BT gene. These 16 accessions represent weedy rices recently evolved from maternal hybrid rice derivatives, given the primarily maternal inheritance of this trait. Our results provide key direct evidence that hybrid rice can be involved in the evolution of some weedy rice accessions, but is not a primary factor in the recent outbreak of weedy rice in China. PMID:26012494

  4. Cytoplasmic-genetic male sterility gene provides direct evidence for some hybrid rice recently evolving into weedy rice.

    PubMed

    Zhang, Jingxu; Lu, Zuomei; Dai, Weimin; Song, Xiaoling; Peng, Yufa; Valverde, Bernal E; Qiang, Sheng

    2015-05-27

    Weedy rice infests paddy fields worldwide at an alarmingly increasing rate. There is substantial evidence indicating that many weedy rice forms originated from or are closely related to cultivated rice. There is suspicion that the outbreak of weedy rice in China may be related to widely grown hybrid rice due to its heterosis and the diversity of its progeny, but this notion remains unsupported by direct evidence. We screened weedy rice accessions by both genetic and molecular marker tests for the cytoplasmic male sterility (CMS) genes (Wild abortive, WA, and Boro type, BT) most widely used in the production of indica and japonica three-line hybrid rice as a diagnostic trait of direct parenthood. Sixteen weedy rice accessions of the 358 tested (4.5%) contained the CMS-WA gene; none contained the CMS-BT gene. These 16 accessions represent weedy rices recently evolved from maternal hybrid rice derivatives, given the primarily maternal inheritance of this trait. Our results provide key direct evidence that hybrid rice can be involved in the evolution of some weedy rice accessions, but is not a primary factor in the recent outbreak of weedy rice in China.

  5. RPAN: rice pan-genome browser for ∼3000 rice genomes

    PubMed Central

    Sun, Chen; Hu, Zhiqiang; Zheng, Tianqing; Lu, Kuangchen; Zhao, Yue; Wang, Wensheng; Shi, Jianxin; Wang, Chunchao; Lu, Jinyuan; Zhang, Dabing; Li, Zhikang; Wei, Chaochun

    2017-01-01

    A pan-genome is the union of the gene sets of all the individuals of a clade or a species and it provides a new dimension of genome complexity with the presence/absence variations (PAVs) of genes among these genomes. With the progress of sequencing technologies, pan-genome study is becoming affordable for eukaryotes with large-sized genomes. The Asian cultivated rice, Oryza sativa L., is one of the major food sources for the world and a model organism in plant biology. Recently, the 3000 Rice Genome Project (3K RGP) sequenced more than 3000 rice genomes with a mean sequencing depth of 14.3×, which provided a tremendous resource for rice research. In this paper, we present a genome browser, Rice Pan-genome Browser (RPAN), as a tool to search and visualize the rice pan-genome derived from 3K RGP. RPAN contains a database of the basic information of 3010 rice accessions, including genomic sequences, gene annotations, PAV information and gene expression data of the rice pan-genome. At least 12 000 novel genes absent in the reference genome were included. RPAN also provides multiple search and visualization functions. RPAN can be a rich resource for rice biology and rice breeding. It is available at http://cgm.sjtu.edu.cn/3kricedb/ or http://www.rmbreeding.cn/pan3k. PMID:27940610

  6. Reproductive stage physiological and transcriptional responses to salinity stress in reciprocal populations derived from tolerant (Horkuch) and susceptible (IR29) rice.

    PubMed

    Razzaque, Samsad; Haque, Taslima; Elias, Sabrina M; Rahman, Md Sazzadur; Biswas, Sudip; Schwartz, Scott; Ismail, Abdelbagi M; Walia, Harkamal; Juenger, Thomas E; Seraj, Zeba I

    2017-04-11

    Global increase in salinity levels has made it imperative to identify novel sources of genetic variation for tolerance traits, especially in rice. The rice landrace Horkuch, endemic to the saline coastal area of Bangladesh, was used in this study as the source of tolerance in reciprocal crosses with the sensitive but high-yielding IR29 variety for discovering transcriptional variation associated with salt tolerance in the resulting populations. The cytoplasmic effect of the Horkuch background in leaves under stress showed functional enrichment for signal transduction, DNA-dependent regulation and transport activities. In roots the enrichment was for cell wall organization and macromolecule biosynthesis. In contrast, the cytoplasmic effect of IR29 showed upregulation of apoptosis and downregulation of phosphorylation across tissues relative to Horkuch. Differential gene expression in leaves of the sensitive population showed downregulation of GO processes like photosynthesis, ATP biosynthesis and ion transport. Roots of the tolerant plants conversely showed upregulation of GO terms like G-protein coupled receptor pathway, membrane potential and cation transport. Furthermore, genes involved in regulating membrane potentials were constitutively expressed only in the roots of tolerant individuals. Overall our work has developed genetic resources and elucidated the likely mechanisms associated with the tolerance response of the Horkuch genotype.

  7. Reproductive stage physiological and transcriptional responses to salinity stress in reciprocal populations derived from tolerant (Horkuch) and susceptible (IR29) rice

    PubMed Central

    Razzaque, Samsad; Haque, Taslima; Elias, Sabrina M.; Rahman, Md. Sazzadur; Biswas, Sudip; Schwartz, Scott; Ismail, Abdelbagi M.; Walia, Harkamal; Juenger, Thomas E.; Seraj, Zeba I.

    2017-01-01

    Global increase in salinity levels has made it imperative to identify novel sources of genetic variation for tolerance traits, especially in rice. The rice landrace Horkuch, endemic to the saline coastal area of Bangladesh, was used in this study as the source of tolerance in reciprocal crosses with the sensitive but high-yielding IR29 variety for discovering transcriptional variation associated with salt tolerance in the resulting populations. The cytoplasmic effect of the Horkuch background in leaves under stress showed functional enrichment for signal transduction, DNA-dependent regulation and transport activities. In roots the enrichment was for cell wall organization and macromolecule biosynthesis. In contrast, the cytoplasmic effect of IR29 showed upregulation of apoptosis and downregulation of phosphorylation across tissues relative to Horkuch. Differential gene expression in leaves of the sensitive population showed downregulation of GO processes like photosynthesis, ATP biosynthesis and ion transport. Roots of the tolerant plants conversely showed upregulation of GO terms like G-protein coupled receptor pathway, membrane potential and cation transport. Furthermore, genes involved in regulating membrane potentials were constitutively expressed only in the roots of tolerant individuals. Overall our work has developed genetic resources and elucidated the likely mechanisms associated with the tolerance response of the Horkuch genotype.

  8. Cadmium in rice: Transport mechanisms, influencing factors, and minimizing measures.

    PubMed

    Li, Hui; Luo, Na; Li, Yan Wen; Cai, Quan Ying; Li, Hui Yuan; Mo, Ce Hui; Wong, Ming Hung

    2017-05-01

    Cadmium (Cd) accumulation in rice and its subsequent transfer to food chain is a major environmental issue worldwide. Understanding of Cd transport processes and its management aiming to reduce Cd uptake and accumulation in rice may help to improve rice growth and grain quality. Moreover, a thorough understanding of the factors influencing Cd accumulation will be helpful to derive efficient strategies to minimize Cd in rice. In this article, we reviewed Cd transport mechanisms in rice, the factors affecting Cd uptake (including physicochemical characters of soil and ecophysiological features of rice) and discussed efficient measures to immobilize Cd in soil and reduce Cd uptake by rice (including agronomic practices, bioremediation and molecular biology techniques). These findings will contribute to ensuring food safety, and reducing Cd risk on human beings.

  9. Rice ( Oryza) hemoglobins

    PubMed Central

    Arredondo-Peter, Raúl; Moran, Jose F.; Sarath, Gautam

    2014-01-01

    Hemoglobins (Hbs) corresponding to non-symbiotic (nsHb) and truncated (tHb) Hbs have been identified in rice ( Oryza). This review discusses the major findings from the current studies on rice Hbs. At the molecular level, a family of the nshb genes, consisting of hb1, hb2, hb3, hb4 and hb5, and a single copy of the thb gene exist in Oryza sativa var. indica and O. sativa var. japonica, Hb transcripts coexist in rice organs and Hb polypeptides exist in rice embryonic and vegetative organs and in the cytoplasm of differentiating cells. At the structural level, the crystal structure of rice Hb1 has been elucidated, and the structures of the other rice Hbs have been modeled. Kinetic analysis indicated that rice Hb1 and 2, and possibly rice Hb3 and 4, exhibit a very high affinity for O 2, whereas rice Hb5 and tHb possibly exhibit a low to moderate affinity for O 2. Based on the accumulated information on the properties of rice Hbs and data from the analysis of other plant and non-plant Hbs, it is likely that Hbs play a variety of roles in rice organs, including O 2-transport, O 2-sensing, NO-scavenging and redox-signaling. From an evolutionary perspective, an outline for the evolution of rice Hbs is available. Rice nshb and thb genes vertically evolved through different lineages, rice nsHbs evolved into clade I and clade II lineages and rice nshbs and thbs evolved under the effect of neutral selection. This review also reveals lacunae in our ability to completely understand rice Hbs. Primary lacunae are the absence of experimental information about the precise functions of rice Hbs, the properties of modeled rice Hbs and the cis-elements and trans-acting factors that regulate the expression of rice hb genes, and the partial understanding of the evolution of rice Hbs. PMID:25653837

  10. Rice ( Oryza) hemoglobins.

    PubMed

    Arredondo-Peter, Raúl; Moran, Jose F; Sarath, Gautam

    2014-01-01

    Hemoglobins (Hbs) corresponding to non-symbiotic (nsHb) and truncated (tHb) Hbs have been identified in rice ( Oryza). This review discusses the major findings from the current studies on rice Hbs. At the molecular level, a family of the nshb genes, consisting of hb1, hb2, hb3, hb4 and hb5, and a single copy of the thb gene exist in Oryza sativa var. indica and O. sativa var. japonica, Hb transcripts coexist in rice organs and Hb polypeptides exist in rice embryonic and vegetative organs and in the cytoplasm of differentiating cells. At the structural level, the crystal structure of rice Hb1 has been elucidated, and the structures of the other rice Hbs have been modeled. Kinetic analysis indicated that rice Hb1 and 2, and possibly rice Hb3 and 4, exhibit a very high affinity for O 2, whereas rice Hb5 and tHb possibly exhibit a low to moderate affinity for O 2. Based on the accumulated information on the properties of rice Hbs and data from the analysis of other plant and non-plant Hbs, it is likely that Hbs play a variety of roles in rice organs, including O 2-transport, O 2-sensing, NO-scavenging and redox-signaling. From an evolutionary perspective, an outline for the evolution of rice Hbs is available. Rice nshb and thb genes vertically evolved through different lineages, rice nsHbs evolved into clade I and clade II lineages and rice nshbs and thbs evolved under the effect of neutral selection. This review also reveals lacunae in our ability to completely understand rice Hbs. Primary lacunae are the absence of experimental information about the precise functions of rice Hbs, the properties of modeled rice Hbs and the cis-elements and trans-acting factors that regulate the expression of rice hb genes, and the partial understanding of the evolution of rice Hbs.

  11. Antarctic and Southern Ocean Mineral Dust Aerosol Transport Pathways: Forward-Trajectory Modeling and Source Constraints Derived from the RICE Ice Core

    NASA Astrophysics Data System (ADS)

    Neff, P. D.; Tuohy, A.; Bertler, N. A. N.; Edwards, R.

    2014-12-01

    Mineral dust fertilization of Southern Ocean surface waters, and mixing with Antarctic deep-water, influences oceanic uptake of atmospheric carbon dioxide and draws down global atmospheric CO2concentration during glacial periods. Quantifying modern variability in dust source and transport strength, especially with respect to high- and low-latitude climate phenomena (e.g. SAM, ENSO), will improve understanding of this important aspect of the global carbon cycle. Here we present data from a new intermediate-depth, coastal ice core drilled at Roosevelt Island, Antarctica as part of the Roosevelt Island Climate Evolution (RICE) project. Using HySPLIT forward trajectories, climate reanalysis and geochemistry data, this work explores variability in atmospheric transport for modern Southern Hemisphere dust source areas (primarily Australia, southern South America and southern Africa). While New Zealand represents a relatively small dust source at present, it is strongly-connected to the Antarctic due to its position within the circumpolar westerly winds and was a major dust source during the last glacial period. Geochemical data from the RICE ice core (79.36ºS, 161.71ºW, 550 m a.s.l.) are used to constrain sources of dust in this sector. The lanthanide elements—common in crustal material and not susceptible to fractionation—can preserve the signature of their original source material, allowing for characterisation of dust provenance. Initial results suggest that only air trajectories originating in New Zealand regularly reach the Ross Sea, Marie Byrd Land and Roosevelt Island within 3 to 5 days (see Figure 1), a characteristic travel time of suspended dust particles. We discuss estimates of the relative source strength of New Zealand compared with other dust source areas to evaluate its overall contribution. Figure 1: Daily 96-hour forward trajectories for Southern Hemisphere dust source areas, 2010-2013 (NOAA HySPLIT, NCEP reanalysis). NCEP reanalysis 1980

  12. Feed Intake, Digestibility, and N Retention in Cattle Fed Rice Straw and Para Grass Combined with Different Levels of Protein Derived from Cassava Foliage

    PubMed Central

    Sath, K.; Sokun, K.; Pauly, T.; Holtenius, K.

    2012-01-01

    Eight male cattle of Local Yellow breed with an average live weight of 121 kg and an average age of 18 months were used to evaluate the effects of different levels of sun-dried cassava foliage supplementation (Manihot esculenta) on intake, digestibility and N retention. Rice straw ad libitum and para grass (Brachiaria mutica) at 1% DM of BW comprised the basal diet. The study was arranged as a 4×4 double Latin square design, with cassava foliage contributing 0, 0.8, 1.6 or 2.4 g CP/kg BW. The cattle selected cassava leaves in preference to petioles. Petiole intake decreased from 64 to 48% of offered petioles when the cassava foliage proportion increased from the lowest to the highest level. The cattle consumed all the leaves at the two lower levels of cassava foliage inclusion and 91% at the highest level. Rice straw intake decreased significantly as the level of cassava foliage increased. Intake of DM, OM, NDF, and ADF increased significantly with increasing intake of cassava foliage. Daily DM intake per 100 kg BW increased from 2.7 to 3.2 kg with increasing cassava foliage intake. No effect on CP digestibility was detected when the level of cassava foliage increased. Digestibility of DM, OM, NDF and ADF was significantly higher in the group fed no cassava foliage than in the other groups. N retention increased from 16 to 28 g/d with the first level of cassava foliage inclusion, but levelled out at the two highest levels. N excretion increased in both faeces and urine as a response to higher intake of cassava foliage. Maximum N retention occurred when 40% of total N intake came from cassava foliage (equivalent to 1.3 g CP/kg BW). PMID:25049650

  13. Nutritionally enhanced rice to combat malnutrition disorders of the poor.

    PubMed

    Potrykus, Ingo

    2003-06-01

    Major deficiency disorders, including vitamin A deficiency, are especially common in countries in which rice is the staple food. In response to the devastating effects of vitamin A deficiency, which may include blindness and, even death, "Golden Rice" has been developed to deliver this nutrient to those populations who need it most. The case of Golden Rice is used to demonstrate the challenges of radical GMO opposition, consumer acceptance, and regulation of biotechnology-derived foods.

  14. Urinary excretion of arsenic following rice consumption.

    PubMed

    Meharg, A A; Williams, P N; Deacon, C M; Norton, G J; Hossain, M; Louhing, D; Marwa, E; Lawgalwi, Y; Taggart, M; Cascio, C; Haris, P

    2014-11-01

    Patterns of arsenic excretion were followed in a cohort (n = 6) eating a defined rice diet, 300 g per day d.wt. where arsenic speciation was characterized in cooked rice, following a period of abstinence from rice, and other high arsenic containing foods. A control group who did not consume rice were also monitored. The rice consumed in the study contained inorganic arsenic and dimethylarsinic acid (DMA) at a ratio of 1:1, yet the urine speciation was dominated by DMA (90%). At steady state (rice consumption/urinary excretion) ∼40% of rice derived arsenic was excreted via urine. By monitoring of each urine pass throughout the day it was observed that there was considerable variation (up to 13-fold) for an individual's total arsenic urine content, and that there was a time dependent variation in urinary total arsenic content. This calls into question the robustness of routinely used first pass/spot check urine sampling for arsenic analysis.

  15. Cultivated and weedy rice interactions and the domestication process.

    PubMed

    Lawton-Rauh, Amy; Burgos, Nilda

    2010-08-01

    Examining the targets of selection in crop species and their wild and weedy relatives sheds light on the evolutionary processes underlying differentiation of cultivars from progenitor lineages. On one hand, human-mediated directional selection in crops favours traits associated with the streamlining of controllable and predictable monoculture practices alongside selection for desired trait values. On the other hand, natural selection in wild and especially weedy relatives presumably favours trait values that increase the probability of escaping eradication. Gene flow between crops and wild species may also counter human-mediated selection, promoting the evolution and persistence of weedy forms. In this issue, two studies from a group of collaborators examine diversity and divergence patterns of genes underlying two traits associated with red rice (Oryza sp.), the conspecific relative of cultivated rice (Oryza sativa) that is a non-native weed (see Fig. 1). In the first study by Gross et al. (2010), genetic variation in the major gene underlying the hallmark red pigmentation characterizing most weedy rice (Rc) is found to have a pattern consistent with non-reversion from U.S. cultivated rice (i.e. the cultivar did not 'go feral'). This suggests that U.S. weedy rice is not an escaped lineage derived from U.S. cultivated rice populations; weedy rice likely differentiated prior to the selective sweep occurred in this gene within cultivated rice populations. Using the major seed shattering locus sh4 gene and the neighbouring genomic region, Thurber et al. (2010) track the molecular evolutionary history of the high shattering phenotype, a trait contributing dramatically to the success of crop selection in cultivated rice as well as the persistence and expansion of weedy red rice. In this study, the shared fixation of a sh4 mutation in both cultivated rice and weedy rice indicates that weedy rice arose subsequent to the strong selective sweep leading to significant

  16. Abandoned Rice Fields Make Streams Go Dry in Upland Landscapes

    NASA Astrophysics Data System (ADS)

    Jayawickreme, D.

    2015-12-01

    In South Asia, new economic realities are driving many rural rice farmers out of agriculture. With increasing neglect, abandonment, and rising conversions of centuries old rice fields into other uses, ecological and environmental consequences of these transitions are becoming progressively clear. Field observations in Sri Lanka's central highlands suggest that small shifts in rice to non-rice land uses in headwater watersheds can have a domino effect on the productivity and viability of rice fields and other ecological systems downstream by inflicting groundwater recharge reductions, lowering groundwater yields, and causing other hydrological changes. Preliminary analysis shows that although rice itself is a very water intensive crop, the presence of rain-fed upland rice-fields is hugely beneficial to the watersheds they reside. In particular, water benefits of rice appear to be derived from ponded conditions (3-5 inches of standing water) in which rice is grown, and the contribution rice fields makes to enhance water retention and storage capacity of their watersheds during the monsoon season that coincide with the cropping season. In the absence of well managed rice-fields, hilly upland landscapes produce more runoff and retain little rainwater during the wet season. Furthermore, after centuries of intensive use, much of South Asia's rice fields are nutrient poor and minimally productive without fertilizer applications and other interventions. Consequently, when abandoned, soil erosion and other impacts that affect aquatic ecosystems and watershed health also emerge. Despite these multiple concerns however, little research is currently done to better understand the environmental significance of rice cultivations that are a dominant land-use in many South Asian landscapes. The aim of this presentation is to stir interest among the scientific community to engage more broadly in rice, water, and environmental change research in the face of new economic realities in

  17. Antioxidative Effects of Germinated Brown Rice-Derived Extracts on H2O2-Induced Oxidative Stress in HepG2 Cells

    PubMed Central

    Md Zamri, Nur Diyana; Imam, Mustapha Umar; Abd Ghafar, Siti Aisyah; Ismail, Maznah

    2014-01-01

    The antioxidant properties of germinated brown rice (GBR) are likely mediated by multiple bioactives. To test this hypothesis, HepG2 cells pretreated with GBR extracts, rich in acylated steryl glycoside (ASG), gamma amino butyric acid GABA), phenolics or oryzanol, were incubated with hydrogen peroxide (H2O2) and their hydroxyl radical (OH•) scavenging capacities and thiobarbituric acid-reactive substances (TBARS) generation were evaluated. Results showed that GBR-extracts increased OH• scavenging activities in both cell-free medium and posttreatment culture media, suggesting that the extracts were both direct- and indirect-acting against OH•. The levels of TBARS in the culture medium after treatment were also reduced by all the extracts. In addition, H2O2 produced transcriptional changes in p53, JNK, p38 MAPK, AKT, BAX, and CDK4 that were inclined towards apoptosis, while GBR-extracts showed some transcriptional changes (upregulation of BAX and p53) that suggested an inclination for apoptosis although other changes (upregulation of antioxidant genes, AKT, JNK, and p38 MAPK) suggested that GBR-extracts favored survival of the HepG2 cells. Our findings show that GBR bioactive-rich extracts reduce oxidative stress through improvement in antioxidant capacity, partly mediated through transcriptional regulation of antioxidant and prosurvival genes. PMID:25431609

  18. Influence of adsorption versus coprecipitation on the retention of rice straw-derived dissolved organic carbon and subsequent reducibility of Fe-DOC systems

    NASA Astrophysics Data System (ADS)

    Sodano, Marcella; Lerda, Cristina; Martin, Maria; Celi, Luisella; Said-Pullicino, Daniel

    2016-04-01

    adsorption or coprecipitation, DOC was obtained by incubating a suspension of rice straw in water (straw-solution ratio of 1:30) under oxic conditions at 25° C for 30 days to simulate the decomposition of rice straw in the field. Increasing amounts of DOC were equilibrated (pH = 6) with a known mass of ferrihydrite (initial molar C:Fe ratios of 1, 5 and 10) to obtain surface coated Fe-DOC systems with increasing C loading. On the other hand, coprecipitates with similar initial C:Fe ratios were obtained by oxidation of a Fe(II) solution in the presence of increasing amounts of DOC at pH = 6. A natural Fe-DOC coprecipitate was also obtained by in situ sampling of a paddy soil solution from the topsoil during a cropping season, and subsequent oxidation in the laboratory. The surface and chemical properties of all substrates were subsequently evaluated and compared. We hereby present the first results of the influence of adsorption vs coprecipitation on the selective retention of DOC, structure and surface charge, as well as their susceptibility to chemical reduction with ascorbic acid.

  19. Arsenic speciation in Japanese rice drinks and condiments.

    PubMed

    Signes-Pastor, Antonio J; Deacon, Claire; Jenkins, Richard O; Haris, Parvez I; Carbonell-Barrachina, Angel A; Meharg, Andrew A

    2009-11-01

    Rice has been demonstrated to be one of the major contributors to inorganic arsenic (i-As) intake in humans. However, little is known about rice products as additional source of i-As exposure. In this study, misos, syrups and amazake (a fermented sweet rice drink) produced from rice, barley and millet were analysed for total arsenic (t-As) and a subset of samples were also analyzed for As speciation. Rice based products displayed a higher i-As content than those derived from barley and millet. Most of the t-As in the rice products studied was inorganic (63-83%), the remainder being dimethylarsinic acid. Those who regularly consume rice drinks and condiments, such as the Japanese population and those who follow health conscious diets based on the Japanese cuisine, could reach up to 23% of the World Health Organization's Provisional Tolerable Daily Intake of i-As, by only consuming these kinds of products. This study provides a wide appreciation of how i-As derived from rice based products enters the human diet and how this may be of concern to populations who are already exposed to high levels of i-As through consumption of foods such as rice and seaweed.

  20. Comparison of rice husk- and dairy manure-derived biochars for simultaneously removing heavy metals from aqueous solutions: role of mineral components in biochars.

    PubMed

    Xu, Xiaoyun; Cao, Xinde; Zhao, Ling

    2013-08-01

    Rice husk biochar (RHBC) and dairy manure biochar (DMBC) were prepared as sorbents for simultaneously removing Pb, Cu, Zn, and Cd from aqueous solutions. DMBC was more effective in removing all the four heavy metals than RHBC, with the removal capacities of above 486 mmol kg(-1) for each metal, much higher than those of RHBC (65.5-140 mmol kg(-1)). RHBC showed stronger competition for metal removal than DMBC when the four metals coexisted, with Pb the least affected and Cd the most inhibited. When each metal was 1mM in the multi-metal system, the metal removal by RHBC was reduced by 38.4-100%, much higher than that reduced by 2-40.9% for DMBC. The stronger competition for metals removal by RHBC was due to the fact that all metals competed only for the ionized phenolic-O(-) groups, while the removal of metals by DMBC resulted not only from the complexation with ionized hydroxyl-O(-) groups but also from the precipitation of metals with CO3(2-) and/or PO4(3-) that were rich in DMBC, resulting in less competition. The different mechanisms for the removal of metals by the two biochars were evidenced by the instrumental analysis of XRD, FTIR, and SEM as well as chemical modeling of Visual MINTEQ. Results indicated the waste biomass can be converted into value-added biochar as sorbents for removal of heavy metals and the removal ability varies with different biochar feedstock sources where the mineral components such as CO3(2-), PO4(3-) originated from the feedstock play an important role in the sorption nature of biochar.

  1. Adsorption of fluoride in aqueous solutions using KMnO4-modified activated carbon derived from steam pyrolysis of rice straw.

    PubMed

    Daifullah, A A M; Yakout, S M; Elreefy, S A

    2007-08-17

    Fluoride in drinking water above permissible levels is responsible for human and skeletal fluorosis. In this study, activated carbons (AC) prepared by one-step steam pyrolysis of rice straw at 550, 650, 750 degrees C, respectively, were modified by liquid-phase oxidation using HNO3, H2O2 and KMnO4. Characterization of these 12 carbons was made by their surface area, porosity, acidity, basicity, pH(pzc), pH and ability to remove fluoride anion. Based on the data of the latter factor, the RS2/KMnO4 carbon was selected. Along with batch adsorption studies, which involve effect of pH, adsorbate concentration, adsorbent dosage, contact time, temperature, and Co-ions (SO4(2-), Cl-, Br-). The effects of natural organic matter (NOM) were also made to remove the fluoride from natural water. On the basis of kinetic studies, specific rate constants involved in the adsorption process using RS2/KMnO4 carbon was calculated and second-order adsorption kinetics was observed. Equation isotherms such as Langmuir (L), Freundlich (F), Langmuir-Freundlich (LF) and Dubinin-Radushkevich (DR) were successfully used to model the experimental data. From the DR isotherm parameters, it was considered that the uptake of F- by RS2/KMnO4 carbon proceeds by an ion-exchange mechanism (E=10.46 kJ mol(-1)). The thermodynamic parameters of fluoride sorption were calculated and the sorption process was chemical in nature. The ability of RS2/KMnO4 to remove F- from Egyptian crude phosphoric acid (P(2)O(5)=48.42%) was tested and the adsorption capacity of F- in H(3)PO(4) was greater than that in distilled water. This is may be due to fluoride adsorption enhanced at lower pH of crude acid.

  2. Fine mapping of a gene causing hybrid pollen sterility between Yunnan weedy rice and cultivated rice (Oryza sativa L.) and phylogenetic analysis of Yunnan weedy rice.

    PubMed

    Wang, Yong; Zhong, Zheng Zheng; Zhao, Zhi Gang; Jiang, Ling; Bian, Xiao Feng; Zhang, Wen Wei; Liu, Ling Long; Ikehashi, H; Wan, Jian Min

    2010-02-01

    Weedy rice represents an important resource for rice improvement. The F(1) hybrid between the japonica wide compatibility rice cultivar 02428 and a weedy rice accession from Yunnan province (SW China) suffered from pollen sterility. Pollen abortion in the hybrid occurred at the early bicellular pollen stage, as a result of mitotic failure in the microspore, although the tapetum developed normally. Genetic mapping in a BC(1)F(1) population (02428//Yunnan weedy rice (YWR)/02428) showed that a major QTL for hybrid pollen sterility (qPS-1) was present on chromosome 1. qPS-1 was fine-mapped to a 110 kb region known to contain the hybrid pollen sterility gene Sa, making it likely that qPS-1 is either identical to, or allelic with Sa. Interestingly, F(1) hybrid indicated that Dular and IR36 were assumed to carry the sterility-neutral allele, Sa ( n ). Re-sequencing SaM and SaF, the two component genes present at Sa, suggested that variation for IR36 and Dular may be responsible for the loss of male sterility, and the qPS-1 sequence might be derived from wild rice or indica cultivars. A phylogenetic analysis based on microsatellite genotyping suggested that the YWR accession is more closely related to wild rice and indica type cultivars than to japonica types. Thus it is probable that the YWR accession evolved from a spontaneous hybrid between wild rice and an ancient cultivated strain of domesticated rice.

  3. Research in rice fields

    USGS Publications Warehouse

    ,

    2000-01-01

    Between 1987 and 1999, 2.4-3 million acres of rice were planted annually nationwide. Rice fields are a major component of the contemporary landscapes in the Gulf Coastal Plain, the Mississippi Alluvial Valley, and Central Valley of California. In 1998, approximately 600,000 acres of rice were planted in Louisiana. In the Louisiana plant commodities report for 1998, total value for rice was over $350 million; sugarcane was the only plant commodity that exceeded this value. Louisiana has over 2,000 rice farmers supporting over 12,000 jobs in the state. Rice fields in the United States receive high use by wildlife, especially shorebirds, wading birds, and waterfowl. Waterbirds use rice fields for food, shelter, and breeding habitat.

  4. Cooked rice texture and rice flour pasting properties; impacted by rice temperature during milling.

    PubMed

    Saleh, Mohammed; Meullenet, Jean-Francois

    2015-03-01

    Rice milling plays a key factor in determining rice quality and value. Therefore accurate quality assessments are critical to the rice industry. This study was undertaken to assess the effect of exposing rice to elevated temperatures during milling, on cooked rice texture and rice flour pasting properties. Two long (Cybonnett and Francis) and one medium (Jupiter) rice (oryzae sativa L.) cultivars were milled using McGill laboratory mill for 30 and 40 s after warmed up the mill before milling. Four different milling temperatures per milling duration were achieved. Cooked rice texture properties were assessed using a uniaxial compression test and rice flour pasting properties measured using a TA-2000 rheometer. Results of this study showed that exposure of rice to high temperatures during milling significantly decreased cooked rice firmness. An increase in milled rice temperature after milling from 10.0 to 13.3 °C resulted in a 5.4 and 8.1 N decrease in cooked rice firmness. Although not always significant, the increase in milled rice temperature during milling resulted in an increase in cooked rice stickiness. The increase in milling temperature also showed significant increase in rice flour pasting properties. Changes in rice functional characteristics were attributed to the changes occurring to rice chemical constituents due to temperature exposure as indicated by the increase in rice protein hydrophobicity. Proteins are known to affect rice starch water holding capacity and other starch gelatinization properties.

  5. Linkage Mapping of Stem Saccharification Digestibility in Rice

    PubMed Central

    Hua, Cangmei; Sun, Lili; Ali, Imran; Huang, Linli; Yu, Chunyan; Simister, Rachael; Steele-King, Clare; Gan, Yinbo; McQueen-Mason, Simon J.

    2016-01-01

    Rice is the staple food of almost half of the world population, and in excess 90% of it is grown and consumed in Asia, but the disposal of rice straw poses a problem for farmers, who often burn it in the fields, causing health and environmental problems. However, with increased focus on the development of sustainable biofuel production, rice straw has been recognized as a potential feedstock for non-food derived biofuel production. Currently, the commercial realization of rice as a biofuel feedstock is constrained by the high cost of industrial saccharification processes needed to release sugar for fermentation. This study is focused on the alteration of lignin content, and cell wall chemotypes and structures, and their effects on the saccharification potential of rice lignocellulosic biomass. A recombinant inbred lines (RILs) population derived from a cross between the lowland rice variety IR1552 and the upland rice variety Azucena with 271 molecular markers for quantitative trait SNP (QTS) analyses was used. After association analysis of 271 markers for saccharification potential, 1 locus and 4 pairs of epistatic loci were found to contribute to the enzymatic digestibility phenotype, and an inverse relationship between reducing sugar and lignin content in these recombinant inbred lines was identified. As a result of QTS analyses, several cell-wall associated candidate genes are proposed that may be useful for marker-assisted breeding and may aid breeders to produce potential high saccharification rice varieties. PMID:27415441

  6. Determinants for grading Malaysian rice

    NASA Astrophysics Data System (ADS)

    ChePa, Noraziah; Yusoff, Nooraini; Ahmad, Norhayati

    2016-08-01

    Due to un-uniformity of rice grading practices in Malaysia, zones which actively producing rice in Malaysia are using their own way of grading rice. Rice grading is important in determining rice quality and its subsequent price in the market. It is an important process applied in the rice production industry with the purpose of ensuring that the rice produced for the market meets the quality requirements of consumer. Two important aspects that need to be considered in determining rice grades are grading technique and determinants to be used for grading (usually referred as rice attributes). This article proposes the list of determinants to be used in grading Malaysian rice. Determinants were explored through combination of extensive literature review and series of interview with the domain experts and practitioners. The proposed determinants are believed to be beneficial to BERNAS in improving the current Malaysian rice grading process.

  7. Relating raw rice color and composition to cooked rice color.

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Traditionally, the color of milled rice is economically important. The whiter the rice the more it is preferred by consumers and the more value it has in the market place. Little attention has been given to relating raw rice color to cooked milled rice color and, specifically, to determining the i...

  8. Epigenetic regulation of rice flowering and reproduction

    PubMed Central

    Shi, Jinlei; Dong, Aiwu; Shen, Wen-Hui

    2015-01-01

    Current understanding of the epigenetic regulator roles in plant growth and development has largely derived from studies in the dicotyledonous model plant Arabidopsis thaliana. Rice (Oryza sativa) is one of the most important food crops in the world and has more recently becoming a monocotyledonous model plant in functional genomics research. During the past few years, an increasing number of studies have reported the impact of DNA methylation, non-coding RNAs and histone modifications on transcription regulation, flowering time control, and reproduction in rice. Here, we review these studies to provide an updated complete view about chromatin modifiers characterized in rice and in particular on their roles in epigenetic regulation of flowering time, reproduction, and seed development. PMID:25674094

  9. Rice (Oryza) hemoglobins

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Hemoglobins (Hbs) corresponding to non-symbiotic (nsHb) and truncated (tHb) Hbs have been identified in rice (Oryza). This review discusses the major findings from the current studies on rice Hbs. At the molecular level, a family of the nshb genes, consisting of hb1, hb2, hb3, hb4 and hb5, and a sin...

  10. Making rice even healthier!

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Rice is a naturally healthy food, but what if it could be made even healthier? Would Americans eat more rice if it could be advertised to be a 'New and Improved' source of calcium to promote bone growth, or iron to prevent anemia? Grocery stores are full of foods that are vitamin enhanced to attract...

  11. Volatile Composition of Smoked and Non-Smoked Iranian Rice

    PubMed Central

    Lipan, Leontina; Hojjati, Mohammad; El-Zaeddi, Hussein; Sánchez-Rodríguez, Lucía; Carbonell-Barrachina, Ángel Antonio

    2016-01-01

    In this work, the volatile profiles of smoked and non-smoked Iranian rice were identified, and their relative abundance was calculated and compared. Headspace solid-phase microextraction together with gas chromatography-mass spectrometry (SPME-GC-MS) were used to extract and identify the volatile compounds. The main groups of volatiles in Iranian rice were aldehydes, ketones, phenol derivatives, furans, linear hydrocarbons, esters and terpenes. The chemical family aldehydes was the most abundant one in the profile of non-smoked rice, while phenol derivatives and furans predominated in smoked samples. This study is the first one reporting comparative data of volatile compounds between smoked and non-smoked Iranian rice. PMID:28231176

  12. Sugarcane rice residue biochars and their applications

    NASA Astrophysics Data System (ADS)

    Wang, J. J.

    2014-12-01

    Sugarcane production in U.S. involves either pre-harvest burning or after-harvest burning of the residue. Approximately 70-90% of the dry matter of harvested sugarcane trash is lost through open field burning. This practice has caused considerable concerns over air quality and soil sustainability. We propose an alternative conservation approach to convert the sugarcane residue to biochar and used as soil amendment to conserve carbon and potentially improve soil fertility. In this study, fundamental properties of biochars made from sugarcane residue along with rice residues were tested for agronomic and environmental benefits. Sugarcane and rice harvest residues and milling processing byproducts bagasse and rice husk were converted to biochars at different pyrolysis temperatures and characterized. In general, sugarcane leave biochar contained more P, K, Ca and Mg than sugarcane bagasse biochar. Rice straw biochar had more S, K Ca but less P than rice husk biochar. Both biochars had higher available fraction of total P than that of total K. Sugarcane leave biochar converted at 450oC was dominated with various lignin derived phenols as well as non-specific aromatic compounds whereas bagasse biochar was with both lignin derived phenol and poly aromatic hydrocarbon (PAH). Rice straw char was dominated with non-specific aromatic compounds. At 750oC, charred material was dominated with aromatic ethers while losing the aromatic C=C structures. These molecular and surface property differences likely contributed to the difference in water holding capacities observed with these biochars. On the other hand, rice straw biochars produced at different pyrolysis temperatures had no significant effect on rice germination. Soils treated with sugarcane leave/trash biochar significantly enhanced sugarcane growth especially the root length. Treating soil with either sugarcane leave or bagasse char also enhanced soil adsorption capacity of atrazine; a common herbicide used in sugarcane

  13. Mapping rice areas of South Asia using MODIS multitemporal data

    USGS Publications Warehouse

    Gumma, M.K.; Nelson, A.; Thenkabail, P.S.; Singh, A.N.

    2011-01-01

    Our goal is to map the rice areas of six South Asian countries using moderate-resolution imaging spectroradiometer (MODIS) time-series data for the time period 2000 to 2001. South Asia accounts for almost 40% of the world's harvested rice area and is also home to 74% of the population that lives on less than $2.00 a day. The population of the region is growing faster than its ability to produce rice. Thus, accurate and timely assessment of where and how rice is cultivated is important to craft food security and poverty alleviation strategies. We used a time series of eight-day, 500-m spatial resolution composite images from the MODIS sensor to produce rice maps and rice characteristics (e.g., intensity of cropping, cropping calendar) taking data for the years 2000 to 2001 and by adopting a suite of methods that include spectral matching techniques, decision trees, and ideal temporal profile data banks to rapidly identify and classify rice areas over large spatial extents. These methods are used in conjunction with ancillary spatial data sets (e.g., elevation, precipitation), national statistics, and maps, and a large volume of field-plot data. The resulting rice maps and statistics are compared against a subset of independent field-plot points and the best available subnational statistics on rice areas for the main crop growing season (kharif season). A fuzzy classification accuracy assessment for the 2000 to 2001 rice-map product, based on field-plot data, demonstrated accuracies from 67% to 100% for individual rice classes, with an overall accuracy of 80% for all classes. Most of the mixing was within rice classes. The derived physical rice area was highly correlated with the subnational statistics with R2 values of 97% at the district level and 99% at the state level for 2000 to 2001. These results suggest that the methods, approaches, algorithms, and data sets we used are ideal for rapid, accurate, and large-scale mapping of paddy rice as well as for generating

  14. Mapping rice areas of South Asia using MODIS multitemporal data

    NASA Astrophysics Data System (ADS)

    Gumma, Murali Krishna; Nelson, Andrew; Thenkabail, Prasad S.; Singh, Amrendra N.

    2011-01-01

    Our goal is to map the rice areas of six South Asian countries using moderate-resolution imaging spectroradiometer (MODIS) time-series data for the time period 2000 to 2001. South Asia accounts for almost 40% of the world's harvested rice area and is also home to 74% of the population that lives on less than $2.00 a day. The population of the region is growing faster than its ability to produce rice. Thus, accurate and timely assessment of where and how rice is cultivated is important to craft food security and poverty alleviation strategies. We used a time series of eight-day, 500-m spatial resolution composite images from the MODIS sensor to produce rice maps and rice characteristics (e.g., intensity of cropping, cropping calendar) taking data for the years 2000 to 2001 and by adopting a suite of methods that include spectral matching techniques, decision trees, and ideal temporal profile data banks to rapidly identify and classify rice areas over large spatial extents. These methods are used in conjunction with ancillary spatial data sets (e.g., elevation, precipitation), national statistics, and maps, and a large volume of field-plot data. The resulting rice maps and statistics are compared against a subset of independent field-plot points and the best available subnational statistics on rice areas for the main crop growing season (kharif season). A fuzzy classification accuracy assessment for the 2000 to 2001 rice-map product, based on field-plot data, demonstrated accuracies from 67% to 100% for individual rice classes, with an overall accuracy of 80% for all classes. Most of the mixing was within rice classes. The derived physical rice area was highly correlated with the subnational statistics with R2 values of 97% at the district level and 99% at the state level for 2000 to 2001. These results suggest that the methods, approaches, algorithms, and data sets we used are ideal for rapid, accurate, and large-scale mapping of paddy rice as well as for generating

  15. Evaluation of the impacts of different nuclear DNA content in the hull, endosperm, and embryo of rice seeds on GM rice quantification.

    PubMed

    Liu, Donger; Shen, Jie; Yang, Litao; Zhang, Dabing

    2010-04-28

    Rice (Oryza sativa) is a main staple food in the world, and several genetically modified (GM) rice events have been approved for commercialization. To accurately quantify GM contents in rice derived products, we have evaluated the variation of seed DNA density and nuclear DNA content in the hull, endosperm, and embryo of rice seeds from 19 cultivars, as well as their impacts on GM rice quantification. Rice endosperm DNA accounts for 73.71% of total seed DNA, whereas the hull and embryo DNAs account for 3.98% and 22.31%, respectively. Two formulas were established to describe the relationship between GM content on the basis of weight ratio (GM(wt)%) and that on the basis of haploid genome copy number ratio (GM(hg)%) for the samples containing heterozygous GM rice seeds. These two equations were well confirmed in quantification of the heterozygous GM rice TT51-1 seeds containing the GM allele from a female parent or that from a male parent. This work is useful for accurate quantification of GM rice using reference materials containing the heterozygous GM rice seed powder.

  16. Identification of QTLs for yield-related traits in RILs derived from the cross between pLIA-1 carrying Oryza longistaminata chromosome segments and Norin 18 in rice

    PubMed Central

    Gichuhi, Emily; Himi, Eiko; Takahashi, Hidekazu; Zhu, Sinhao; Doi, Kazuyuki; Tsugane, Kazuo; Maekawa, Masahiko

    2016-01-01

    To improve rice yield, a wide genetic pool is necessary. It is therefore important to explore wild rice relatives. Oryza longistaminata is a distantly related wild rice relative that carries the AA genome. Its potential for improving agronomic traits is not well studied. Introgression line (pLIA-1) that carries Oryza longistaminata’s chromosome segments, showed high performance in yield-related traits under non-fertilized conditions. Therefore, to illustrate Oryza longistaminata’s potential for improving yield-related traits, RILs from the F1 of a cross between pLIA-1 and Norin 18 were developed and QTL analysis was done using the RAD-Seq method. In total, 36 QTLs for yield-related traits were identified on chromosomes 1, 2, 3, 5, 6, 7, 8, 10, and 11. Clusters of QTLs for strongly correlated traits were also identified on chromosomes 1, 3, 6, and 8. Phenotypic data from recombinant plants for chromosomes 1 and 8 QTL clusters revealed that the pLIA-1 genotype on chromosome 1 region was more important for panicle-related traits and a combination of pLIA-1 genotypes on chromosomes 1 and 8 showed a favorable phenotype under non-fertilized conditions. These results suggest that Oryza longistaminata’s chromosome segments carry important alleles that can be used to improve yield-related traits of rice. PMID:28163588

  17. [Adsorption mechanism of furfural onto modified rice husk charcoals].

    PubMed

    Deng, Yong; Wang, Xianhua; Li, Yunchao; Shao, Jing'ai; Yang, Haiping; Chen, Hanping

    2015-10-01

    To evaluate the absorptive characteristics of furfural onto biomass charcoals derived from rice husk pyrolysis, we studied the information of the structure and surface chemistry properties of the rice husk charcoals modified by thermal treatment under nitrogen and carbon dioxide flow and adsorption mechanism of furfural. The modified samples are labeled as RH-N2 and RH-CO2. Fresh rice husk charcoal sample (RH-450) and modified samples were characterized by elemental analysis, nitrogen adsorption-desorption isotherms, Fourier-transform infrared spectroscopy and Boehm titration. The results show that fresh rice husk charcoal obtained at 450 degrees C had a large number of organic groups on its surface and poor pore structure. After the modification under nitrogen and carbon dioxide flow, oxygenic organics in rice husk charcoals decompose further, leading to the reduction of acidic functional groups on charcoals surface, and the increase of the pyrone structures of the basic groups. Meanwhile, pore structure was improved significantly and the surface area was increased, especially for the micropores. This resulted in the increase of π-π dispersion between the surfaces of rice husk charcoals and furfural molecular. With making comprehensive consideration of π-π dispersion and pore structure, the best removal efficiency of furfural was obtained by rice husk charcoal modified under carbon dioxide flow.

  18. The archaeobotany of Asian rice expansion and the development of wet-field cultivation

    NASA Astrophysics Data System (ADS)

    Fuller, D.

    2008-12-01

    Archaeobotanical evidence provides direct data on past human diet and agriculture, including a geographical and chronological framework for studying the expansion of rice agriculture. The growth of systematic archaeobotanical sampling in recent years has allowed for the past presence of rice to be seen in relation to cultivation of other crops and associated weeds. The weed flora provides a basis for inferring the nature of cultivation systems, whether rain-fed dry rice or wetland "paddy" rice, a key distinction for considerations of past methane production. Nevertheless, current data is very unevenly distributed. This poster will summarize available evidence for the origins and spread of rice in South Asia (India and Pakistan), and mainland and Island Southeast Asia deriving from an earlier Chinese domestication. Where possible, such as in India or China, the potential of the weed flora remains for distinguishing wetland rice crops will be summarized. In broad terms, although the origins of rice use and cultivation begins by or during the Middle Holocene (6000- 3000 BC), rice cultivation spread outside the regions of the wild progenitor after this time. Two phases of rice expansion can be distinguished. Phase 1, between 3000 and 1500 BC, introduced rice to Southeast Asia, probably under wetland cultivation, and the spread of dry rice over northern India and Pakistan. Phase 2, taking place between 1000 and 0 BC, sees the spread of rice throughout the Southern Indian Peninsula, with weed evidence suggesting irrigated wetland rice. Similarly, this period sees the spread of intensive paddy agriculture through Korea and Japan, but in Southeast Asia is probably related to a spread of rice in upland, dry field systems.

  19. Decadal monitoring of rice farming practices from MODIS data in Myanmar

    NASA Astrophysics Data System (ADS)

    Thanh Son, Nguyen; Farn Chen, Chi; Chen, Cheng Ru

    2015-04-01

    Rice agriculture was the most important sector in Myanmar's economy because it provided employments and livelihoods for at least 75% of the country's population, accounting for more than 48% of the national gross domestic product. Prior to the World War II, this country was the largest rice-producing nation in the world. However, it is currently a relatively minor rice exporter, ranking seventh after Thailand and Vietnam. The country's rice export potential remains high due to abundant land and water resources along with recent indications of progressive policy reforms to improve rice productivity. This study aimed at investigating decadal changes in rice farming practices in Myanmar during 2001 to 2014 using Moderate Resolution Imaging Spectroradiometer (MODIS) data. We processed the data though three main steps: (1) data pre-processing to construct the smooth time-series MODIS enhanced vegetation index (EVI) data, (2) mapping rice farming practices using phenological information of crop phenology, and (3) accuracy assessment. The mapping results were compared with the ground reference data indicated satisfactory results, with the overall accuracies and Kappa coefficients generally higher than 90% and 0.8, respectively. These results were reaffirmed by comparisons between MODIS-derived rice area and the government's rice area statistics, with a close correlation between the two datasets (R2 > 0.8) and the relative error in area smaller than 15%. From 2001 to 2014, rice farming practices in Myanmar had remarkably changed from single-cropped rice to double-cropped rice, especially in Ayeyarwady river basin. This study demonstrates the validity of the phenology-based approach for national-wide monitoring of decadal changes in rice farming practices in Myanmar. Such a quantitative information might be useful for agronomic managers to devise better plans for long-term rice crop management of in the country.

  20. Monitoring rice farming activities in the Mekong Delta region

    NASA Astrophysics Data System (ADS)

    Nguyen, S. T.; Chen, C. F.; Chen, C. R.; Chiang, S. H.; Chang, L. Y.; Khin, L. V.

    2015-12-01

    Half of the world's population depends on rice for survival. Rice agriculture thus plays an important role in the developing world's economy. Vietnam is one of the largest rice producers and suppliers on earth and more than 80% of the exported rice was produced from the Mekong Delta region, which is situated in the southwestern Vietnam and encompasses approximately 40,000 km2. Changes in climate conditions could likely trigger the increase of insect populations and rice diseases, causing the potential loss of rice yields. Monitoring rice-farming activities through crop phenology detection can provide policymakers with timely strategies to mitigate possible impacts on the potential yield as well as rice grain exports to ensure food security for the region. The main objective of this study is to develop a logistic-based algorithm to investigate rice sowing and harvesting activities from the multi-temporal Moderate Resolution Imaging Spectroradiometer (MODIS)-Landsat fusion data. We processed the data for two main cropping seasons (i.e., winter-spring and summer-autumn seasons) through a three-step procedure: (1) MODIS-Landsat data fusion, (2) construction of the time-series enhanced vegetation index 2 (EVI2) data, (3) rice crop phenology detection. The EVI2 data derived from the fusion results between MODIS and Landsat data were compared with that of Landsat data indicated close correlation between the two datasets (R2 = 0.93). The time-series EVI2 data were processed using the double logistic method to detect the progress of sowing and harvesting activities in the region. The comparisons between the estimated sowing and harvesting dates and the field survey data revealed the root mean squared error (RMSE) values of 8.4 and 5.5 days for the winter-spring crop and 9.4 and 12.8 days for the summer-autumn crop, respectively. This study demonstrates the effectiveness of the double logistic-based algorithm for rice crop monitoring from temporal MODIS-Landsat fusion data

  1. Microbial Activity and Silica Degradation in Rice Straw

    NASA Astrophysics Data System (ADS)

    Kim, Esther Jin-kyung

    increased. Silicase activity did not change across nitrogen treatments despite a shift in microbial community with varied nitrogen concentration. Samples treated with different nitrogen concentrations had similar levels of diversity, however the microbial community composition differed with added nitrogen. The results demonstrated that adding nitrogen to rice straw during thermophilic decomposition nurtured a more active microbial community and promoted enzyme secretion thus improving the ability to discover enzymes for rice straw deconstruction. These results can inform future experiments for cultivating a unique, thriving compost-derived microbial community that can successfully decompose rice straw. Understanding the silicase activity of microorganisms may alleviate the challenges associated with silica in various feedstocks.

  2. Golden Rice is an effective source of vitamin A1234

    PubMed Central

    Qin, Jian; Dolnikowski, Gregory G; Russell, Robert M; Grusak, Michael A

    2009-01-01

    Background: Genetically engineered “Golden Rice” contains up to 35 μg β-carotene per gram of rice. It is important to determine the vitamin A equivalency of Golden Rice β-carotene to project the potential effect of this biofortified grain in rice-consuming populations that commonly exhibit low vitamin A status. Objective: The objective was to determine the vitamin A value of intrinsically labeled dietary Golden Rice in humans. Design: Golden Rice plants were grown hydroponically with heavy water (deuterium oxide) to generate deuterium-labeled [2H]β-carotene in the rice grains. Golden Rice servings of 65–98 g (130–200 g cooked rice) containing 0.99–1.53 mg β-carotene were fed to 5 healthy adult volunteers (3 women and 2 men) with 10 g butter. A reference dose of [13C10]retinyl acetate (0.4–1.0 mg) in oil was given to each volunteer 1 wk before ingestion of the Golden Rice dose. Blood samples were collected over 36 d. Results: Our results showed that the mean (±SD) area under the curve for the total serum response to [2H]retinol was 39.9 ± 20.7 μg·d after the Golden Rice dose. Compared with that of the [13C10]retinyl acetate reference dose (84.7 ± 34.6 μg·d), Golden Rice β-carotene provided 0.24–0.94 mg retinol. Thus, the conversion factor of Golden Rice β-carotene to retinol is 3.8 ± 1.7 to 1 with a range of 1.9–6.4 to 1 by weight, or 2.0 ± 0.9 to 1 with a range of 1.0–3.4 to 1 by moles. Conclusion: β-Carotene derived from Golden Rice is effectively converted to vitamin A in humans. This trial was registered at clinicaltrials.gov as NCT00680355. PMID:19369372

  3. Shaping a better rice plant.

    PubMed

    Springer, Nathan

    2010-06-01

    Two studies describe how regulatory variation at the rice gene OsSPL14 can lead to altered plant morphology and improve grain yield. These studies support the possibility of improving rice yield through changing plant architecture.

  4. Comparative Transcriptional Profiling of Two Contrasting Rice Genotypes under Salinity Stress during the Vegetative Growth Stage

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Rice (Oryza sativa), a salt-sensitive species, has considerable genetic variation for salt tolerance within the cultivated gene pool. Two indica rice genotypes, FL478, a recombinant inbred line derived from a population developed for salinity tolerance studies, and IR29, the sensitive parent of the ...

  5. Integrated metabolomics and phytochemical genomics approaches for studies on rice.

    PubMed

    Okazaki, Yozo; Saito, Kazuki

    2016-01-01

    Metabolomics is widely employed to monitor the cellular metabolic state and assess the quality of plant-derived foodstuffs because it can be used to manage datasets that include a wide range of metabolites in their analytical samples. In this review, we discuss metabolomics research on rice in order to elucidate the overall regulation of the metabolism as it is related to the growth and mechanisms of adaptation to genetic modifications and environmental stresses such as fungal infections, submergence, and oxidative stress. We also focus on phytochemical genomics studies based on a combination of metabolomics and quantitative trait locus (QTL) mapping techniques. In addition to starch, rice produces many metabolites that also serve as nutrients for human consumers. The outcomes of recent phytochemical genomics studies of diverse natural rice resources suggest there is potential for using further effective breeding strategies to improve the quality of ingredients in rice grains.

  6. Why is golden rice golden (yellow) instead of red?

    PubMed

    Schaub, Patrick; Al-Babili, Salim; Drake, Rachel; Beyer, Peter

    2005-05-01

    The endosperm of Golden Rice (Oryza sativa) is yellow due to the accumulation of beta-carotene (provitamin A) and xanthophylls. The product of the two carotenoid biosynthesis transgenes used in Golden Rice, phytoene synthase (PSY) and the bacterial carotene desaturase (CRTI), is lycopene, which has a red color. The absence of lycopene in Golden Rice shows that the pathway proceeds beyond the transgenic end point and thus that the endogenous pathway must also be acting. By using TaqMan real-time PCR, we show in wild-type rice endosperm the mRNA expression of the relevant carotenoid biosynthetic enzymes encoding phytoene desaturase, zeta-carotene desaturase, carotene cis-trans-isomerase, beta-lycopene cyclase, and beta-carotene hydroxylase; only PSY mRNA was virtually absent. We show that the transgenic phenotype is not due to up-regulation of expression of the endogenous rice pathway in response to the transgenes, as was suggested to be the case in tomato (Lycopersicon esculentum) fruit, where CRTI expression resulted in a similar carotenoid phenomenon. This means that beta-carotene and xanthophyll formation in Golden Rice relies on the activity of constitutively expressed intrinsic rice genes (carotene cis-trans-isomerase, alpha/beta-lycopene cyclase, beta-carotene hydroxylase). PSY needs to be supplemented and the need for the CrtI transgene in Golden Rice is presumably due to insufficient activity of the phytoene desaturase and/or zeta-carotene desaturase enzyme in endosperm. The effect of CRTI expression was also investigated in leaves of transgenic rice and Arabidopsis (Arabidopsis thaliana). Here, again, the mRNA levels of intrinsic carotenogenic enzymes remained unaffected; nevertheless, the carotenoid pattern changed, showing a decrease in lutein, while the beta-carotene-derived xanthophylls increased. This shift correlated with CRTI-expression and is most likely governed at the enzyme level by lycopene-cis-trans-isomerism. Possible implications are

  7. Development of NIRS models to predict protein and amylose content of brown rice and proximate compositions of rice bran.

    PubMed

    Bagchi, Torit Baran; Sharma, Srigopal; Chattopadhyay, Krishnendu

    2016-01-15

    With the escalating persuasion of economic and nutritional importance of rice grain protein and nutritional components of rice bran (RB), NIRS can be an effective tool for high throughput screening in rice breeding programme. Optimization of NIRS is prerequisite for accurate prediction of grain quality parameters. In the present study, 173 brown rice (BR) and 86 RB samples with a wide range of values were used to compare the calibration models generated by different chemometrics for grain protein (GPC) and amylose content (AC) of BR and proximate compositions (protein, crude oil, moisture, ash and fiber content) of RB. Various modified partial least square (mPLSs) models corresponding with the best mathematical treatments were identified for all components. Another set of 29 genotypes derived from the breeding programme were employed for the external validation of these calibration models. High accuracy of all these calibration and prediction models was ensured through pair t-test and correlation regression analysis between reference and predicted values.

  8. Molecular evolution of shattering loci in U.S. weedy rice

    PubMed Central

    Thurber, Carrie S.; Reagon, Michael; Gross, Briana L.; Olsen, Kenneth M.; Jia, Yulin; Caicedo, Ana L.

    2010-01-01

    Cultivated rice fields worldwide are plagued with weedy rice, a conspecific weed of cultivated rice (Oryza sativa L.). The persistence of weedy rice has been attributed, in part, to its ability to shatter (disperse) seed prior to crop harvesting. In the United States, separately evolved weedy rice groups have been shown to share genomic identity with exotic domesticated cultivars. Here, we investigate the shattering phenotype in a collection of U.S. weedy rice accessions, as well as wild and cultivated relatives. We find that all U.S. weedy rice groups shatter seeds easily, despite multiple origins, and in contrast to a decrease in shattering ability seen in cultivated groups. We assessed allelic identity and diversity at the major shattering locus, sh4, in weedy rice; we find that all cultivated and weedy rice, regardless of population, share similar haplotypes at sh4, and all contain a single derived mutation associated with decreased seed shattering. Our data constitute the strongest evidence to date of an evolution of weeds from domesticated backgrounds. The combination of a shared cultivar sh4 allele and a highly shattering phenotype, suggests that U.S. weedy rice have re-acquired the shattering trait after divergence from their progenitors through alternative genetic mechanisms. PMID:20584132

  9. Methane potential and biodegradability of rice straw, rice husk and rice residues from the drying process.

    PubMed

    Contreras, L M; Schelle, H; Sebrango, C R; Pereda, I

    2012-01-01

    Agricultural solid residues are a potential renewable energy source. Rice harvesting and production in Sancti Spíritus province, Cuba, currently generates residues without an environmentally sustainable disposal route. Rice residues (rice straw, rice husk and rice residues from the drying process) are potentially an important carbon source for anaerobic digestion. For this paper, rice residues were placed for 36 days retention time in anaerobic batch reactor environments at both mesophilic (37 °C) and thermophilic (55 °C) conditions. Biogas and methane yield were determined as well as biogas composition. The results showed that rice straw as well as rice residues from the drying process had the highest biogas and methane yield. Temperature played an important role in determining both biogas yield and kinetics. In all cases, rice straw produced the highest yields; under mesophilic conditions the biogas yield was 0.43 m(3) kg(VS)(-1), under thermophilic conditions biogas yield reached 0.52 m(3) kg(VS)(-1). In the case of the rice husk, the biodegradability was very low. Methane content in all batches was kept above 55% vol. All digested material had a high carbon:nitrogen (C:N) ratio, even though significant biodegradation was recorded with the exception of rice husk. A first-order model can be used to describe the rice crop residues fermentation effectively.

  10. Effect of rice variety and nutrient management on rice productivity in organic rice system

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Demand for organic rice has been increasing for decades. However, the information on sustainable organic rice production systems is still lacking. The objective of this study was to investigate the effects of soil amendment products, nitrogen rate, and variety on rice grain yield, yield components, ...

  11. Automatic mapping of rice fields in the Sacramento Valley for water resources management

    NASA Astrophysics Data System (ADS)

    Zhong, L.; Yin, H.; Reyes, E.; Chung, F. I.

    2015-12-01

    Water use by rice fields is one of the most important components in hydrologic model simulation of the Sacramento Valley, California. In this study, rice fields were mapped by an automatic approach using Landsat imagery. The automatic approach is advantageous for its capacity of mapping rice fields repeatedly, consistently and timely without the need to collect training data. Seasonal dynamics of Enhanced Vegetation Index (EVI) and Normalized Difference Moisture Index (NDMI) were employed to identify rice based on its phenological characteristics. Classification could be conducted around planting date for early response to cropland use change, or for the full growing season to monitor rice growth. Two studies are illustrated as the applications of this mapping method: 1. A rice map was produced before mid-June to forecast rice acreage and water use in the 2015 drought. Due to continuous drought, rice acreage in the Sacramento Valley reached the historical minimum of the past 20 years in 2014, and further reduction is occurring in 2015. A quantitative measure of rice field extent is needed to forecast rice water use as early as possible. The automatic mapping method utilized the spectral dynamics during initial flooding to identify rice fields. Based on the map product, the forecast of rice water demand was made to facilitate the simulation of current-year hydrologic conditions. 2. Rice field extent has been mapped since 1989 and phenological metrics have been derived to study the change in growing season. The increasing use of short-season rice varieties and special weather condition (like El Nino in 2015) may alter the seasonal pattern of water demand by rice. Rice fields were identified based on the temporal profiles of NDMI and EVI derived from series of segmented images. Validation using field survey data and other land use maps showed a promising accuracy. The start and the end of the growing season and other phenological metrics were extracted from object

  12. Avidin expressed in transgenic rice confers resistance to the stored-product insect pests Tribolium confusum and Sitotroga cerealella.

    PubMed

    Yoza, Koh-Ichi; Imamura, Taro; Kramer, Karl J; Morgan, Thomas D; Nakamura, Sumiko; Akiyama, Kohki; Kawasaki, Shinji; Takaiwa, Fumio; Ohtsubo, Ken'ichi

    2005-05-01

    Rice (Oryza sativa var. Nipponbare) was transformed with an artificial avidin gene. The features of this construct are as follows: (1) a signal peptide sequence derived from barley alpha amylase was added at the N-terminal region, (2) codon usage of the gene was optimized for rice, and (3) the gene was driven by rice glutelin GluB-1, an endosperm-specific promoter. Avidin was produced in the grain of the transgenic rice but not in the leaves. The concentration of avidin in the kernels was about 1,800 ppm. All larvae of the confused flour beetle (Tribolium confusum) and Angoumois grain moth (Sitotroga cerealella) died when fed transgenic avidin rice powder or kernels, respectively, whereas most of the test insects developed into adults when they were fed a nontransgenic rice control diet. Avidin extracted from the transgenic rice kernel lost most biotin-binding activity after 5 min heating at 95 degrees C.

  13. Organic Rice Production: Challenges and Opportunities

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The market demand for organically produced rice has grown steadily with the majority of the acreage now being located in Texas and California. A wide range of organic products are marketed including conventional long and medium grain rice, aromatic or scented rice, rice with colored bran, and rice f...

  14. Escape to Ferality: The Endoferal Origin of Weedy Rice from Crop Rice through De-Domestication

    PubMed Central

    Gettler, Kyle A.; Burgos, Nilda R.; Fischer, Albert J.

    2016-01-01

    Domestication is the hallmark of evolution and civilization and harnesses biodiversity through selection for specific traits. In regions where domesticated lines are grown near wild relatives, congeneric sources of aggressive weedy genotypes cause major economic losses. Thus, the origins of weedy genotypes where no congeneric species occur raise questions regarding management effectiveness and evolutionary mechanisms responsible for weedy population success. Since eradication in the 1970s, California growers avoided weedy rice through continuous flood culture and zero-tolerance guidelines, preventing the import, presence, and movement of weedy seeds. In 2003, after decades of no reported presence in California, a weedy rice population was confirmed in dry-seeded fields. Our objectives were to identify the origins and establishment of this population and pinpoint possible phenotypes involved. We show that California weedy rice is derived from a different genetic source among a broad range of AA genome Oryzas and is most recently diverged from O. sativa temperate japonica cultivated in California. In contrast, other weedy rice ecotypes in North America (Southern US) originate from weedy genotypes from China near wild Oryza, and are derived through existing crop-wild relative crosses. Analyses of morphological data show that California weedy rice subgroups have phenotypes like medium-grain or gourmet cultivars, but have colored pericarp, seed shattering, and awns like wild relatives, suggesting that reversion to non-domestic or wild-like traits can occur following domestication, despite apparent fixation of domestication alleles. Additionally, these results indicate that preventive methods focused on incoming weed sources through contamination may miss burgeoning weedy genotypes that rapidly adapt, establish, and proliferate. Investigating the common and unique evolutionary mechanisms underlying global weed origins and subsequent interactions with crop relatives sheds

  15. Escape to Ferality: The Endoferal Origin of Weedy Rice from Crop Rice through De-Domestication.

    PubMed

    Kanapeckas, Kimberly L; Vigueira, Cynthia C; Ortiz, Aida; Gettler, Kyle A; Burgos, Nilda R; Fischer, Albert J; Lawton-Rauh, Amy L

    Domestication is the hallmark of evolution and civilization and harnesses biodiversity through selection for specific traits. In regions where domesticated lines are grown near wild relatives, congeneric sources of aggressive weedy genotypes cause major economic losses. Thus, the origins of weedy genotypes where no congeneric species occur raise questions regarding management effectiveness and evolutionary mechanisms responsible for weedy population success. Since eradication in the 1970s, California growers avoided weedy rice through continuous flood culture and zero-tolerance guidelines, preventing the import, presence, and movement of weedy seeds. In 2003, after decades of no reported presence in California, a weedy rice population was confirmed in dry-seeded fields. Our objectives were to identify the origins and establishment of this population and pinpoint possible phenotypes involved. We show that California weedy rice is derived from a different genetic source among a broad range of AA genome Oryzas and is most recently diverged from O. sativa temperate japonica cultivated in California. In contrast, other weedy rice ecotypes in North America (Southern US) originate from weedy genotypes from China near wild Oryza, and are derived through existing crop-wild relative crosses. Analyses of morphological data show that California weedy rice subgroups have phenotypes like medium-grain or gourmet cultivars, but have colored pericarp, seed shattering, and awns like wild relatives, suggesting that reversion to non-domestic or wild-like traits can occur following domestication, despite apparent fixation of domestication alleles. Additionally, these results indicate that preventive methods focused on incoming weed sources through contamination may miss burgeoning weedy genotypes that rapidly adapt, establish, and proliferate. Investigating the common and unique evolutionary mechanisms underlying global weed origins and subsequent interactions with crop relatives sheds

  16. Rice: chemistry and technology.

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Rice has taken center stage this last decade, not only as an important provider of nourishment for the world’s population, but as a grain now recognized as having many unique nutritional and functional attributes with potential to be captured in a multitude of value-added food and non-food applicati...

  17. Rice bran phytonutrients

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The bran layer of the whole grain rice contains potential health-beneficial compounds. These include vitamin E homologs (tocopherols, tocotrienols), oryzanol fractions, simple phenolics and poly-phenolics. These are antioxidants that are believed to provide protection against diseases such as cancer...

  18. 7 CFR 868.310 - Grades and grade requirements for the classes Long Grain Milled Rice, Medium Grain Milled Rice...

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... Grain Milled Rice, Medium Grain Milled Rice, Short Grain Milled Rice, and Mixed Milled Rice. (See also Â... Milled Rice Principles Governing Application of Standards § 868.310 Grades and grade requirements for the classes Long Grain Milled Rice, Medium Grain Milled Rice, Short Grain Milled Rice, and Mixed Milled...

  19. 7 CFR 868.310 - Grades and grade requirements for the classes Long Grain Milled Rice, Medium Grain Milled Rice...

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ... Grain Milled Rice, Medium Grain Milled Rice, Short Grain Milled Rice, and Mixed Milled Rice. (See also Â... Milled Rice Principles Governing Application of Standards § 868.310 Grades and grade requirements for the classes Long Grain Milled Rice, Medium Grain Milled Rice, Short Grain Milled Rice, and Mixed Milled...

  20. 7 CFR 868.310 - Grades and grade requirements for the classes Long Grain Milled Rice, Medium Grain Milled Rice...

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... Grain Milled Rice, Medium Grain Milled Rice, Short Grain Milled Rice, and Mixed Milled Rice. (See also Â... Milled Rice Principles Governing Application of Standards § 868.310 Grades and grade requirements for the classes Long Grain Milled Rice, Medium Grain Milled Rice, Short Grain Milled Rice, and Mixed Milled...

  1. 7 CFR 868.310 - Grades and grade requirements for the classes Long Grain Milled Rice, Medium Grain Milled Rice...

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... Grain Milled Rice, Medium Grain Milled Rice, Short Grain Milled Rice, and Mixed Milled Rice. (See also Â... Milled Rice Principles Governing Application of Standards § 868.310 Grades and grade requirements for the classes Long Grain Milled Rice, Medium Grain Milled Rice, Short Grain Milled Rice, and Mixed Milled...

  2. 7 CFR 868.310 - Grades and grade requirements for the classes Long Grain Milled Rice, Medium Grain Milled Rice...

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    ... Grain Milled Rice, Medium Grain Milled Rice, Short Grain Milled Rice, and Mixed Milled Rice. (See also Â... Milled Rice Principles Governing Application of Standards § 868.310 Grades and grade requirements for the classes Long Grain Milled Rice, Medium Grain Milled Rice, Short Grain Milled Rice, and Mixed Milled...

  3. Relationship of Rice Grain Amylose, Gelatinization Temperature and Pasting Properties for Breeding Better Eating and Cooking Quality of Rice Varieties

    PubMed Central

    Wang, Xiaoqian; Franje, Neil Johann; Revilleza, Jastin Edrian; Xu, Jianlong; Li, Zhikang

    2016-01-01

    A total of 787 non-waxy rice lines– 116 hybrids and 671 inbreds–were used to study the apparent amylose content (AAC), gelatinization temperature (GT), and rapid visco analyzer (RVA) pasting viscosity properties of rice starch to understand their importance in breeding better rice varieties. The investigated traits showed a wide range of diversity for both hybrid (HG) and inbred (IG) groups. The combinations of the different categories of AAC and GT were random in HG but were non-random in IG. For inbred lines, the high level of AAC tended to combine with the low level of GT, the intermediate level of AAC tended to have high or intermediate GT, and the low level of AAC tended to have high or low GT. Some stable correlations of the AAC, GT, and RVA properties may be the results derived from the physicochemical relationships among these traits, which rice breeders could utilize for selection in advanced breeding generations. Through cluster analysis, IG and HG were divided into 52 and 31 sub-clusters, respectively. Identifying the cultivars having AAC, GT, and RVA properties similar to that of popular high-quality rice varieties seems to be an interesting strategy and could be directly used for adaptation trials to breed high-quality rice varieties in targeted areas in a more customized manner. PMID:27992591

  4. Rice Glycosyltransferase (GT) Phylogenomic Database

    DOE Data Explorer

    Ronald, Pamela

    The Ronald Laboratory staff at the University of California-Davis has a primary research focus on the genes of the rice plant. They study the role that genetics plays in the way rice plants respond to their environment. They created the Rice GT Database in order to integrate functional genomic information for putative rice Glycosyltransferases (GTs). This database contains information on nearly 800 putative rice GTs (gene models) identified by sequence similarity searches based on the Carbohydrate Active enZymes (CAZy) database. The Rice GT Database provides a platform to display user-selected functional genomic data on a phylogenetic tree. This includes sequence information, mutant line information, expression data, etc. An interactive chromosomal map shows the position of all rice GTs, and links to rice annotation databases are included. The format is intended to "facilitate the comparison of closely related GTs within different families, as well as perform global comparisons between sets of related families." [From http://ricephylogenomics.ucdavis.edu/cellwalls/gt/genInfo.shtml] See also the primary paper discussing this work: Peijian Cao, Laura E. Bartley, Ki-Hong Jung and Pamela C. Ronalda. Construction of a Rice Glycosyltransferase Phylogenomic Database and Identification of Rice-Diverged Glycosyltransferases. Molecular Plant, 2008, 1(5): 858-877.

  5. Quantitative trait loci analysis for rice seed vigor during the germination stage.

    PubMed

    Wang, Zhou-fei; Wang, Jian-fei; Bao, Yong-mei; Wang, Fu-hua; Zhang, Hong-sheng

    2010-12-01

    Seed vigor is an important characteristic of seed quality, and rice cultivars with strong seed vigor are desirable in direct-sowing rice production for optimum stand establishment. In the present study, the quantitative trait loci (QTLs) of three traits for rice seed vigor during the germination stage, including germination rate, final germination percentage, and germination index, were investigated using one recombinant inbred line (RIL) population derived from a cross between japonica Daguandao and indica IR28, and using the multiple interval mapping (MIM) approach. The results show that indica rice presented stronger seed vigor during the germination stage than japonica rice. A total of ten QTLs, and at least five novel alleles, were detected to control rice seed vigor, and the amount of variation (R(2)) explained by an individual QTL ranged from 7.5% to 68.5%, with three major QTLs with R(2)>20%. Most of the QTLs detected here are likely to coincide with QTLs for seed weight, seed size, or seed dormancy, suggesting that the rice seed vigor might be correlated with seed weight, seed size, and seed dormancy. At least five QTLs are novel alleles with no previous reports of seed vigor genes in rice, and those major or minor QTLs could be used to significantly improve the seed vigor by marker-assisted selection (MAS) in rice.

  6. Development of disease-resistant rice by pathogen-responsive expression of WRKY45.

    PubMed

    Goto, Shingo; Sasakura-Shimoda, Fuyuko; Yamazaki, Muneo; Hayashi, Nagao; Suetsugu, Mai; Ochiai, Hirokazu; Takatsuji, Hiroshi

    2016-04-01

    WRKY45 is an important transcription factor in the salicylic acid signalling pathway in rice that mediates chemical-induced resistance against multiple pathogens. Its constitutive overexpression confers extremely strong resistance against Magnaporthe oryzae and Xanthomonas oryzae pv. oryzae to rice, but has adverse effects on agronomic traits. Here, a new strategy to confer rice with strong disease resistance without any negative effects on agronomic traits was established by expressing WRKY45 under the control of pathogen-responsive promoters in combination with a translational enhancer derived from a 5'-untranslated region (UTR) of rice alcohol dehydrogenase (ADH). Rice promoters that responded to M. oryzae and X. oryzae pv. oryzae infections within 24 h were identified, and 2-kb upstream sequences from nine of them were isolated, fused to WRKY45 cDNA with or without the ADH 5'-UTR, and introduced into rice. Although pathogen-responsive promoters alone failed to confer effective disease resistance, the use of the ADH 5'-UTR in combination with them, in particular the PR1b and GST promoters, enhanced disease resistance. Field trials showed that overall, PR1b promoter-driven (with ADH 5'-UTR) lines performed the best and one had agronomic traits comparable to control untransformed rice. Thus, expressing WRKY45 under the control of the PR1b promoter with the ADH 5'-UTR is an excellent strategy to develop disease-resistant rice, and the line established could serve as a mother line for breeding disease-resistant rice.

  7. Quantitative trait loci analysis for rice seed vigor during the germination stage*

    PubMed Central

    Wang, Zhou-fei; Wang, Jian-fei; Bao, Yong-mei; Wang, Fu-hua; Zhang, Hong-sheng

    2010-01-01

    Seed vigor is an important characteristic of seed quality, and rice cultivars with strong seed vigor are desirable in direct-sowing rice production for optimum stand establishment. In the present study, the quantitative trait loci (QTLs) of three traits for rice seed vigor during the germination stage, including germination rate, final germination percentage, and germination index, were investigated using one recombinant inbred line (RIL) population derived from a cross between japonica Daguandao and indica IR28, and using the multiple interval mapping (MIM) approach. The results show that indica rice presented stronger seed vigor during the germination stage than japonica rice. A total of ten QTLs, and at least five novel alleles, were detected to control rice seed vigor, and the amount of variation (R 2) explained by an individual QTL ranged from 7.5% to 68.5%, with three major QTLs with R 2>20%. Most of the QTLs detected here are likely to coincide with QTLs for seed weight, seed size, or seed dormancy, suggesting that the rice seed vigor might be correlated with seed weight, seed size, and seed dormancy. At least five QTLs are novel alleles with no previous reports of seed vigor genes in rice, and those major or minor QTLs could be used to significantly improve the seed vigor by marker-assisted selection (MAS) in rice. PMID:21121075

  8. Rapid assessment of rice seed availability for wildlife in harvested fields

    USGS Publications Warehouse

    Halstead, B.J.; Miller, M.R.; Casazza, M.L.; Coates, P.S.; Farinha, M.A.; Benjamin, Gustafson K.; Yee, J.L.; Fleskes, J.P.

    2011-01-01

    Rice seed remaining in commercial fields after harvest (waste rice) is a critical food resource for wintering waterfowl in rice-growing regions of North America. Accurate and precise estimates of the seed mass density of waste rice are essential for planning waterfowl wintering habitat extents and management. In the Sacramento Valley of California, USA, the existing method for obtaining estimates of availability of waste rice in harvested fields produces relatively precise estimates, but the labor-, time-, and machineryintensive process is not practical for routine assessments needed to examine long-term trends in waste rice availability. We tested several experimental methods designed to rapidly derive estimates that would not be burdened with disadvantages of the existing method. We first conducted a simulation study of the efficiency of each method and then conducted field tests. For each approach, methods did not vary in root mean squared error, although some methods did exhibit bias for both simulations and field tests. Methods also varied substantially in the time to conduct each sample and in the number of samples required to detect a standard trend. Overall, modified line-intercept methods performed well for estimating the density of rice seeds. Waste rice in the straw, although not measured directly, can be accounted for by a positive relationship with density of rice on the ground. Rapid assessment of food availability is a useful tool to help waterfowl managers establish and implement wetland restoration and agricultural habitat-enhancement goals for wintering waterfowl. ?? 2011 The Wildlife Society.

  9. Single nucleotide polymorphisms in a gene for translation initiation factor (eIF4G) of rice (Oryza sativa) associated with resistance to Rice tungro spherical virus.

    PubMed

    Lee, Jong-Hee; Muhsin, Muhammad; Atienza, Genelou A; Kwak, Do-Yeon; Kim, Suk-Man; De Leon, Teresa B; Angeles, Enrique R; Coloquio, Edgardo; Kondoh, Hiroaki; Satoh, Kouji; Cabunagan, Rogelio C; Cabauatan, Pepito Q; Kikuchi, Shoshi; Leung, Hei; Choi, Il-Ryong

    2010-01-01

    Rice tungro disease (RTD) is a serious constraint to rice production in South and Southeast Asia. RTD is caused by Rice tungro spherical virus (RTSV) and Rice tungro bacilliform virus. Rice cv. Utri Merah is resistant to RTSV. To identify the gene or genes involved in RTSV resistance, the association of genotypic and phenotypic variations for RTSV resistance was examined in backcross populations derived from Utri Merah and rice germplasm with known RTSV resistance. Genetic analysis revealed that resistance to RTSV in Utri Merah was controlled by a single recessive gene (tsv1) mapped within an approximately 200-kb region between 22.05 and 22.25 Mb of chromosome 7. A gene for putative translation initiation factor 4G (eIF4G(tsv1)) was found in the tsv1 region. Comparison of eIF4G(tsv1) gene sequences among susceptible and resistant plants suggested the association of RTSV resistance with one of the single nucleotide polymorphism (SNP) sites found in exon 9 of the gene. Examination of the SNP site in the eIF4G(tsv1) gene among various rice plants resistant and susceptible to RTSV corroborated the association of SNP or deletions in codons for Val(1060-1061) of the predicted eIF4G(tsv1) with RTSV resistance in rice.

  10. Accelerated Solvent Extraction of Insecticides from Rice Hulls, Rice Bran, and Polished Rice Grains.

    PubMed

    Teló, Gustavo Mack; Senseman, Scott Allen; Marchesan, Enio; Camargo, Edinalvo Rabaioli; Carson, Katherine

    2017-03-01

    Analysis of pesticide residues in irrigated rice grains is important for food security. In this study, we analyzed accelerated solvent extraction (ASE) conditions for the extraction of thiamethoxam and chlorantraniliprole insecticides from rice hulls, rice bran, and polished rice grains. Several variables, including extraction solvent, extraction temperature, extraction pressure, cell size, static extraction time, and sample concentration, were investigated. The average recoveries of the three matrixes were between 89.7 and 109.7% at the fortification level of 0.75 mg/kg. The optimum ASE operating conditions were acetonitrile (100%) as extraction solvent, extraction temperature of 75°C for rice hulls and 100°C for rice bran and polished rice grains, extraction cell pressure of 10.3 MPa, 22 mL cell size, and two extraction cycles. The total extraction time was approximately 25 min. The extracted volume was evaporated to dryness and the residues were redissolved in 2 mL acetonitrile after 1 min of vortex-shaking. Thiamethoxam and chlorantraniliprole were analyzed by ultra-HPLC with tandem MS. In conclusion, ASE in rice hulls, rice bran, and polished rice grains offers the possibility of a fast and simple method for obtaining a quantitative extraction of the studied pesticides.

  11. Glycaemic and insulin responses, glycaemic index and insulinaemic index values of rice between three Asian ethnic groups.

    PubMed

    Tan, V M H; Wu, T; Henry, C J; Lee, Y S

    2015-04-28

    Asians exhibit larger glycaemic response (GR) and insulin response (IR) than Caucasians, predisposing to an increased risk of type 2 diabetes mellitus (T2DM). We aimed to determine the GR and IR as well as the glycaemic index (GI) and insulinaemic index (II) of two rice varieties among three ethnic groups in Singapore. A total of seventy-five healthy males (twenty-five Chinese, twenty-five Malay and twenty-five Asian-Indians) were served the available equivalent carbohydrate amounts (50 g) of test foods (Jasmine rice and Basmati rice) and a reference food (glucose) on separate occasions. Postprandial blood glucose and plasma insulin concentrations were measured at fasting ( -5 and 0 min) and at 15, 30, 45, 60, 90 and 120 min after food consumption. Using the trapezoidal rule, GR, IR, GI and II values were determined. The GR did not differ between ethnic groups for Jasmine rice and Basmati rice. The IR was consistently higher for Jasmine rice (P=0·002) and Basmati rice (P=0·002) among Asian-Indians, probably due to compensatory hyperinsulinaemia to maintain normoglycaemia. The GI and II of both rice varieties did not differ significantly between ethnicities. The overall mean GI for Jasmine rice and Basmati rice were 91 (sd 21) and 59 (sd 15), respectively. The overall mean II for Jasmine rice was 76 (sd 26) and for Basmati rice was 57 (sd 24). We conclude that the GI values presented for Jasmine rice and Basmati rice were applicable to all three ethnic groups in Singapore. Future studies should include deriving the II for greater clinical utility in the prevention and management of T2DM.

  12. Induction of serotonin accumulation by feeding of rice striped stem borer in rice leaves.

    PubMed

    Ishihara, Atsushi; Hashimoto, Yumi; Miyagawa, Hisashi; Wakasa, Kyo

    2008-09-01

    Tryptophan (Trp)-related secondary metabolism has been implicated in the defense against pathogen infection and insect feeding in various gramineous species. Recently, we also reported that rice plant accumulated serotonin and tryptamine as well as their amide compounds coupled with phenolic acids in response to the infection by fungal pathogen. These compounds were likely to play an important role in the formation of physical barrier to the invading pathogens. To extend our study to elucidate the defensive role of Trp-derived secondary metabolism in gramineous plants, we examined in this study whether it is activated in response to herbivore attack as well. Third leaves of rice plant were fed on by third instar larvae of rice striped stem borer for 24 h or 48 h. The analysis of four Trp-derived metabolites including tryptamine, serotonin feruloyltryptamine (FerTry) and p-coumaroylserotonin (CouSer) by liquid chromatography coupled with tandem mass spectrometry revealed that their contents clearly increased in response to the larvae feeding. The respective amounts of tryptamine, serotonin, FerTry and CouSer in the larvae-fed leaves were 12-, 3.5-, 33- and 140-fold larger than those in control leaves 48 h after the start of feeding.

  13. Low uptake affinity cultivars with biochar to tackle Cd-tainted rice--A field study over four rice seasons in Hunan, China.

    PubMed

    Chen, De; Guo, Hu; Li, Ruiyue; Li, Lianqing; Pan, Genxing; Chang, Andrew; Joseph, Stephen

    2016-01-15

    Biochar is becoming an environmentally friendly material for remediation of heavy metal contaminated soils and improving food safety. A field trial over four rice seasons was conducted to investigate the use of biochar and low Cd accumulating cultivars on Cd uptake in a heavy metal contaminated soil. Wheat straw derived biochar was applied at 0, 20 and 40 t ha(-1). Two rice cultivars with differing Cd accumulation abilities were selected in each season. The results showed that both biochar and low Cd affinity cultivars significantly reduced rice grain Cd accumulation. Biochar had no significant effect the first season but thereafter consistently reduced rice grain Cd by a maximum of 61, 86 and 57% over the next three seasons. Zn accumulation in the rice grains was not decreased by biochar application, although available soil Zn was sharply reduced (35-91%). Indica conventional rice cultivars had much lower Cd, but higher Zn and lower Cd/Zn ratios in the grain than indica hybrid cultivars. Biochar was more effective for mitigating grain Cd accumulation in low Cd affinity cultivars than in high affinity cultivars. Soil pH was sustainably increased (up to nearly 1 unit) while available Cd significantly decreased by a maximum of 85% after biochar addition. The translocation of Cd from rice roots to shoots was reduced from 20 to 80% by biochar. Low uptake affinity cultivars combined with biochar reduced late rice grain Cd concentration and Cd/Zn ratios by 69-80% and 72-80%, respectively. It indicated that the management of combining biochar and low Cd affinity cultivars should be an efficient way to remediate Cd contaminated rice paddies and reduce health risk associated with consuming rice from these soils.

  14. Outcrossing Potential between U.S. Blackhull Red Rice and Indica Rice Cultivars

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Weedy red rice is a major weed pest of rice in the southern U.S. Outcrossing between red rice and commercial tropical japonica rice cultivars has resulted in new weed biotypes that further hinder the effectiveness of weed management. In recent years, indica rice has been used increasingly as a ger...

  15. 21 CFR 137.350 - Enriched rice.

    Code of Federal Regulations, 2013 CFR

    2013-04-01

    ... 21 Food and Drugs 2 2013-04-01 2013-04-01 false Enriched rice. 137.350 Section 137.350 Food and... Related Products § 137.350 Enriched rice. (a) The foods for which definitions and standards of identity are prescribed by this section are forms of milled rice (except rice coated with talc and glucose...

  16. 21 CFR 137.350 - Enriched rice.

    Code of Federal Regulations, 2014 CFR

    2014-04-01

    ... 21 Food and Drugs 2 2014-04-01 2014-04-01 false Enriched rice. 137.350 Section 137.350 Food and... Related Products § 137.350 Enriched rice. (a) The foods for which definitions and standards of identity are prescribed by this section are forms of milled rice (except rice coated with talc and glucose...

  17. 21 CFR 137.350 - Enriched rice.

    Code of Federal Regulations, 2012 CFR

    2012-04-01

    ... 21 Food and Drugs 2 2012-04-01 2012-04-01 false Enriched rice. 137.350 Section 137.350 Food and... Related Products § 137.350 Enriched rice. (a) The foods for which definitions and standards of identity are prescribed by this section are forms of milled rice (except rice coated with talc and glucose...

  18. 21 CFR 137.350 - Enriched rice.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ... 21 Food and Drugs 2 2010-04-01 2010-04-01 false Enriched rice. 137.350 Section 137.350 Food and... Related Products § 137.350 Enriched rice. (a) The foods for which definitions and standards of identity are prescribed by this section are forms of milled rice (except rice coated with talc and glucose...

  19. 21 CFR 137.350 - Enriched rice.

    Code of Federal Regulations, 2011 CFR

    2011-04-01

    ... 21 Food and Drugs 2 2011-04-01 2011-04-01 false Enriched rice. 137.350 Section 137.350 Food and... Related Products § 137.350 Enriched rice. (a) The foods for which definitions and standards of identity are prescribed by this section are forms of milled rice (except rice coated with talc and glucose...

  20. LABA1, a Domestication Gene Associated with Long, Barbed Awns in Wild Rice.

    PubMed

    Hua, Lei; Wang, Diane R; Tan, Lubin; Fu, Yongcai; Liu, Fengxia; Xiao, Langtao; Zhu, Zuofeng; Fu, Qiang; Sun, Xianyou; Gu, Ping; Cai, Hongwei; McCouch, Susan R; Sun, Chuanqing

    2015-07-01

    Common wild rice (Oryza rufipogon), the wild relative of Asian cultivated rice (Oryza sativa), flaunts long, barbed awns, which are necessary for efficient propagation and dissemination of seeds. By contrast, O. sativa cultivars have been selected to be awnless or to harbor short, barbless awns, which facilitate seed processing and storage. The transition from long, barbed awns to short, barbless awns was a crucial event in rice domestication. Here, we show that the presence of long, barbed awns in wild rice is controlled by a major gene on chromosome 4, LONG AND BARBED AWN1 (LABA1), which encodes a cytokinin-activating enzyme. A frame-shift deletion in LABA1 of cultivated rice reduces the cytokinin concentration in awn primordia, disrupting barb formation and awn elongation. Sequencing analysis demonstrated low nucleotide diversity and a selective sweep encompassing an ∼800-kb region around the derived laba1 allele in cultivated rice. Haplotype analysis revealed that the laba1 allele originated in the japonica subspecies and moved into the indica gene pool via introgression, suggesting that humans selected for this locus in early rice domestication. Identification of LABA1 provides new insights into rice domestication and also sheds light on the molecular mechanism underlying awn development.

  1. Genetic engineering of rice capable of synthesizing fructans and enhancing chilling tolerance.

    PubMed

    Kawakami, Akira; Sato, Yutaka; Yoshida, Midori

    2008-01-01

    Fructans are water-soluble fructose oligomers and polymers that are based on sucrose, and have been implicated in protecting plants against water stress. Rice (Oryza sativa L.) is highly sensitive to chilling temperatures, and is not able to synthesize fructans. Two wheat fructan-synthesizing enzymes, sucrose:sucrose 1-fructosyltransferase, encoded by wft2, or sucrose:fructan 6-fructosyltransferase, encoded by wft1, were introduced into rice plants, and rice transformants that accumulate fructans were successfully obtained. The mature leaf blades of transgenic rice lines with wft2 or wft1 accumulated 16.2 mg g(-1) FW of oligo- and polysaccharides mainly composed of inulin oligomers of more than DP7, and 3.7 mg g(-1) FW of oligo- and polysaccharides, mainly composed of phlein oligomers of more than DP15, respectively. The transgenic rice seedlings with wft2 accumulated significantly higher concentrations of oligo- and polysaccharides than non-transgenic rice seedlings, and exhibited enhanced chilling tolerance. The oligo- and polysaccharide concentrations of seedlings expressing wft1 were obviously lower than those of lines expressing wft2, and no correlation between oligo- and polysaccharide concentrations and chilling tolerance was detected in wft1-expressing rice lines. The results suggest that transgenic rice lines expressing wheat-derived fructosyltransferase genes accumulated large amounts of fructans in mature leaf blades and exhibited enhanced chilling tolerance at the seedling stage. This is the first report owing that fructan accumulation enhanced tolerance to non-freezing low temperatures.

  2. Suitability assessment and mapping of Oyo State, Nigeria, for rice cultivation using GIS

    NASA Astrophysics Data System (ADS)

    Ayoade, Modupe Alake

    2016-07-01

    Rice is one of the most preferred food crops in Nigeria. However, local rice production has declined with the oil boom of the 1970s causing demand to outstrip supply. Rice production can be increased through the integration of Geographic Information Systems (GIS) and crop-land suitability analysis and mapping. Based on the key predictor variables that determine rice yield mentioned in relevant literature, data on rainfall, temperature, relative humidity, slope, and soil of Oyo state were obtained. To develop rice suitability maps for the state, two MCE-GIS techniques, namely the Overlay approach and weighted linear combination (WLC), using fuzzy AHP were used and compared. A Boolean land use map derived from a landsat imagery was used in masking out areas currently unavailable for rice production. Both suitability maps were classified into four categories of very suitable, suitable, moderate, and fairly moderate. Although the maps differ slightly, the overlay and WLC (AHP) approach found most parts of Oyo state (51.79 and 82.9 % respectively) to be moderately suitable for rice production. However, in areas like Eruwa, Oyo, and Shaki, rainfall amount received needs to be supplemented by irrigation for increased rice yield.

  3. Mapping paddy rice using multi-temporal Landsat imagery in the Sanjiang Plain, Northeast China

    NASA Astrophysics Data System (ADS)

    Jin, C.; Xiao, X.; Dong, J.; Wang, Z.; Song, K.

    2013-12-01

    Accurate information on cultivation area and spatial distribution of paddy rice is required for the regional food security, agriculture water management, and methane emission estimate. The 500m MODIS-based paddy rice mapping algorithm has been well applied to map rice cropping area and intensity through identifying the unique phenology phase during the growing season - field flooding/seedling transplanting using the time-series datasets of Normalized Difference Vegetation Index (NDVI), Enhance Vegetation index (EVI), and Land Surface Water Index (LSWI). In this study, a total number of 119 scenes of Landsat imagery were collected over the entire Sanjiang Plain, Northeast China in 2010-2012. Paddy rice has shown distinct phenological and spectral characteristics against other land types from the multi-temporal Landsat imagery during the flooding/transplanting (early-May to late-June) and ripening (late-August to Mid-September) periods, respectively. A 30m Landsat paddy rice map of the Sanjiang Plain was generated by composing flooding/transplanting and ripening based algorithms using the multi-temporal vegetation indices (NDVI, EVI, LSWI) as input. The resultant Landsat-based paddy rice map has been evaluated and compared using other four paddy rice datasets: (1) ground truth points collected during 2011 field campaign; (2) 2011 agricultural census data of counties; (3) the National Land Cover Dataset (1: 100, 000 scale) derived from the Landsat and CBERS-2 in 2010/2011; and (4) 500m paddy rice map generated from the multi-temporal MODIS vegetation indices imagery. We found that the Landsat paddy rice map has high accuracy (both producer and user accuracy is above 85%) on the basis of ground truth point validation. Agricultural census data tended to underestimate paddy rice area by 60% compared the rice area summarized from the Landsat paddy rice map. In addition, the Landsat paddy rice map had good consistency with the MODIS paddy rice map with the correlation

  4. SAR Agriculture Rice Production Estimation (SARPE)

    NASA Astrophysics Data System (ADS)

    Raimadoya, M.

    2013-12-01

    The study of SAR Agriculture Rice Production Estimation (SARPE) was held in Indonesia on 2012, as part of Asia-Rice Crop Estimation & Monitoring (Asia-RiCE), which is a component for the GEO Global Agricultural Monitoring (GEOGLAM) initiative. The study was expected to give a breakthrough result, by using radar technology and paradigm shift of the standard production estimation system from list frame to area frame approach. This initial product estimation system is expected to be refined (fine tuning) in 2013, by participating as part of Technical Demonstration Site (Phase -1A) of Asia-RICE. The implementation period of this initial study was from the date of March 12 to December 10, 2012. The implementation of the study was done by following the approach of the BIMAS-21 framework, which has been developed since 2008. The results of this study can be briefly divided into two major components, namely: Rice-field Baseline Mapping (PESBAK - Peta Sawah Baku) and Crop Growth Monitoring. Rice-fields were derived from the mapping results of the Ministry of Agriculture (Kemtan), and validated through Student Extension Campaign of the Faculty of Agriculture, Bogor Agricultural University (IPB). While for the crop growth, it was derived from the results of image analysis process. The analysis was done, either on radar/Radarsat-2 (medium resolution) or optical/ MODIS (low resolution), based on the Planting Calendar (KATAM) of Kemtan. In this case, the planting season II/2012-2013 of rice production centers in West Java Province (Karawang, Subang and Indramayu counties). The selection of crop season and county were entirely dependent on the quality of the available PESBAK and procurement process of radar imagery. The PESBAK is still in the form of block instead of fields, so it can not be directly utilized in this study. Efforts to improve the PESBAK can not be optimal because the provided satellite image (ECW format) is not the original one. While the procurement process of

  5. Facile fabrication of rice husk based silicon dioxide nanospheres loaded with silver nanoparticles as a rice antibacterial agent.

    PubMed

    Cui, Jianghu; Liang, You; Yang, Desong; Liu, Yingliang

    2016-02-18

    Bacterial leaf blight of rice caused by Xanthomonas oryzae pv. oryzae (Xoo) is a major disease of rice, leading to reduction in production by 10-50%. In order to control this disease, various chemical bactericides have been used. Wide and prolonged application of chemical bactericides resulted in the resistant strain of Xoo that was isolated from rice. To address this problem, we were searching for an environmentally friendly alternative to the commonly used chemical bactericides. In this work, we demonstrate that silicon dioxide nanospheres loaded with silver nanoparticles (SiO2-Ag) can be prepared by using rice husk as base material precursor. The results of the antibacterial tests showed that SiO2-Ag composites displayed antibacterial activity against Xoo. At cellular level, the cell wall/membrane was damaged and intercellular contents were leaked out by slow-releasing of silver ions from SiO2-Ag composites. At molecular level, this composite induced reactive oxygen species production and inhibited DNA replication. Based on the results above, we proposed the potential antibacterial mechanism of SiO2-Ag composites. Moreover, the cytotoxicity assay indicated that the composites showed mild toxicity with rice cells. Thus, this work provided a new strategy to develop biocide derived from residual biomass.

  6. Molecular evolution of the Pi-ta gene resistant to rice blast in wild rice (Oryza rufipogon).

    PubMed

    Huang, Chun-Lin; Hwang, Shih-Ying; Chiang, Yu-Chung; Lin, Tsan-Piao

    2008-07-01

    Rice blast disease resistance to the fungal pathogen Magnaporthe grisea is triggered by a physical interaction between the protein products of the host R (resistance) gene, Pi-ta, and the pathogen Avr (avirulence) gene, AVR-pita. The genotype variation and resistant/susceptible phenotype at the Pi-ta locus of wild rice (Oryza rufipogon), the ancestor of cultivated rice (O. sativa), was surveyed in 36 locations worldwide to study the molecular evolution and functional adaptation of the Pi-ta gene. The low nucleotide polymorphism of the Pi-ta gene of O. rufipogon was similar to that of O. sativa, but greatly differed from what has been reported for other O. rufipogon genes. The haplotypes can be subdivided into two divergent haplogroups named H1 and H2. H1 is derived from H2, with nearly no variation and at a low frequency. H2 is common and is the ancestral form. The leucine-rich repeat (LRR) domain has a high pi(non)/pi(syn) ratio, and the low polymorphism of the Pi-ta gene might have primarily been caused by recurrent selective sweep and constraint by other putative physiological functions. Meanwhile, we provide data to show that the amino acid Ala-918 of H1 in the LRR domain has a close relationship with the resistant phenotype. H1 might have recently arisen during rice domestication and may be associated with the scenario of a blast pathogen-host shift from Italian millet to rice.

  7. Facile fabrication of rice husk based silicon dioxide nanospheres loaded with silver nanoparticles as a rice antibacterial agent

    PubMed Central

    Cui, Jianghu; Liang, You; Yang, Desong; Liu, Yingliang

    2016-01-01

    Bacterial leaf blight of rice caused by Xanthomonas oryzae pv. oryzae (Xoo) is a major disease of rice, leading to reduction in production by 10–50%. In order to control this disease, various chemical bactericides have been used. Wide and prolonged application of chemical bactericides resulted in the resistant strain of Xoo that was isolated from rice. To address this problem, we were searching for an environmentally friendly alternative to the commonly used chemical bactericides. In this work, we demonstrate that silicon dioxide nanospheres loaded with silver nanoparticles (SiO2-Ag) can be prepared by using rice husk as base material precursor. The results of the antibacterial tests showed that SiO2-Ag composites displayed antibacterial activity against Xoo. At cellular level, the cell wall/membrane was damaged and intercellular contents were leaked out by slow-releasing of silver ions from SiO2-Ag composites. At molecular level, this composite induced reactive oxygen species production and inhibited DNA replication. Based on the results above, we proposed the potential antibacterial mechanism of SiO2-Ag composites. Moreover, the cytotoxicity assay indicated that the composites showed mild toxicity with rice cells. Thus, this work provided a new strategy to develop biocide derived from residual biomass. PMID:26888152

  8. An Organismal CNV Mutator Phenotype Restricted to Early Human Development.

    PubMed

    Liu, Pengfei; Yuan, Bo; Carvalho, Claudia M B; Wuster, Arthur; Walter, Klaudia; Zhang, Ling; Gambin, Tomasz; Chong, Zechen; Campbell, Ian M; Coban Akdemir, Zeynep; Gelowani, Violet; Writzl, Karin; Bacino, Carlos A; Lindsay, Sarah J; Withers, Marjorie; Gonzaga-Jauregui, Claudia; Wiszniewska, Joanna; Scull, Jennifer; Stankiewicz, Paweł; Jhangiani, Shalini N; Muzny, Donna M; Zhang, Feng; Chen, Ken; Gibbs, Richard A; Rautenstrauss, Bernd; Cheung, Sau Wai; Smith, Janice; Breman, Amy; Shaw, Chad A; Patel, Ankita; Hurles, Matthew E; Lupski, James R

    2017-02-23

    De novo copy number variants (dnCNVs) arising at multiple loci in a personal genome have usually been considered to reflect cancer somatic genomic instabilities. We describe a multiple dnCNV (MdnCNV) phenomenon in which individuals with genomic disorders carry five to ten constitutional dnCNVs. These CNVs originate from independent formation incidences, are predominantly tandem duplications or complex gains, exhibit breakpoint junction features reminiscent of replicative repair, and show increased de novo point mutations flanking the rearrangement junctions. The active CNV mutation shower appears to be restricted to a transient perizygotic period. We propose that a defect in the CNV formation process is responsible for the "CNV-mutator state," and this state is dampened after early embryogenesis. The constitutional MdnCNV phenomenon resembles chromosomal instability in various cancers. Investigations of this phenomenon may provide unique access to understanding genomic disorders, structural variant mutagenesis, human evolution, and cancer biology.

  9. Analysis of hyperspectral field radiometric data for monitoring nitrogen concentration in rice crops

    NASA Astrophysics Data System (ADS)

    Stroppiana, D.; Boschetti, M.; Confalonieri, R.; Bocchi, S.; Brivio, P. A.

    2005-10-01

    Monitoring crop conditions and assessing nutrition requirements is fundamental for implementing sustainable agriculture. Rational nitrogen fertilization is of particular importance in rice crops in order to guarantee high production levels while minimising the impact on the environment. In fact, the typical flooded condition of rice fields can be a significant source of greenhouse gasses. Information on plant nitrogen concentration can be used, coupled with information about the phenological stage, to plan strategies for a rational and spatially differentiated fertilization schedule. A field experiment was carried out in a rice field Northern Italy, in order to evaluate the potential of field radiometric measurements for the prediction of rice nitrogen concentration. The results indicate that rice reflectance is influenced by nitrogen supply at certain wavelengths although N concentration cannot be accurately predicted based on the reflectance measured at a given wavelength. Regression analysis highlighted that the visible region of the spectrum is most sensitive to plant nitrogen concentration when reflectance measures are combined into a spectral index. An automated procedure allowed the analysis of all the possible combinations into a Normalized Difference Index (NDI) of the narrow spectral bands derived by spectral resampling of field measurements. The derived index appeared to be least influenced by plant biomass and Leaf Area Index (LAI) providing a useful approach to detect rice nutritional status. The validation of the regressive model showed that the model is able to predict rice N concentration (R2=0.55 [p<0.01] RRMSE=29.4; modelling efficiency close to the optimum value).

  10. Transgenic rice as a novel production system for Melanocarpus and Pycnoporus laccases.

    PubMed

    de Wilde, Chris; Uzan, Eva; Zhou, Zhongyi; Kruus, Kristiina; Andberg, Martina; Buchert, Johanna; Record, Eric; Asther, Marcel; Lomascolo, Anne

    2008-08-01

    Laccases have numerous biotechnological applications, among them food processing. The widespread use of laccases has increased the demand for an inexpensive and safe source of recombinant enzyme. We explored the use of a rice-based system for the production of two fungal laccases derived from the ascomycete Melanocarpus albomyces and the basidiomycete Pycnoporus cinnabarinus. High-expression levels of active recombinant laccases were achieved by targeting expression to the endosperm of rice seeds. The laccase cDNAs were fused to a plant-derived signal sequence for targeting to the secretory pathway, and placed under the control of a constitutive seed-specific promoter fused to an intron for enhanced expression. This construct enabled the recovery of on average 0.1-1% of soluble laccase in total soluble proteins (TSP). The highest yields of recombinant laccases obtained in rice seeds were 13 and 39 ppm for riceMaL and ricePycL, respectively. The rice-produced laccases were purified and characterized. The wild-type and the recombinant proteins showed similar biochemical features in terms of molecular mass, pI, temperature and optimal pH and the N-terminus was correctly processed. Although presenting lower kinetic parameters, the rice-produced laccases were also suitable for the oxidative cross-linking of a food model substrate [maize-bran feruloylated arabinoxylans (AX)].

  11. Application of terahertz spectroscopy imaging for discrimination of transgenic rice seeds with chemometrics.

    PubMed

    Liu, Wei; Liu, Changhong; Hu, Xiaohua; Yang, Jianbo; Zheng, Lei

    2016-11-01

    Discrimination of genetically modified organisms is increasingly demanded by legislation and consumers worldwide. The feasibility of a non-destructive discrimination of transgenic rice seeds from its non-transgenic counterparts was examined by terahertz spectroscopy imaging system combined with chemometrics. Principal component analysis (PCA), least squares support vector machines (LS-SVM), PCA-back propagation neural network (PCA-BPNN), and random forest (RF) models with the first and second derivative and standard normal variate transformation (SNV) pre-treatments were applied to classify rice seeds based on genotype. The results demonstrated that differences between non-transgenic and transgenic rice seeds did exist, and an excellent classification (accuracy was 96.67% in the prediction set) could be achieved using the RF model combined with the first derivative pre-treatment. The results indicated that THz spectroscopy imaging together with chemometrics would be a promising technique to identify transgenic rice seeds with high efficiency and without any sample preparation.

  12. Rice crop monitoring with multitemporal MODIS-Landsat data fusion

    NASA Astrophysics Data System (ADS)

    Chen, Cheng-Ru; Chen, Chi-Farn; Son, Nguyen-Thanh

    2014-05-01

    revealed close agreement between these two datasets. The overall accuracy and Kappa coefficient were 82% and 0.75, respectively. The relationship between the MODIS-derived rice areas and those from the government's rice area statistics at the district level was examined, reaffirming a strong correlation between the two datasets with R2 > 0.9. This study demonstrates advantages of MODIS-Landsat data fusion for rice crop mapping in Taiwan. Such an approach used in this study could be applied for other regions to map small patches of crops at a subnational scale.

  13. Food exchange list based on 80-kilocalorie rice unit.

    PubMed

    Hung, C T

    1989-06-01

    The conventional food exchange list which has been used in most hospitals and nutrition related institutes in Taiwan is derived from that published by a Joint Committee of the American Diabetes Association, American Dietetic Association, and the Diabetes Section, U.S. Public Health Services in 1950. There are several disadvantages of using this conventional table as an educational tool for Chinese patients in Taiwan. Those disadvantages include ignorance of macronutrients, nonnutritional classification of food and variance in calories between food categories. Our food exchange list aimed to classify food items into carbohydrate, protein and fat-rich food groups isocalorically. First of all, a "rice-unit" is defined as a 1/4 bowl of cooked rice, which contains approximately 80 kcal. Second, 80 kcal derived from the "rice unit" was used as a basic calorie unit in this study for definition of carbohydrate-rich, protein-rich, and fat-rich food items. All of the following items contain approximately 80 kcal: 1/2 bowl of gruel, a small banana, two medium sized oranges, a slice of bread (carbohydrate-rich items), an egg, 38g of pork (protein-rich items) and two teaspoons of soybean oil (a fat-rich item). There are several benefits of using this recommended food exchange list: (1) Rice is the most important staple in the Chinese family. The recommended food exchange list is derived from rice to enhance practicality and compliance of the Chinese people in Taiwan. Moreover, the theory of a high carbohydrate, high-fiber diet recommended by the ADA in 1987 has been stressed in this study.(ABSTRACT TRUNCATED AT 250 WORDS)

  14. Identification of SNPs in the waxy gene among glutinous rice cultivars and their evolutionary significance during the domestication process of rice.

    PubMed

    Yamanaka, Shinsuke; Nakamura, Ikuo; Watanabe, Kazuo N; Sato, Yo-Ichiro

    2004-05-01

    Common non-waxy ( Wx) rice cultivars contain two different alleles at the waxy locus, designated Wx(a) and Wx(b), which encode different levels of granule-bound starch synthases and are hence involved in the control of endosperm amylose content. The Wx(a) allele was predominant in non-waxy indica cultivars, whereas the Wx(b) allele was common to the non-waxy japonica variety. Recently, some of the molecular mechanisms underlying the differentiation of Wx(a) from Wx(b) have been characterized. One structural difference between these two alleles was shown to be due to alternative splicing caused by a single-base substitution (AG GT to AG TT) at a donor site of the first intron within the Wx gene. In the case of waxy ( wx) rice, it was not possible to distinguish whether the each wx allele was derived from Wx(a) or Wx(b) alleles by phenotypic analysis. However, we succeeded in developing a derived cleaved amplified polymorphic sequence (dCAPS) marker for the detection of the one-base splicing mutation without the need for sequencing. A mismatch primer was used to generate a restriction site in the Wx(a) allele (AGGT) but not in the Wx(b) allele (AGTT). Three hundred fifty-three waxy rice strains that are widely found in Asia were then employed for analysis using this dCAPS marker. Our findings suggested that waxy rice strains have both Wx(a)- and Wx(b)-derived alleles, but that the Wx(b)-derived allele was predominant, and its distribution was independent of indica- japonica differentiation. The wild relatives of cultivated rice all possessed the AGGT allele. It was concluded that the waxy mutations, and the corresponding rice cultivation, originated from japonica during the evolution and domestication process of rice and was preferentially selected by most Asian peoples.

  15. Modelling the Geographical Origin of Rice Cultivation in Asia Using the Rice Archaeological Database

    PubMed Central

    Silva, Fabio; Stevens, Chris J.; Weisskopf, Alison; Castillo, Cristina; Qin, Ling; Bevan, Andrew; Fuller, Dorian Q.

    2015-01-01

    We have compiled an extensive database of archaeological evidence for rice across Asia, including 400 sites from mainland East Asia, Southeast Asia and South Asia. This dataset is used to compare several models for the geographical origins of rice cultivation and infer the most likely region(s) for its origins and subsequent outward diffusion. The approach is based on regression modelling wherein goodness of fit is obtained from power law quantile regressions of the archaeologically inferred age versus a least-cost distance from the putative origin(s). The Fast Marching method is used to estimate the least-cost distances based on simple geographical features. The origin region that best fits the archaeobotanical data is also compared to other hypothetical geographical origins derived from the literature, including from genetics, archaeology and historical linguistics. The model that best fits all available archaeological evidence is a dual origin model with two centres for the cultivation and dispersal of rice focused on the Middle Yangtze and the Lower Yangtze valleys. PMID:26327225

  16. Modelling the Geographical Origin of Rice Cultivation in Asia Using the Rice Archaeological Database.

    PubMed

    Silva, Fabio; Stevens, Chris J; Weisskopf, Alison; Castillo, Cristina; Qin, Ling; Bevan, Andrew; Fuller, Dorian Q

    2015-01-01

    We have compiled an extensive database of archaeological evidence for rice across Asia, including 400 sites from mainland East Asia, Southeast Asia and South Asia. This dataset is used to compare several models for the geographical origins of rice cultivation and infer the most likely region(s) for its origins and subsequent outward diffusion. The approach is based on regression modelling wherein goodness of fit is obtained from power law quantile regressions of the archaeologically inferred age versus a least-cost distance from the putative origin(s). The Fast Marching method is used to estimate the least-cost distances based on simple geographical features. The origin region that best fits the archaeobotanical data is also compared to other hypothetical geographical origins derived from the literature, including from genetics, archaeology and historical linguistics. The model that best fits all available archaeological evidence is a dual origin model with two centres for the cultivation and dispersal of rice focused on the Middle Yangtze and the Lower Yangtze valleys.

  17. Molecular and Biochemical Analysis of Two Rice Flavonoid 3’-Hydroxylase to Evaluate Their Roles in Flavonoid Biosynthesis in Rice Grain

    PubMed Central

    Park, Sangkyu; Choi, Min Ji; Lee, Jong Yeol; Kim, Jae Kwang; Ha, Sun-Hwa; Lim, Sun-Hyung

    2016-01-01

    Anthocyanins and proanthocyanidins, the major flavonoids in black and red rice grains, respectively, are mainly derived from 3′,4′-dihydroxylated leucocyanidin. 3′-Hydroxylation of flavonoids in rice is catalyzed by flavonoid 3′-hydroxylase (F3′H: EC 1.14.13.21). We isolated cDNA clones of the two rice F3′H genes (CYP75B3 and CYP75B4) from Korean varieties of white, black, and red rice. Sequence analysis revealed allelic variants of each gene containing one or two amino acid substitutions. Heterologous expression in yeast demonstrated that CYP75B3 preferred kaempferol to other substrates, and had a low preference for dihydrokaempferol. CYP75B4 exhibited a higher preference for apigenin than for other substrates. CYP75B3 from black rice showed an approximately two-fold increase in catalytic efficiencies for naringenin and dihydrokaempferol compared to CYP75B3s from white and red rice. The F3′H activity of CYP75B3 was much higher than that of CYP75B4. Gene expression analysis showed that CYP75B3, CYP75B4, and most other flavonoid pathway genes were predominantly expressed in the developing seeds of black rice, but not in those of white and red rice, which is consistent with the pigmentation patterns of the seeds. The expression levels of CYP75B4 were relatively higher than those of CYP75B3 in the developing seeds, leaves, and roots of white rice. PMID:27649148

  18. Soil Incorporation of Silica-Rich Rice Husk Decreases Inorganic Arsenic in Rice Grain.

    PubMed

    Seyfferth, Angelia L; Morris, Andrew H; Gill, Rattandeep; Kearns, Kelli A; Mann, Jessica N; Paukett, Michelle; Leskanic, Corey

    2016-05-18

    Arsenic decreases rice yield, and inorganic grain As threatens human health; thus, strategies to decrease rice As are critically needed. Increased plant-available silica (Si) can decrease rice As, yet the source of Si matters. Rice husk, an underutilized and Si-rich byproduct of rice production that contains less labile C and an order of magnitude less As than rice straw, may be an economically viable Si resource to decrease rice As, yet the impact of rice husk incorporation on As in the rice-soil nexus has not been reported. This proof-of-concept study shows that rice husk incorporation to soil (1% w/w) decreases inorganic grain As by 25-50% without negatively affecting grain Cd, yield, or dissolved CH4 levels. Rice husk is a critical yet perhaps overlooked resource to improve soil quality through enhanced nutrient availability and attenuate human health risks through consumption of As-laden grain.

  19. Transgenic Expression of the Dicotyledonous Pattern Recognition Receptor EFR in Rice Leads to Ligand-Dependent Activation of Defense Responses

    PubMed Central

    Thomas, Nicolas; Holton, Nicolas; Nekrasov, Vladimir; Ruan, Deling; Canlas, Patrick E.; Daudi, Arsalan; Petzold, Christopher J.; Singan, Vasanth R.; Kuo, Rita; Chovatia, Mansi; Daum, Christopher; Heazlewood, Joshua L.; Zipfel, Cyril; Ronald, Pamela C.

    2015-01-01

    Plant plasma membrane localized pattern recognition receptors (PRRs) detect extracellular pathogen-associated molecules. PRRs such as Arabidopsis EFR and rice XA21 are taxonomically restricted and are absent from most plant genomes. Here we show that rice plants expressing EFR or the chimeric receptor EFR::XA21, containing the EFR ectodomain and the XA21 intracellular domain, sense both Escherichia coli- and Xanthomonas oryzae pv. oryzae (Xoo)-derived elf18 peptides at sub-nanomolar concentrations. Treatment of EFR and EFR::XA21 rice leaf tissue with elf18 leads to MAP kinase activation, reactive oxygen production and defense gene expression. Although expression of EFR does not lead to robust enhanced resistance to fully virulent Xoo isolates, it does lead to quantitatively enhanced resistance to weakly virulent Xoo isolates. EFR interacts with OsSERK2 and the XA21 binding protein 24 (XB24), two key components of the rice XA21-mediated immune response. Rice-EFR plants silenced for OsSERK2, or overexpressing rice XB24 are compromised in elf18-induced reactive oxygen production and defense gene expression indicating that these proteins are also important for EFR-mediated signaling in transgenic rice. Taken together, our results demonstrate the potential feasibility of enhancing disease resistance in rice and possibly other monocotyledonous crop species by expression of dicotyledonous PRRs. Our results also suggest that Arabidopsis EFR utilizes at least a subset of the known endogenous rice XA21 signaling components. PMID:25821973

  20. Transgenic expression of the dicotyledonous pattern recognition receptor EFR in rice leads to ligand-dependent activation of defense responses

    DOE PAGES

    Schwessinger, Benjamin; Bahar, Ofir; Thomas, Nicolas; ...

    2015-03-30

    Plant plasma membrane localized pattern recognition receptors (PRRs) detect extracellular pathogen-associated molecules. PRRs such as Arabidopsis EFR and rice XA21 are taxonomically restricted and are absent from most plant genomes. Here we show that rice plants expressing EFR or the chimeric receptor EFR::XA21, containing the EFR ectodomain and the XA21 intracellular domain, sense both Escherichia coli- and Xanthomonas oryzae pv. oryzae (Xoo)-derived elf18 peptides at sub-nanomolar concentrations. Treatment of EFR and EFR::XA21 rice leaf tissue with elf18 leads to MAP kinase activation, reactive oxygen production and defense gene expression. Although expression of EFR does not lead to robust enhanced resistancemore » to fully virulent Xoo isolates, it does lead to quantitatively enhanced resistance to weakly virulent Xoo isolates. EFR interacts with OsSERK2 and the XA21 binding protein 24 (XB24), two key components of the rice XA21-mediated immune response. Rice-EFR plants silenced for OsSERK2, or overexpressing rice XB24 are compromised in elf18-induced reactive oxygen production and defense gene expression indicating that these proteins are also important for EFR-mediated signaling in transgenic rice. Taken together, our results demonstrate the potential feasibility of enhancing disease resistance in rice and possibly other monocotyledonous crop species by expression of dicotyledonous PRRs. Our results also suggest that Arabidopsis EFR utilizes at least a subset of the known endogenous rice XA21 signaling components.« less

  1. Transcriptome-wide investigation of circular RNAs in rice

    PubMed Central

    Lu, Tingting; Cui, Lingling; Zhou, Yan; Zhu, Chuanrang; Fan, Danlin; Gong, Hao; Zhao, Qiang; Zhou, Congcong; Zhao, Yan; Lu, Danfeng; Luo, Jianghong; Wang, Yongchun; Tian, Qilin; Feng, Qi; Huang, Tao; Han, Bin

    2015-01-01

    Various stable circular RNAs (circRNAs) are newly identified to be the abundance of noncoding RNAs in Archaea, Caenorhabditis elegans, mice, and humans through high-throughput deep sequencing coupled with analysis of massive transcriptional data. CircRNAs play important roles in miRNA function and transcriptional controlling by acting as competing endogenous RNAs or positive regulators on their parent coding genes. However, little is known regarding circRNAs in plants. Here, we report 2354 rice circRNAs that were identified through deep sequencing and computational analysis of ssRNA-seq data. Among them, 1356 are exonic circRNAs. Some circRNAs exhibit tissue-specific expression. Rice circRNAs have a considerable number of isoforms, including alternative backsplicing and alternative splicing circularization patterns. Parental genes with multiple exons are preferentially circularized. Only 484 circRNAs have backsplices derived from known splice sites. In addition, only 92 circRNAs were found to be enriched for miniature inverted-repeat transposable elements (MITEs) in flanking sequences or to be complementary to at least 18-bp flanking intronic sequences, indicating that there are some other production mechanisms in addition to direct backsplicing in rice. Rice circRNAs have no significant enrichment for miRNA target sites. A transgenic study showed that overexpression of a circRNA construct could reduce the expression level of its parental gene in transgenic plants compared with empty-vector control plants. This suggested that circRNA and its linear form might act as a negative regulator of its parental gene. Overall, these analyses reveal the prevalence of circRNAs in rice and provide new biological insights into rice circRNAs. PMID:26464523

  2. Rice scene radiation research plan

    NASA Technical Reports Server (NTRS)

    Heilman, J.

    1982-01-01

    Data requirements, tasks to be accomplished, and the technical approaches to be used in identifying the characteristics of rice for crop inventories are listed as well as methods for estimating crop development and assessing its conditions.

  3. Rice in an interdependent world.

    PubMed

    Falck, V T

    1991-01-01

    The purpose of this paper is to examine the outcome of the increasing need and dependence on rice as an essential food, and the potential hazards of this trajectory in an interdependent world, and to propose the need for a supranational system to guide decisions made in areas of mutual dependency among nations. All rice producing countries of the world should be responsible for assuring sufficient quantities and qualities of rice for the world's population. However, there are hazards related to emphasis on rice yields associated with the neglect of overall nutritional needs and also the potential for environmental impact given the need for sustainable development. Scientific measurement and data analyses of interdependent supranational variables are needed to guide policies and practices to insure conditions for life will be favorable for people everywhere.

  4. Differentiation of weedy traits in ALS-resistant red rice

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Red rice is a weedy form of cultivated rice (Oryza sativa) that competes aggressively with rice in the southern U.S., reduces yields and contaminates rice grains. The introduction of ClearfieldTM rice, a nontransgenic, herbicide-resistant rice cultivar a decade ago has led to increased use of imazet...

  5. Detection algorithm for multiple rice seeds images

    NASA Astrophysics Data System (ADS)

    Cheng, F.; Ying, Y. B.

    2006-10-01

    The objective of this research is to develop a digital image analysis algorithm for detection of multiple rice seeds images. The rice seeds used for this study involved a hybrid rice seed variety. Images of multiple rice seeds were acquired with a machine vision system for quality inspection of bulk rice seeds, which is designed to inspect rice seeds on a rotating disk with a CCD camera. Combining morphological operations and parallel processing gave improvements in accuracy, and a reduction in computation time. Using image features selected based on classification ability; a highly acceptable defects classification was achieved when the algorithm was implemented for all the samples to test the adaptability.

  6. Increasing rice plant growth by Trichoderma sp.

    NASA Astrophysics Data System (ADS)

    Doni, Febri; Isahak, Anizan; Zain, Che Radziah Che Mohd; Sulaiman, Norela; Fathurahman, F.; Zain, Wan Nur Syazana Wan Mohd.; Kadhimi, Ahsan A.; Alhasnawi, Arshad Naji; Anhar, Azwir; Yusoff, Wan Mohtar Wan

    2016-11-01

    Trichoderma sp. is a plant growth promoting fungi in many crops. Initial observation on the ability to enhance rice germination and vigor have been reported. In this study, the effectiveness of a local isolate Trichoderma asprellum SL2 to enhance rice seedling growth was assessed experimentally under greenhouse condition using a completely randomized design. Results showed that inoculation of rice plants with Trichoderma asprellum SL2 significantly increase rice plants height, root length, wet weight, leaf number and biomass compared to untreated rice plants (control). The result of this study can serve as a reference for further work on the application of beneficial microorganisms to enhance rice production.

  7. Porous rice powder from the precipitation of gelatinized flour or starch paste with ethanol

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Hot paste obtained by autoclaving (130oC, 20 psi, 20-30 min) a 5-7% (w/w) rice flour or starch slurry was precipitated with ethanol (three extractions) to produce a dry, porous, pregelatinized powder with an average particle size of 75.0µm (flour-derived powder), and 41.6µm (starch-derived powder). ...

  8. Porous rice powder from precipitation of gelatinized flour or starch paste with ethanol

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Hot paste obtained by autoclaving (130oC, 20 psi, 20-30 min) a 5-7% (w/w) rice flour or starch slurry, was precipitated with ethanol (three extractions) to produce a dry, porous, pregelatinized powder with an average particle size of 75.0µm (flour-derived powder), and 41.6µm (starch-derived powder)....

  9. Kennedy at Rice University

    NASA Technical Reports Server (NTRS)

    1962-01-01

    President Kennedy speaks before a crowd of 35,000 people at Rice University in the football field. The following are excerpts from his speech. ' ...We set sail on his new sea because there is a new knowledge to be gained, and new rights to be won, and they must be won and used for the progress of all people. ...Whether it will become a force for good or ill depends on man, and only if the United States occupies a position of pre-eminence can we help decide whether this new ocean will be a sea of peace or a new terrifying theater of war. But I do say space can be explored and mastered without feeding the fires of war, without repeating the mistakes that man has made with extending his writ around this globe of ours. ...There is no strife, no prejudice, no national conflict in outer space as yet. Its conquest deserves the best of all mankind, and its opportunity for peaceful cooperation may never come again. But why, some say the Moon? Why choose this as our goal? And they may well ask, why climb the highest mountian? Why - 35 years ago - why fly the Atlantic? Why does Rice play Texas? We choose to go to the Moon, we choose to go to the Moon in this decade and do the other things, not because they are easy, but because they are hard, because that goal will serve to organize and measure the best of our energies and skills, because that challenge is one that we are willing to accept, one we are unwilling to postpone, and one in which we intend to win, and the others too.'

  10. Kennedy at Rice University

    NASA Technical Reports Server (NTRS)

    1962-01-01

    President Kennedy speaks before a crowd of 35,000 people at Rice University in the football field. The following are excerpts from his speech. ' ...We set sail on his new sea because there is a new knowledge to begained, and new rights to be won, and they must be won and used for the progress of all people. Whether it will become a force for good or ill depends on man, and only if the United States occupies a position of pre-eminence can we help decide whether this new ocean will be a sea of peace or a new terrifying theater of war. But I do say space can be explored and mastered without feeding the fires of war, without repeating the mistakes that man has made with extending his wirt around this globe of ours. There is no strife, no prejudice, no national conflict in outer space as yet. Its conquest deserves the best of all mankind, and its opportunity for peaceful cooperation may never come again. But why, some say the Moon? Why choose this as our goal? And they may well ask, why climb the highest mountain? Why 35 years ago why fly the Atlantic? Why does Rice play Texas? We choose to go to the Moon, we choose to go to the moon in this decade and do the other things, not because they are easy, but because they are hard, because that goal will serve to organize and measure the best of our energies and skills, because that challenge is one that we are willing to accept, one we are unwilling to postpone, and one in which we attend to win, and the others , too.'

  11. Pullulanase from rice endosperm.

    PubMed

    Yamasaki, Yoshiki; Nakashima, Susumu; Konno, Haruyoshi

    2008-01-01

    Pullulanase (EC 3.2.1.41) in non-germinating seeds was compared with that in germinating seeds. Moreover, pullulanase from the endosperm of rice (Oryza sativa L., cv. Hinohikari) seeds was isolated and its properties investigated. The pI value of pullulanase from seeds after 8 days of germination was almost equal to that from non-germinating seeds, which shows that these two enzymes are the same protein. Therefore, the same pullulanase may play roles in both starch synthesis during ripening and starch degradation during germination in rice seeds. The enzyme was isolated by a procedure that included ammonium sulfate fractionation, DEAE-cellulofine column chromatography, preparative isoelectric focusing, and preparative disc gel electrophoresis. The enzyme was homogeneous by SDS/PAGE. The molecular weight of the enzyme was estimated to be 100 000 based on its mobility on SDS/PAGE and 105 000 based on gel filtration with TSKgel super SW 3000, which showed that it was composed of a single unit. The isoelectric point of the enzyme was 4.7. The enzyme was strongly inhibited by beta-cyclodextrin. The enzyme was not activated by thiol reagents such as dithiothreitol, 2-mercaptoethanol or glutathione. The enzyme most preferably hydrolyzed pullulan and liberated only maltotriose. The pullulan hydrolysis was strongly inhibited by the substrate at a concentration higher than 0.1%. The degree of inhibition increased with an increase in the concentration of pullulan. However, the enzyme hydrolyzed amylopectin, soluble starch and beta-limit dextrin more rapidly as their concentrations increased. The enzyme exhibited alpha-glucosyltransfer activity and produced an alpha-1,6-linked compound of two maltotriose molecules from pullulan.

  12. Genetic analysis of atypical U.S. red rice phenotypes: indications of prior gene flow in rice fields?

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Red rice is a troublesome weed problem in rice fields of the southern U.S. Outcrossing between rice and red rice occurs at low rates, resulting in a broad array of plant types. SSR markers were used to evaluate the genetic backgrounds of atypical red rice types obtained from rice farms in comparis...

  13. Red rice (Oryza sativa L.) emergence characteristics and influence on rice (O. sativa) yield at different planting dates

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Cultivated rice yield losses due to red rice infestation vary by cultivar, red rice density, and duration of interference. The competition effects of red rice could be influenced further by emergence characteristics, red rice biotype, and planting time of cultivated rice. We aimed to characterize th...

  14. Plant defence suppression is mediated by a fungal sirtuin during rice infection by Magnaporthe oryzae.

    PubMed

    Fernandez, Jessie; Marroquin-Guzman, Margarita; Nandakumar, Renu; Shijo, Sara; Cornwell, Kathryn M; Li, Gang; Wilson, Richard A

    2014-10-01

    Crop destruction by the hemibiotrophic rice pathogen Magnaporthe oryzae requires plant defence suppression to facilitate extensive biotrophic growth in host cells before the onset of necrosis. How this is achieved at the genetic level is not well understood. Here, we report that a M. oryzae sirtuin, MoSir2, plays an essential role in rice defence suppression and colonization by controlling superoxide dismutase (SOD) gene expression. Loss of MoSir2 function in Δsir2 strains did not affect appressorial function, but biotrophic growth in rice cells was attenuated. Compared to wild type, Δsir2 strains failed to neutralize plant-derived reactive oxygen species (ROS) and elicited robust defence responses in rice epidermal cells that included elevated pathogenesis-related gene expression and granular depositions. Deletion of a SOD-encoding gene under MoSir2 control generated Δsod1 deletion strains that mimicked Δsir2 for impaired rice defence suppression, confirming SOD activity as a downstream output of MoSir2. In addition, comparative protein acetylation studies and forward genetic analyses identified a JmjC domain-containing protein as a likely target of MoSir2, and a Δsir2 Δjmjc double mutant was restored for MoSOD1 expression and defence suppression in rice epidermal cells. Together, this work reveals MoSir2 and MoJmjC as novel regulators of early rice cell infection.

  15. Processing Conditions, Rice Properties, Health and Environment

    PubMed Central

    Roy, Poritosh; Orikasa, Takahiro; Okadome, Hiroshi; Nakamura, Nobutaka; Shiina, Takeo

    2011-01-01

    Rice is the staple food for nearly two-thirds of the world’s population. Food components and environmental load of rice depends on the rice form that is resulted by different processing conditions. Brown rice (BR), germinated brown rice (GBR) and partially-milled rice (PMR) contains more health beneficial food components compared to the well milled rice (WMR). Although the arsenic concentration in cooked rice depends on the cooking methods, parboiled rice (PBR) seems to be relatively prone to arsenic contamination compared to that of untreated rice, if contaminated water is used for parboiling and cooking. A change in consumption patterns from PBR to untreated rice (non-parboiled), and WMR to PMR or BR may conserve about 43–54 million tons of rice and reduce the risk from arsenic contamination in the arsenic prone area. This study also reveals that a change in rice consumption patterns not only supply more food components but also reduces environmental loads. A switch in production and consumption patterns would improve food security where food grains are scarce, and provide more health beneficial food components, may prevent some diseases and ease the burden on the Earth. However, motivation and awareness of the environment and health, and even a nominal incentive may require for a method switching which may help in building a sustainable society. PMID:21776212

  16. Controls on silicon cycling in Southeast Asian rice production systems

    NASA Astrophysics Data System (ADS)

    Klotzbücher, Thimo; Marxen, Anika; Vetterlein, Doris; Jahn, Reinhold

    2013-04-01

    Recent research suggests that silicon (Si) is beneficial for rice plants, i.e., a sufficient Si supply improves their resistance against pests and pathogens and increases the uptake of essential nutrients. Despite its potential importance for rice yields, cycling of Si in rice production systems is poorly studied. We assess plant-available Si (Sipa; determined using acetate extraction) in topsoils (Ap+Arp horizons) and Si uptake by plants at 70 paddy fields managed by local farmers in contrasting regions of Vietnam and the Philippines. First results show that Sipa contents are considerably larger in Philippine (217 ± 100 mg Sipa kg-1 ) than in Vietnamese (32 ± 19 mg Sipa kg-1) paddy soils. Rice straw from the Philippines contains 8.6 ± 0.9 % Si, straw from Vietnam 5.0 ± 1.2 % Si. Laboratory experiments showed that Si is limiting the growth of rice plants in some of the Vietnamese soils. We assume that differences in geo-/ pedologic conditions between Vietnam and the Philippines explain the data. Large Sipa contents in the Philippine soils are due to recent rock formation by active volcanism, hence, by a large Sipa input due to mineral weathering in recent geologic history. In contrast, parent materials of the Vietnamese paddy soils derive from old and highly weathered land surfaces. Hence, our data suggest that geo-/pedologic conditions are the main control for the availability of Si in paddy soils. Currently, we examine the relevance of agricultural practices for small-scale differences in the availability of Si within regions. Inadequate practices, such as removal of rice straw from the fields, might deplete Sipa in paddy soils causing a decrease in rice yields in some regions of Vietnam. We investigate the role of phytoliths (amorphous Si bodies contained in rice straw) as source of Sipa in paddy soils. Our methods include laboratory experiments and the assessment of turnover times of phytoliths in paddy soils; first results will be presented and discussed

  17. Diversity of global rice markets and the science required for consumer-targeted rice breeding

    Technology Transfer Automated Retrieval System (TEKTRAN)

    With the ever-increasing global demand for high quality rice in both local production regions and with Western consumers, we have a strong desire to understand better the importance of different quality traits that make up the rice grain and obtain a full picture of rice quality demographics. Rice ...

  18. Volatiles induction in rice stink bug host grasses and rice plants

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Rice stink bug (RSB), Oebalus pugnax F., is an important pest of heading rice in the United States. Little is known about plant volatiles production following herbivory by the rice stink bug. RSB feeding induced volatiles production in different RSB host grasses and rice varieties, and may help expl...

  19. Utilization of weedy rice for development of japonica hybrid rice (Oryza sativa L.).

    PubMed

    Tang, Liang; Ma, Dian Rong; Xu, Zheng Jin; Deng, Hua Feng; Chen, Wen Fu; Yuan, Long Ping

    2011-05-01

    Two representative weedy rice lines, three typical japonica varieties and three typical indica varieties were used for 6 pairs of reciprocal crosses. The morphological traits of twelve F(1) hybrid lines, their parents and four elite cultivars were investigated for heterosis over mid-parent (HM), over parent (HP) and competitive heterosis (CH) analysis. Traits detected in weedy rice lines seemed larger than those in cultivars and excellent heterosis was produced in weedy rice crossing with japonica rice. Although weedy rice kept closer relationships with japonica rice compared to indica rice. But the heterosis of reciprocal crosses between weedy rice and japonica was closed to those of crosses between indica rice and japonica rice. In six of one hundred and eighteen weedy rice lines, the fertility restore gene for BT type cytoplasmic male sterility (BT-CMS) were detected. Weedy rice was very valuable germplasm resources with the abundant polymorphism. Meanwhile, the disadvantage, lodging, shattering and incompact plant type, should be modified by hybridization, backcross and multiple cross with japonica rice. Although it is difficult to use weedy rice directly, weedy rice may be available to breed both male sterile line and restorer line through improvement, developing japonica hybrid rice.

  20. The impact of planting date on management of the rice water weevil in Louisiana rice

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The rice water weevil, Lissorhoptrus oryzophilus, is the most destructive insect pest of rice in the United States. Early planting of rice to avoid damaging infestations of the rice water weevil has long been suggested as a management tactic. A five-year study was conducted to characterize the influ...

  1. Genetic diversity for rice grain mineral concentrations observed among genetically and geographically giverse rice accessions

    Technology Transfer Automated Retrieval System (TEKTRAN)

    With about half of the world’s people dependent on rice as their main food source, improving the nutritional value of rice could have major impact on human health. While rice in the USA is often artificially fortified, natural enhancement of the rice grain’s nutritional value, i.e. from genetic impr...

  2. Elemental composition of Malawian rice.

    PubMed

    Joy, Edward J M; Louise Ander, E; Broadley, Martin R; Young, Scott D; Chilimba, Allan D C; Hamilton, Elliott M; Watts, Michael J

    2016-07-20

    Widespread potential dietary deficiencies of calcium (Ca), iron (Fe), iodine (I), selenium (Se) and zinc (Zn) have been identified in Malawi. Several deficiencies are likely to be compounded by high phytic acid (PA) consumption. Rice (Oryza sativa) is commonly consumed in some Malawian populations, and its mineral micronutrient content is important for food security. The considerable irrigation requirements and flooded conditions of paddy soils can also introduce or mobilise potentially toxic elements including arsenic (As), cadmium (Cd) and lead (Pb). The aim of this study was to determine the mineral composition of rice sampled from farmers' fields and markets in Malawi. Rice was sampled from 18 extension planning areas across Malawi with 21 white (i.e. polished) and 33 brown samples collected. Elemental composition was determined by inductively coupled plasma-mass spectrometry (ICP-MS). Arsenic speciation was performed using high-performance liquid chromatography (HPLC)-ICP-MS. Concentration of PA was determined using a PA-total phosphorus assay. Median total concentrations (mg kg(-1), dry weight) of elements important for human nutrition in brown and white rice, respectively, were: Ca = 66.5 and 37.8; Cu = 3.65 and 2.49; Fe = 22.1 and 7.2; I = 0.006 and <0.005; Mg = 1130 and 265; Mn = 18.2 and 9.6; Se = 0.025 and 0.028; and Zn = 17.0 and 14.4. In brown and white rice samples, respectively, median PA concentrations were 5438 and 1906 mg kg(-1), and median PA:Zn molar ratios were 29 and 13. Concentrations of potentially toxic elements (mg kg(-1), dry weight) in brown and white rice samples, respectively, were: As = 0.030 and 0.006; Cd  ≤ 0.002 and 0.006; Pb = 0.008 and 0.008. Approximately 95 % of As was found to be inorganic As, where this could be quantified. Malawian rice, like the more widely consumed staple grain maize, contains inadequate Ca, I, Se or Zn to meet dietary requirements. Biofortification strategies could

  3. Wetting and reaction characteristics of crystalline and amorphous SiO2 derived rice-husk ash and SiO2/SiC substrates with Al-Si-Mg alloys

    NASA Astrophysics Data System (ADS)

    Bahrami, A.; Pech-Canul, M. I.; Gutiérrez, C. A.; Soltani, N.

    2015-12-01

    A study of the wetting behavior of three substrate types (SiC, SiO2-derived RHA and SiC/SiO2-derived RHA) by two Al-Si-Mg alloys using the sessile drop method has been conducted, using amorphous and crystalline SiO2 in the experiment. Mostly, there is a transition from non-wetting to wetting contact angles, being the lowest θ values achieved with the alloy of high Mg content in contact with amorphous SiO2. The observed wetting behavior is attributed to the deposited Mg on the substrates. A strong diffusion of Si from the SiC/Amorphous RHA substrate into the metal drop explains the free Si segregated at the drop/substrate interface and drop surface. Although incorporation of both SiO2-derived RHA structures into the SiC powder compact substrates increases the contact angles in comparison with the SiC substrate alone, the still observed acute contact angles in RHA/SiC substrates make them promising for fabrication of composites with high volume fraction of reinforcement by the pressureless infiltration technique. The observed wetting characteristics, with decrease in surface tension and contact angles is explained by surface related phenomena. Based on contact angle changes, drop dimensions and surface tension values, as well as on the interfacial elemental mapping, and XRD analysis of substrates, some wetting and reaction pathways are proposed and discussed.

  4. Rice protein-induced enterocolitis syndrome with transient specific IgE to boiled rice but not to retort-processed rice.

    PubMed

    Yasutomi, Motoko; Kosaka, Takuya; Kawakita, Akiko; Hayashi, Hisako; Okazaki, Shintaro; Murai, Hiroki; Miyagawa, Kazuhiko; Mayumi, Mitsufumi; Ohshima, Yusei

    2014-02-01

    Described herein is the case of an 8-month-old girl with atypical food protein-induced enterocolitis syndrome due to rice. She presented with vomiting and poor general activity 2 h after ingestion of boiled rice. Oral food challenge test using high-pressure retort-processed rice was negative, but re-exposure to boiled rice elicited gastrointestinal symptoms. On western blot analysis the patient's serum was found to contain IgE bound to crude protein extracts from rice seed or boiled rice, but not from retort-processed rice. The major protein bands were not detected in the electrophoresed gel of retort-processed rice extracts, suggesting decomposition by high-temperature and high-pressure processing. Oral food challenge for diagnosing rice allergy should be performed with boiled rice to avoid a false negative. Additionally, some patients with rice allergy might be able to ingest retort-processed rice as a substitute for boiled rice.

  5. Golden rice: scientific, regulatory and public information processes of a genetically modified organism.

    PubMed

    Moghissi, A Alan; Pei, Shiqian; Liu, Yinzuo

    2016-01-01

    Historically, agricultural development evolved in three phases. During the first phase the plants were selected on the basis of the availability of a plant with desirable properties at a specific location. The second phase provided the agricultural community with crossbreeding plants to achieve improvement in agricultural production. The evolution of biological knowledge has provided the ability to genetically engineer (GE) crops, one of the key processes within genetically modified organisms (GMO). This article uses golden rice, a species of transgenic Asian rice which contains a precursor of vitamin A in the edible part of the plant as an example of GE/GMO emphasizing Chinese experience in agricultural evolution. It includes a brief review of agricultural evolution to be followed by a description of golden rice development. Golden rice was created as a humanitarian project and has received positive comments by the scientific community and negative voices from certain environmental groups. In this article, we use the Best Available Science (BAS) Concept and Metrics for Evaluation of Scientific Claims (MESC) derived from it to evaluate claims and counter claims on scientific aspects of golden rice. This article concludes that opposition to golden rice is based on belief rather than any of its scientifically derived nutritional, safety or environmental properties.

  6. Structure and activity of bacterial community inhabiting rice roots and the rhizosphere.

    PubMed

    Lu, Yahai; Rosencrantz, Dirk; Liesack, Werner; Conrad, Ralf

    2006-08-01

    Root-derived carbon provides a major source for microbial production and emission of CH4 from rice field soils. Therefore, we characterized the structure and activity of the bacterial community inhabiting rice roots and the rhizosphere. In the first experiment, DNA retrieved from rice roots was analysed for bacterial 16S rRNA genes using cloning, sequencing and in situ hybridization. In the second experiment, rice plants were pulse-labelled with 13CO2 (99% of atom 13C) for 7 days, and the bacterial RNA was isolated from rhizosphere soil and subjected to density gradient centrifugation. RNA samples from density fractions were analysed by terminal restriction fragment length polymorphism fingerprinting, cloning and sequencing. The experiments showed that the dominant bacteria inhabiting rice roots and the rhizosphere particularly belonged to the Alphaproteobacteria, Betaproteobacteria and Firmicutes. The RNA stable isotope probing revealed that the bacteria actively assimilating C derived from the pulse-labelled rice plants were Azospirillum spp. (Alphaproteobacteria) and members of Burkholderiaceae (Betaproteobacteria). Both anaerobic (e.g. Clostridia) and aerobic (e.g. Comamonas) degraders were present at high abundance, indicating that root environments and degradation processes were highly heterogeneous. The relative importance of iron and sulfate reducers suggested that cycling of iron and sulfur is active in the rhizosphere.

  7. Rice develop wavy seminal roots in response to light stimulus.

    PubMed

    Wang, Shu-Jen; Ho, Chia-Hsun; Chen, Hsiang-Wen

    2011-09-01

    Rice (Oryza sativa L.) seminal roots are the primary roots to emerge from germinated seeds. Here, we demonstrate that the photomorphology of the seminal roots was diverse among rice varieties, and the light-induced wavy roots were found mostly in indica-type rice varieties. The light-induced wavy morphology in rice seminal roots has been different with curling or coiling roots in some other specific conditions, such as high air humidity or high nitrogen nutrient. The efficiency of light-induced root waving was developmental stage dependent. The wavy root phenotype was caused by asymmetric cell growth around the stele. Using the inhibitors to block auxin polar transport and fatty acid oxygenation, the role of auxin and oxylipins in the morphogenesis of light-induced wavy roots was investigated. Expressions of genes encoded in the enzymes involved in fatty acid oxygenation in light-exposed roots were monitored by reverse transcriptase-polymerase chain reaction. Our results suggested that auxin polar transport was essential for inducing wavy seminal roots by light stimulus. In addition, the ketol oxylipins derived from allene oxide synthase (EC 4.2.1.92)-mediated fatty acid oxygenation function as intracellular signals for triggering the light-induced wavy root phenotype.

  8. Genomic evolution of Saccharomyces cerevisiae under Chinese rice wine fermentation.

    PubMed

    Li, Yudong; Zhang, Weiping; Zheng, Daoqiong; Zhou, Zhan; Yu, Wenwen; Zhang, Lei; Feng, Lifang; Liang, Xinle; Guan, Wenjun; Zhou, Jingwen; Chen, Jian; Lin, Zhenguo

    2014-09-10

    Rice wine fermentation represents a unique environment for the evolution of the budding yeast, Saccharomyces cerevisiae. To understand how the selection pressure shaped the yeast genome and gene regulation, we determined the genome sequence and transcriptome of a S. cerevisiae strain YHJ7 isolated from Chinese rice wine (Huangjiu), a popular traditional alcoholic beverage in China. By comparing the genome of YHJ7 to the lab strain S288c, a Japanese sake strain K7, and a Chinese industrial bioethanol strain YJSH1, we identified many genomic sequence and structural variations in YHJ7, which are mainly located in subtelomeric regions, suggesting that these regions play an important role in genomic evolution between strains. In addition, our comparative transcriptome analysis between YHJ7 and S288c revealed a set of differentially expressed genes, including those involved in glucose transport (e.g., HXT2, HXT7) and oxidoredutase activity (e.g., AAD10, ADH7). Interestingly, many of these genomic and transcriptional variations are directly or indirectly associated with the adaptation of YHJ7 strain to its specific niches. Our molecular evolution analysis suggested that Japanese sake strains (K7/UC5) were derived from Chinese rice wine strains (YHJ7) at least approximately 2,300 years ago, providing the first molecular evidence elucidating the origin of Japanese sake strains. Our results depict interesting insights regarding the evolution of yeast during rice wine fermentation, and provided a valuable resource for genetic engineering to improve industrial wine-making strains.

  9. Quantitative trait loci for phyllochron and tillering in rice.

    PubMed

    Miyamoto, N; Goto, Y; Matsui, M; Ukai, Y; Morita, M; Nemoto, K

    2004-08-01

    Morphogenetic processes in sequentially growing leaves and tiller buds are highly synchronized in rice ( Oryza sativa L.). Consequently, the appearance of successive leaves in the main tiller acts as the "pacemaker" for the whole shoot system development. The time interval between the appearance of successive leaves (days/leaf) in the main tiller is called the 'phyllochron'. The objectives of the investigation reported here were: (1) to identify quantitative trait loci (QTLs) that control rice phyllochron and (2) to understand the roles of phyllochron QTLs as an underlying developmental factor for rice tillering. For this purpose we developed a set of recombinant inbred lines derived from a cross between IR36 ( indica) and Genjah Wangkal (tropical japonica). Composite interval mapping detected three phyllochron QTLs located on chromosomes 4, 10 and 11, where the presence of a Genjah Wangkal allele increased phyllochron. The largest QTL (on chromosome 4) was located on the genomic region syntenic to the vicinity of the maize Teopod 2 mutation, while the QTL on chromosome 10 was close to the rice plastochron 1 mutation. These three phyllochron QTLs failed to coincide with major tiller number QTLs. However, one tiller number QTL was associated with small LOD peaks for phyllochron and tiller-bud dormancy that were linked in coupling phase, suggesting that linked small effects of phyllochron and tiller-bud dormancy might result in a multiplicative effect on tiller number.

  10. Detection and diagnosis of rice-infecting viruses

    PubMed Central

    Uehara-Ichiki, Tamaki; Shiba, Takuya; Matsukura, Keiichiro; Ueno, Takanori; Hirae, Masahiro; Sasaya, Takahide

    2013-01-01

    Rice-infecting viruses have caused serious damage to rice production in Asian, American, and African countries, where about 30 rice viruses and diseases have been reported. To control these diseases, developing accurate, quick methods to detect and diagnose the viruses in the host plants and any insect vectors of the viruses is very important. Based on an antigen–antibody reaction, serological methods such as latex agglutination reaction and enzyme-linked immunosorbent assay have advanced to detect viral particles or major proteins derived from viruses. They aid in forecasting disease and surveying disease spread and are widely used for virus detection at plant protection stations and research laboratories. From the early 2000s, based on sequence information for the target virus, several other methods such as reverse transcription-polymerase chain reaction (RT-PCR) and reverse transcription-loop-mediated isothermal amplification have been developed that are sensitive, rapid, and able to differentiate closely related viruses. Recent techniques such as real-time RT-PCR can be used to quantify the pathogen in target samples and monitor population dynamics of a virus, and metagenomic analyses using next-generation sequencing and microarrays show potential for use in the diagnosis of rice diseases. PMID:24130554

  11. Genetic diversity for mycorrhizal symbiosis and phosphate transporters in rice.

    PubMed

    Jeong, Kwanho; Mattes, Nicolas; Catausan, Sheryl; Chin, Joong Hyoun; Paszkowski, Uta; Heuer, Sigrid

    2015-11-01

    Phosphorus (P) is a major plant nutrient and developing crops with higher P-use efficiency is an important breeding goal. In this context we have conducted a comparative study of irrigated and rainfed rice varieties to assess genotypic differences in colonization with arbuscular mycorrhizal (AM) fungi and expression of different P transporter genes. Plants were grown in three different soil samples from a rice farm in the Philippines. The data show that AM symbiosis in all varieties was established after 4 weeks of growth under aerobic conditions and that, in soil derived from a rice paddy, natural AM populations recovered within 6 weeks. The analysis of AM marker genes (AM1, AM3, AM14) and P transporter genes for the direct Pi uptake (PT2, PT6) and AM-mediated pathway (PT11, PT13) were largely in agreement with the observed root AM colonization providing a useful tool for diversity studies. Interestingly, delayed AM colonization was observed in the aus-type rice varieties which might be due to their different root structure and might confer an advantage for weed competition in the field. The data further showed that P-starvation induced root growth and expression of the high-affinity P transporter PT6 was highest in the irrigated variety IR66 which also maintained grain yield under P-deficient field conditions.

  12. Static headspace analysis of odorants in commercial rice proteins.

    PubMed

    Zhao, Jing; Boatright, William L

    2017-04-15

    Accurate identification of the odor-contributing compounds in aqueous slurries of rice proteins is necessary to improve their overall flavor characteristics. The objective of this study was to identify the primary odorants in rice protein slurries using static headspace analysis. Five commercial rice protein (RP) products, RP-G, RP-O, RP-RM, RP-RS1, and RP-RS2, were analyzed. RP-G contained the lowest levels of most of the odorants. Acetaldehyde was present in the highest amount in RP-O (0.434mg/m(3)). RP-RM had the highest levels of hexanal (5.907mg/m(3)), methanethiol (0.138mg/m(3)), pentanal (1.575mg/m(3)), and 2-pentylfuran (5.702mg/m(3)). Corresponding odor values were, 111, 86, 22 and 21, respectively. In RP-RS1 and RP-RS2, the predominant odorants were dimethyl disulfide, dimethyl trisulfide, and hexanal. The results showed the importance of the volatile compounds produced from amino acids, including the sulfur-containing compounds and acetaldehyde, as well as lipid oxidation derived odorants to the overall odor of rice proteins.

  13. Genomic Evolution of Saccharomyces cerevisiae under Chinese Rice Wine Fermentation

    PubMed Central

    Li, Yudong; Zhang, Weiping; Zheng, Daoqiong; Zhou, Zhan; Yu, Wenwen; Zhang, Lei; Feng, Lifang; Liang, Xinle; Guan, Wenjun; Zhou, Jingwen; Chen, Jian; Lin, Zhenguo

    2014-01-01

    Rice wine fermentation represents a unique environment for the evolution of the budding yeast, Saccharomyces cerevisiae. To understand how the selection pressure shaped the yeast genome and gene regulation, we determined the genome sequence and transcriptome of a S. cerevisiae strain YHJ7 isolated from Chinese rice wine (Huangjiu), a popular traditional alcoholic beverage in China. By comparing the genome of YHJ7 to the lab strain S288c, a Japanese sake strain K7, and a Chinese industrial bioethanol strain YJSH1, we identified many genomic sequence and structural variations in YHJ7, which are mainly located in subtelomeric regions, suggesting that these regions play an important role in genomic evolution between strains. In addition, our comparative transcriptome analysis between YHJ7 and S288c revealed a set of differentially expressed genes, including those involved in glucose transport (e.g., HXT2, HXT7) and oxidoredutase activity (e.g., AAD10, ADH7). Interestingly, many of these genomic and transcriptional variations are directly or indirectly associated with the adaptation of YHJ7 strain to its specific niches. Our molecular evolution analysis suggested that Japanese sake strains (K7/UC5) were derived from Chinese rice wine strains (YHJ7) at least approximately 2,300 years ago, providing the first molecular evidence elucidating the origin of Japanese sake strains. Our results depict interesting insights regarding the evolution of yeast during rice wine fermentation, and provided a valuable resource for genetic engineering to improve industrial wine-making strains. PMID:25212861

  14. Thermal characteristics of ohmically heated rice starch and rice flours.

    PubMed

    An, H J; King, J M

    2007-01-01

    Thermal properties of conventionally and ohmically heated rice starch and rice flours at various frequencies and voltages were studied. There was an increase in gelatinization temperature for conventionally heated rice starches since they were pregelatinized and became more rigid due to starch-chain interactions. In addition, there was a decrease in enthalpy (energy needed) for conventionally and ohmically heated starches during gelatinization; thus, the samples required less energy for gelatinization during DSC analysis. Ohmically heated commercial starch showed the greatest decrease in enthalpy probably because of the greatest extent of pregelatinization through ohmic heating. Brown rice flour showed the greatest gelatinization temperature resulting from the delay of starch granule swelling by lipid and protein. Enthalpy of ohmically heated starches at 20 V/cm was the lowest, which was most likely due to the lower voltage resulting in a more complete pregelatinization from a longer heating time required to reach 100 degrees C. Ohmic treatment at 70 V/cm decreased onset gelatinization temperature of white flour; therefore, it produced rice flour that swelled faster, whereas the conventionally heated sample showed a better thermal resistance.

  15. Soluble starch synthase I effects differences in amylopectin structure between indica and japonica rice varieties.

    PubMed

    Takemoto-Kuno, Yoko; Suzuki, Keitaro; Nakamura, Sumiko; Satoh, Hikaru; Ohtsubo, Keníchi

    2006-11-29

    The effect of soluble starch synthase I (SSI) on differences of amylopectin structure between the indica and japonica rice varieties was investigated. Native-PAGE/active staining analysis showed that the SSI activity of an indica rice variety, "Kasalath", was significantly lower than that of a japonica rice variety, "Nipponbare", and that the low activity in "Kasalath" was maintained during seed development. The result of northern blot analyses suggests that the low expression of SSI in "Kasalath" is controlled at the transcription levels of SSI mRNA. Chain length distribution of amylopectin in F3 endosperms derived from a cross between two varieties showed that not only SSIIa but also SSI regulated the population of short chains. These results indicate that the low activity of SSI gives rise to the decrease of short chains in amylopectin of indica rice varieties, suggesting that SSI effects the differences in physicochemical properties between two varieties.

  16. Over-expression of PsGPD, a mushroom glyceraldehyde-3-phosphate dehydrogenase gene, enhances salt tolerance in rice plants.

    PubMed

    Cho, Jung-Il; Lim, Hye-Min; Siddiqui, Zamin Shaheed; Park, Sung-Han; Kim, A-Ram; Kwon, Taek-Ryoun; Lee, Seong-Kon; Park, Soo-Chul; Jeong, Mi-Jeong; Lee, Gang-Seob

    2014-08-01

    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.

  17. Methane emissions from global rice fields: Magnitude, spatiotemporal patterns, and environmental controls

    NASA Astrophysics Data System (ADS)

    Zhang, Bowen; Tian, Hanqin; Ren, Wei; Tao, Bo; Lu, Chaoqun; Yang, Jia; Banger, Kamaljit; Pan, Shufen

    2016-09-01

    Given the importance of the potential positive feedback between methane (CH4) emissions and climate change, it is critical to accurately estimate the magnitude and spatiotemporal patterns of CH4 emissions from global rice fields and better understand the underlying determinants governing the emissions. Here we used a coupled biogeochemical model in combination with satellite-derived contemporary inundation area to quantify the magnitude and spatiotemporal variation of CH4 emissions from global rice fields and attribute the environmental controls of CH4 emissions during 1901-2010. Our study estimated that CH4 emissions from global rice fields varied from 18.3 ± 0.1 Tg CH4/yr (Avg. ±1 SD) under intermittent irrigation to 38.8 ± 1.0 Tg CH4/yr under continuous flooding in the 2000s, indicating that the magnitude of CH4 emissions from global rice fields is largely dependent on different water schemes. Over the past 110 years, our simulated results showed that global CH4 emissions from rice cultivation increased by 85%. The expansion of rice fields was the dominant factor for the increasing trends of CH4 emissions, followed by elevated CO2 concentration, and nitrogen fertilizer use. On the contrary, climate variability had reduced the cumulative CH4 emissions for most of the years over the study period. Our results imply that CH4 emissions from global rice fields could be reduced through optimizing irrigation practices. Therefore, the future magnitude of CH4 emissions from rice fields will be determined by the human demand for rice production as well as the implementation of optimized water management practices.

  18. Mapping QTLs for traits related to salinity tolerance at seedling stage of rice (Oryza sativa L.): an agrigenomics study of an Iranian rice population.

    PubMed

    Ghomi, Khadijeh; Rabiei, Babak; Sabouri, Hossein; Sabouri, Atefeh

    2013-05-01

    Rice (Oryza sativa L.) is one of the most important food crops in the world, especially in Asian countries, and salinity is a major constraint to the sustainability and expansion of rice cultivation. Genetically improving salt tolerance of rice is a highly important objective of rice breeding programs. Traits such as salt tolerance are quantitatively inherited. Hence, mapping quantitative trait loci (QTL) with molecular markers can be very helpful to plant breeders in the field of agricultural genomics (AgriGenomics). In this investigation, QTL analysis of physiological traits related to salt tolerance was carried out using F2:4 population of rice derived from a cross between a salt-tolerant variety, Gharib (indica), and a salt-sensitive variety, Sepidroud (indica). A linkage map based on 148 F2 individuals was constructed with 131 SSR markers and 105 AFLP markers, covering 2475.7 cM of rice genome with an average distance of 10.48 cM between flanking markers. A total of 41 QTLs for twelve physiological traits under salinity stress were detected distributed on all rice chromosomes, some of them being reported for the first time. Also, overlapping of QTLs related to salt tolerance were observed in this study. Some of the identified QTLs on specific chromosomal regions explaining high phenotypic variance could be used for marker-assisted selection (MAS) programs. New QTLs retrieved in this study play an important role in growth of rice at seedling stage in an Iranian local population under high salinity conditions.

  19. Golden Rice: introducing the beta-carotene biosynthesis pathway into rice endosperm by genetic engineering to defeat vitamin A deficiency.

    PubMed

    Beyer, Peter; Al-Babili, Salim; Ye, Xudong; Lucca, Paola; Schaub, Patrick; Welsch, Ralf; Potrykus, Ingo

    2002-03-01

    To obtain a functioning provitamin A (beta-carotene) biosynthetic pathway in rice endosperm, we introduced in a single, combined transformation effort the cDNA coding for phytoene synthase (psy) and lycopene beta-cyclase (beta-lcy) both from Narcissus pseudonarcissus and both under the control of the endosperm-specific glutelin promoter together with a bacterial phytoene desaturase (crtI, from Erwinia uredovora under constitutive 35S promoter control). This combination covers the requirements for beta-carotene synthesis and, as hoped, yellow beta-carotene-bearing rice endosperm was obtained in the T(0)-generation. Additional experiments revealed that the presence of beta-lcy was not necessary, because psy and crtI alone were able to drive beta-carotene synthesis as well as the formation of further downstream xanthophylls. Plausible explanations for this finding are that these downstream enzymes are constitutively expressed in rice endosperm or are induced by the transformation, e.g., by enzymatically formed products. Results using N. pseudonarcissus as a model system led to the development of a hypothesis, our present working model, that trans-lycopene or a trans-lycopene derivative acts as an inductor in a kind of feedback mechanism stimulating endogenous carotenogenic genes. Various institutional arrangements for disseminating Golden Rice to research institutes in developing countries also are discussed.

  20. New market opportunities for rice grains

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Breeding efforts for rice have been focusing on increasing yield and improving quality (milling yield and grain quality), while maintaining cooked rice sensory properties to meet consumer preferences. These breeding targets will no doubt continue as the main foci for the rice industry. However, the ...

  1. Rice aroma and flavor: a literature review.

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The aroma and flavor of cooked rice are major criteria for preference among consumers. Small variations in these sensory properties can make rice highly desired or unacceptable to consumers. Human sensory analyses have identified over a dozen different aromas and flavors in rice. Instrumental ana...

  2. Understanding rice heterosis using deep sequencing

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Heterosis is a complex biological phenomenon where the offspring show better performance compared to the inbred parents. Although rice breeders have used heterosis in hybrid rice production for nearly 40 years, the genetic and molecular mechanism underlying the heterosis in rice is still poorly und...

  3. Is ALL Rice Bran Created Equal?

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Consumption of whole grain rice is increasing in the U.S. This increase is likely due to increased consumer awareness of the importance of whole grains in the diet. Whole grain rice is superior nutritionally compared to milled rice because, except for carbohyrates, it contains more phytochemicals an...

  4. A rice-based soluble form of a murine TNF-specific llama variable domain of heavy-chain antibody suppresses collagen-induced arthritis in mice.

    PubMed

    Abe, Michiyo; Yuki, Yoshikazu; Kurokawa, Shiho; Mejima, Mio; Kuroda, Masaharu; Park, Eun Jeong; Scheller, Jürgen; Nakanishi, Ushio; Kiyono, Hiroshi

    2014-04-10

    Tumor necrosis factor alpha (TNF) plays a pivotal role in chronic inflammatory diseases such as rheumatoid arthritis and Crohn's disease. Although anti-TNF antibody therapy is now commonly used to treat patients suffering from these inflammatory conditions, the cost of treatment continues to be a concern. Here, we developed a rice transgenic system for the production of a llama variable domain of a heavy-chain antibody fragment (VHH) specific for mouse TNF in rice seeds (MucoRice-mTNF-VHH). MucoRice-mTNF-VHH was produced at high levels in the rice seeds when we used our most recent transgene-overexpression system with RNA interference technology that suppresses the production of major rice endogenous storage proteins while enhancing the expression of the transgene-derived protein. Production levels of mTNF-VHH in rice seeds reached an average of 1.45% (w/w). Further, approximately 91% of mTNF-VHH was released easily when the powder form of MucoRice-mTNF-VHH was mixed with PBS. mTNF-VHH purified by means of single-step gel filtration from rice PBS extract showed high neutralizing activity in an in vitro mTNF cytotoxicity assay using WEHI164 cells. In addition, purified mTNF-VHH suppressed progression of collagen-induced arthritis in mice. These results show that this rice-expression system is useful for the production of neutralizing VHH antibody specific for mTNF.

  5. Development and Evaluation of Chromosome Segment Substitution Lines Carrying Overlapping Chromosome Segments of the Whole Wild Rice Genome

    PubMed Central

    Yang, Dewei; Ye, Xinfu; Zheng, Xianghua; Cheng, Chaoping; Ye, Ning; Huang, Fenghuang

    2016-01-01

    Common wild rice (Oryza rufipogon Griff.) represents an important resource for rice improvement. Genetic populations provide the basis for a wide range of genetic and genomic studies. In particular, chromosome segment substitution lines (CSSLs) are most powerful tools for the detection and precise mapping of quantitative trait loci (QTLs). In this study, 146 CSSLs were produced; they were derived from the crossing and back-crossing of two rice cultivars: Dongnanihui 810 (Oryza sativa L.), an indica rice cultivar as the recipient, and ZhangPu wild rice, a wild rice cultivar as the donor. First, a physical map of the 146 CSSLs was constructed using 149 molecular markers. Based on this map, the total size of the 147 substituted segments in the population was 1145.65 Mb, or 3.04 times that of the rice genome. To further facilitate gene mapping, heterozygous chromosome segment substitution lines (HCSSLs) were also produced, which were heterozygous in the target regions. Second, a physical map of the 244 HCSSLs was produced using 149 molecular markers. Based on this map, the total length of substituted segments in the HCSSLs was 1683.75 Mb, or 4.47 times the total length of the rice genome. Third, using the 146 CSSLs, two QTLs for plant height, and one major QTL for apiculus coloration were identified. Using the two populations of HCSSLs, the qPa-6-2 gene was precisely mapped to an 88 kb region. These CSSLs and HCSSLs may, therefore, provide powerful tools for future whole genome large-scale gene discovery in wild rice, providing a foundation enabling the development of new rice varieties. This research will also facilitate fine mapping and cloning of quantitative trait genes, providing for the development of superior rice varieties. PMID:27933072

  6. Red Yeast Rice

    PubMed Central

    Nguyen, Thu; Karl, Mitchell; Santini, Antonello

    2017-01-01

    Red yeast rice (RYR), produced by the fermentation of the Monascus purpureus mold, has been used for a long time in Asian cuisine and traditional medicine. It consists of multiple bioactive substances, including monacolins, which potentially can be used as a nutraceutical. Monacolin K, which is chemically identical to lovastatin, has been recognized as responsible for the cholesterol-reducing effect of this compound. While the European Food Safety Authority maintains that the use of monacolin K from RYR preparations of at least 10 mg can produce a normal blood cholesterol level, the United States Food and Drug Administration considers monacolin K, due to its similarity with lovastatin, an unapproved drug, and therefore marketing of products that label the monacolin content is prohibited. This mini-review summarizes the benefit of RYR in hyperlipidemia, maintains RYR use as a food, and addresses the importance of regulation regarding RYR and the need for clinical data and clear label information for consumers with reference to a toxin-free, non-augmented, standardized amount of monacolins. PMID:28257063

  7. Different pathogenicities of Rice stripe virus from the insect vector and from viruliferous plants.

    PubMed

    Zhao, Wan; Yang, Pengcheng; Kang, Le; Cui, Feng

    2016-04-01

    Persistent plant viruses usually depend on insects for their transmission; they cannot be transmitted between plants or through mechanical inoculation. However, the mechanism by which persistent viruses become pathogenic in insect vectors remains unknown. In this study, we used Rice stripe virus (RSV), its insect vector Laodelphax striatellus and host plant (Oryza sativa) to explore how persistent viruses acquire pathogenicity from insect vectors. RSV acquired phytopathogenicity in both the alimentary tract and the salivary gland of L. striatellus. We mechanically inoculated RSV into rice O. sativa leaves through midrib microinjection. Insect-derived RSV induced a typical stripe symptom, whereas plant-derived RSV only produced chlorosis in rice leaves. Insect-derived RSV had higher expression of genes rdrp, ns2, nsvc2, sp and nsvc4 than plant-derived RSV, and the latter had higher expression of genes cp and ns3 than the former in rice leaves. Different from plant-derived RSV, insect-derived RSV damaged grana stacks within the chloroplast and inhibited photosynthesis by suppressing the photosystem II subunit psbp. This study not only presented a convenient method to mechanically inoculate RSV into plants, but also provided insights into the different pathogenic mechanisms of RSV from the insect vector and from viruliferous plants.

  8. Breeding of a target genotype variety based on identified chalkiness marker-QTL associations in rice (Oryza sativa L.).

    PubMed

    Liu, X; Du, Y R; Li, X H; Li, X L; Yang, W Q; Wang, Y

    2015-10-21

    The aim of this study was to breed a target genotype variety based on the identified chalkiness marker-QTL (quantitative trait locus) associations in rice. First, a permanent mapping population of rice that consisted of 525 recombinant inbred lines (RILs), which were derived from Zhenshan 97/Minghui 63, was used to identify QTLs with additive effects for rice quantitative traits and percentage of grain chalkiness (PGC). Subsequently, based on the identified QTLs in rice, the molecular marker 68923-PGC was selected to screen the low chalkiness rice line. Then, using the integration of molecular marker breeding and traditional breeding, we analyzed the genotype and phenotype of inbred lines from 525 RILs; we identified one rice variety with particularly high yields, good taste, and broad adaptability. The new variety was temporarily named RIL10, which was a high quality, high yield, and broadly adaptable variety, and it is predominantly a feature that has contributed to its geographical adaptability, which would be planted from 35°E to 18°E in Chinain China, where 2/3 of rice production occurs. RIL10 was a marker-assisted selection breeding achievement for producing a high quality, high yield, and broadly adaptable rice variety.

  9. Characterization of mercury species in brown and white rice (Oryza sativa L.) grown in water-saving paddies.

    PubMed

    Rothenberg, Sarah E; Feng, Xinbin; Dong, Bin; Shang, Lihai; Yin, Runsheng; Yuan, Xiaobo

    2011-05-01

    In China, total Hg (HgT) and methylmercury (MeHg) were quantified in rice grain grown in three sites using water-saving rice cultivation methods, and in one Hg-contaminated site, where rice was grown under flooded conditions. Polished white rice concentrations of HgT (water-saving: 3.3±1.6 ng/g; flooded: 110±9.2 ng/g) and MeHg (water-saving 1.3±0.56 ng/g; flooded: 12±2.4 ng/g) were positively correlated with root-soil HgT and MeHg contents (HgT: r2=0.97, MeHg: r2=0.87, p<0.05 for both), which suggested a portion of Hg species in rice grain was derived from the soil, and translocation of Hg species from soil to rice grain was independent of irrigation practices and Hg levels, although other factors may be important. Concentrations of HgT and other trace elements were significantly higher in unmilled brown rice (p<0.05), while MeHg content was similar (p>0.20), indicating MeHg infiltrated the endosperm (i.e., white rice) more efficiently than inorganic Hg(II).

  10. Mercury methylation in rice paddies and its possible controlling factors in the Hg mining area, Guizhou province, Southwest China.

    PubMed

    Zhao, Lei; Qiu, Guangle; Anderson, Christopher W N; Meng, Bo; Wang, Dingyong; Shang, Lihai; Yan, Haiyu; Feng, Xinbin

    2016-08-01

    Understanding mercury (Hg) methylation/demethylation processes and the factors controlling methylmercury (MeHg) production within the rice paddy ecosystem of Hg mining areas is critical to assess the risk of MeHg contamination in rice grain. Two typical Hg-contaminated mining sites, a current-day artisanal site (Gouxi) and an abandoned site (Wukeng), were chosen in this study. We qualified the in situ specific methylation/demethylation rate constants in rice paddy soil during a complete rice-growing season. Our results demonstrate that MeHg levels in rice paddy soil were a function of both methylation and demethylation processes and the net methylation potential in the rice paddy soil reflected the measured MeHg production at any time point. Sulfate stimulating the activity of sulfate-reducing bacteria was a potentially important metabolic pathway for Hg methylation in rice paddies. We suggest that bioavailable Hg derived from new atmospheric deposition appears to be the primary factor regulating net MeHg production in rice paddies.

  11. Rice, indica (Oryza sativa L.).

    PubMed

    Hiei, Yukoh; Ishida, Yuji; Komari, Toshihiko

    2015-01-01

    Indica varieties, which are generally recalcitrant to tissue culture and transformation, occupy 80 % of rice cultivation area in the world. Therefore, transformation method for indica rice must be improved greatly so that global rice production would take full advantage of cutting-edge biotechnology. An efficient protocol for indica transformation mediated by Agrobacterium tumefaciens is hereby described. Immature embryos collected from plants in a greenhouse are cocultivated with A. tumefaciens after pretreatment with heat and centrifuging. The protocol was successfully tested in many elite indica cultivars such as IR8, IR24, IR58025B, IR64, IR72, Suweon 258, and Nanjing 11, yielding between 5 and 15 of independent transgenic plants per immature embryo. The use of immature embryos is recommended because gene transfer to them could be much more efficient and much less genotype dependent than gene transfer to callus.

  12. Rice epigenomics and epigenetics: challenges and opportunities.

    PubMed

    Chen, Xiangsong; Zhou, Dao-Xiu

    2013-05-01

    During recent years rice genome-wide epigenomic information such as DNA methylation and histone modifications, which are important for genome activity has been accumulated. The function of a number of rice epigenetic regulators has been studied, many of which are found to be involved in a diverse range of developmental and stress-responsive pathways. Analysis of epigenetic variations among different rice varieties indicates that epigenetic modification may lead to inheritable phenotypic variation. Characterizing phenotypic consequences of rice epigenomic variations and the underlining chromatin mechanism and identifying epialleles related to important agronomic traits may provide novel strategies to enhance agronomically favorable traits and grain productivity in rice.

  13. Tillering and panicle branching genes in rice.

    PubMed

    Liang, Wei-hong; Shang, Fei; Lin, Qun-ting; Lou, Chen; Zhang, Jing

    2014-03-01

    Rice (Oryza sativa L.) is one of the most important staple food crops in the world, and rice tillering and panicle branching are important traits determining grain yield. Since the gene MONOCULM 1 (MOC 1) was first characterized as a key regulator in controlling rice tillering and branching, great progress has been achieved in identifying important genes associated with grain yield, elucidating the genetic basis of yield-related traits. Some of these important genes were shown to be applicable for molecular breeding of high-yielding rice. This review focuses on recent advances, with emphasis on rice tillering and panicle branching genes, and their regulatory networks.

  14. Plausible rice yield losses under future climate warming.

    PubMed

    Zhao, Chuang; Piao, Shilong; Wang, Xuhui; Huang, Yao; Ciais, Philippe; Elliott, Joshua; Huang, Mengtian; Janssens, Ivan A; Li, Tao; Lian, Xu; Liu, Yongwen; Müller, Christoph; Peng, Shushi; Wang, Tao; Zeng, Zhenzhong; Peñuelas, Josep

    2016-12-19

    Rice is the staple food for more than 50% of the world's population(1-3). Reliable prediction of changes in rice yield is thus central for maintaining global food security. This is an extraordinary challenge. Here, we compare the sensitivity of rice yield to temperature increase derived from field warming experiments and three modelling approaches: statistical models, local crop models and global gridded crop models. Field warming experiments produce a substantial rice yield loss under warming, with an average temperature sensitivity of -5.2 ± 1.4% K(-1). Local crop models give a similar sensitivity (-6.3 ± 0.4% K(-1)), but statistical and global gridded crop models both suggest less negative impacts of warming on yields (-0.8 ± 0.3% and -2.4 ± 3.7% K(-1), respectively). Using data from field warming experiments, we further propose a conditional probability approach to constrain the large range of global gridded crop model results for the future yield changes in response to warming by the end of the century (from -1.3% to -9.3% K(-1)). The constraint implies a more negative response to warming (-8.3 ± 1.4% K(-1)) and reduces the spread of the model ensemble by 33%. This yield reduction exceeds that estimated by the International Food Policy Research Institute assessment (-4.2 to -6.4% K(-1)) (ref. 4). Our study suggests that without CO2 fertilization, effective adaptation and genetic improvement, severe rice yield losses are plausible under intensive climate warming scenarios.

  15. Iron biofortification of myanmar rice.

    PubMed

    Aung, May Sann; Masuda, Hiroshi; Kobayashi, Takanori; Nakanishi, Hiromi; Yamakawa, Takashi; Nishizawa, Naoko K

    2013-01-01

    Iron (Fe) deficiency elevates human mortality rates, especially in developing countries. In Myanmar, the prevalence of Fe-deficient anemia in children and pregnant women are 75 and 71%, respectively. Myanmar people have one of the highest per capita rice consumption rates globally. Consequently, production of Fe-biofortified rice would likely contribute to solving the Fe-deficiency problem in this human population. To produce Fe-biofortified Myanmar rice by transgenic methods, we first analyzed callus induction and regeneration efficiencies in 15 varieties that are presently popular because of their high-yields or high-qualities. Callus formation and regeneration efficiency in each variety was strongly influenced by types of culture media containing a range of 2,4-dichlorophenoxyacetic acid concentrations. The Paw San Yin variety, which has a high-Fe content in polished seeds, performed well in callus induction and regeneration trials. Thus, we transformed this variety using a gene expression cassette that enhanced Fe transport within rice plants through overexpression of the nicotianamine synthase gene HvNAS1, Fe flow to the endosperm through the Fe(II)-nicotianamine transporter gene OsYSL2, and Fe accumulation in endosperm by the Fe storage protein gene SoyferH2. A line with a transgene insertion was successfully obtained. Enhanced expressions of the introduced genes OsYSL2, HvNAS1, and SoyferH2 occurred in immature T2 seeds. The transformants accumulated 3.4-fold higher Fe concentrations, and also 1.3-fold higher zinc concentrations in T2 polished seeds compared to levels in non-transgenic rice. This Fe-biofortified rice has the potential to reduce Fe-deficiency anemia in millions of Myanmar people without changing food habits and without introducing additional costs.

  16. Objective evaluation of whiteness of cooked rice and rice cakes using a portable spectrophotometer.

    PubMed

    Goto, Hajime; Asanome, Noriyuki; Suzuki, Keitaro; Sano, Tomoyoshi; Saito, Hiroshi; Abe, Yohei; Chuba, Masaru; Nishio, Takeshi

    2014-03-01

    The whiteness of cooked rice and rice cakes was evaluated using a portable spectrophotometer with a whiteness index (WI). Also, by using boiled rice for measurement of Mido values by Mido Meter, it was possible to infer the whiteness of cooked rice without rice cooking. In the analysis of varietal differences of cooked rice, 'Tsuyahime', 'Koshihikari' and 'Koshinokaori' showed high whiteness, while 'Satonoyuki' had inferior whiteness. The whiteness of rice cakes made from 'Koyukimochi' and 'Dewanomochi' was higher than the whiteness of those made from 'Himenomochi' and 'Koganemochi'. While there was a significant correlation (r = 0.84) between WI values and whiteness scores of cooked rice by the sensory test, no correlation was detected between the whiteness scores and Mido values, indicating that the values obtained by a spectrophotometer differ from those obtained by a Mido Meter. Thus, a spectrophotometer may be a novel device for measurement of rice eating quality.

  17. The Glycemic Index of Rice and Rice Products: A Review, and Table of GI Values.

    PubMed

    Kaur, Bhupinder; Ranawana, Viren; Henry, Jeyakumar

    2016-01-01

    Rice is the principle staple and energy source for nearly half the world's population and therefore has significant nutrition and health implications. Rice is generally considered a high glycemic index (GI) food, however, this depends on varietal, compositional, processing, and accompaniment factors. Being a major contributor to the glycemic load in rice eating populations, there is increasing concern that the rising prevalence of insulin resistance is as a result of the consumption of large amounts of rice. Devising ways and means of reducing the glycemic impact of rice is therefore imperative. This review gathers studies examining the GI of rice and rice products and provides a critical overview of the current state of the art. A table collating published GI values for rice and rice products is also included.

  18. Incorporating rice residues into paddy soils affects methylmercury accumulation in rice.

    PubMed

    Zhu, Huike; Zhong, Huan; Wu, Jialu

    2016-06-01

    Paddy fields are characterized by frequent organic input (e.g., fertilization and rice residue amendment), which may affect mercury biogeochemistry and bioaccumulation. To explore potential effects of rice residue amendment on methylmercury (MMHg) accumulation in rice, a mercury-contaminated paddy soil was amended with rice root (RR), rice straw (RS) or composted rice straw (CS), and planted with rice. Incorporating RS or CS increased grain MMHg concentration by 14% or 11%. The observed increases could be attributed to the elevated porewater MMHg levels and thus enhanced MMHg uptake by plants, as well as increased MMHg translocation to grain within plants. Our results indicated for the first time that rice residue amendment could significantly affect MMHg accumulation in rice grain, which should be considered in risk assessment of MMHg in contaminated areas.

  19. Impacts of seeding rate on interactions between rice and rice water weevils.

    PubMed

    Stout, M J; Harrell, D; Tindall, K V; Bond, J

    2009-10-01

    The rice water weevil, Lissorhoptrus oryzophilus Kuschel, is the most widely distributed and destructive early season insect pest of rice, Oryza sativa L., in the United States. Economic losses result primarily from feeding by the larval stage of this insect on the roots of flooded rice plants. Prior studies suggest that infestations of rice water weevil larvae are more severe at low plant densities. Moreover, because feeding by the rice water weevil reduces rice plant tillering, a process particularly important to yield at low seeding rates, infestations by weevil larvae may have a greater impact on rice yields when rice is seeded at low rates. In total, six experiments were conducted over a 3-yr period in Louisiana and Missouri to investigate the impacts of rice seeding rate on levels of infestations by, and yield losses from, the rice water weevil. An inverse relationship between seeding rate and densities of rice water weevil larvae and pupae on a per area basis was found in two of the six experiments. Furthermore, in two of the three experiments conducted with 'Bengal' (a susceptible cultivar) in Louisiana, percentages of yield loss were significantly higher at lower seeding rates than at higher seeding rates. Overall, these results indicate that rice sown at low rates is more vulnerable to infestation by rice water weevils and more susceptible to yield losses from weevil injury. The significance of these findings in light of recent trends toward the use of lower seeding rates in drill-seeded rice is discussed.

  20. Remote Sensing Based Methane Emission Inventory Vis-A-Vis Rice Cultural Types Of South Asia

    NASA Astrophysics Data System (ADS)

    Manjunath, K. R.; More, R.; Chauhan, P.; Vyas, A.; Panigrahy, S.; Parihar, J. S.

    2014-11-01

    Rice cultivation has been recognized as one of the major anthropogenic source for methane (CH4) emissions which is a microbial mediated anaerobic activity, mainly favoured by the flooded conditions in the rice fields. Information available on CH4 emission is limited, especially in a spatial domain, mainly because of the complexity involved in generating such data. The current approach demonstrates the use of secondary data sources available on the methane emission scaling factors, coupled with the information derived on rice cultural types and crop calendar. Methane emission from each type of rice field was firstly calculated by multiplying the emission factor by the corresponding cultivation area and length of cropping period. The values were then extrapolated over each country with respect to the rice area and crop duration for under each cultural type. The rice cultural type wise methane emission value for South Asia was derived by summation of individual emission values for the respective cultural type within each country. The total methane emission derived for South Asia region is (4.7817 Tg/yr). The mean methane emission estimates derived for each country are viz. India (3.3860 Tg/yr), Bangladesh (0.9136 Tg/yr), Pakistan (0.2675 Tg/yr), Sri Lanka (0.1073 Tg/yr) and Nepal (0.1074 Tg/yr). The derived methane emission estimates could be used to study the regional variations within the country and also to adopt the mitigation strategies to combat the high methane emission values within specific cultural type by means of altering the farming practise or water regime.

  1. Confirming stereochemical structures of strigolactones produced by rice and tobacco.

    PubMed

    Xie, Xiaonan; Yoneyama, Kaori; Kisugi, Takaya; Uchida, Kenichi; Ito, Seisuke; Akiyama, Kohki; Hayashi, Hideo; Yokota, Takao; Nomura, Takahito; Yoneyama, Koichi

    2013-01-01

    Major strigolactones (SLs) produced by rice (Oryza sativa L. cv. Nipponbare) and tobacco (Nicotiana tabacum L. cv. Michinoku No. 1) were purified and their stereochemical structures were determined by comparing with optically pure synthetic standards for their NMR and CD data and retention times and mass fragmentations in ESI-LC/MS and GC-MS. SLs purified from root exudates of rice plants were orobanchol, orobanchyl acetate, and ent-2'-epi-5-deoxystrigol. In addition to these SLs, 7-oxoorobanchyl acetate and the putative three methoxy-5-deoxystrigol isomers were detected by LC-MS/MS. The production of 7-oxoorobanchyl acetate seemed to occur in the early growth stage, as it was detected only in the root exudates collected during the first week of incubation. The root exudates of tobacco contained at least 11 SLs, including solanacol, solanacyl acetate, orobanchol, ent-2'-epi-orobanchol, orobanchyl acetate, ent-2'-epi-orobanchyl acetate, 5-deoxystrigol, ent-2'-epi-5-deoxystrigol, and three isomers of putative didehydro-orobanchol whose structures remain to be clarified. Furthermore, two sorgolactone isomers but not sorgolactone were detected as minor SLs by LC-MS/MS analysis. It is intriguing to note that rice plants produced only orobanchol-type SLs, derived from ent-2'-epi-5-deoxystrigol, but both orobanchol-type and strigol-type SLs, derived from 5-deoxystrigol were detected in tobacco plants.

  2. Weedy (red) rice: An emerging constraint to global rice production

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Ongoing increases in the human population necessitate that rice will continue to be an essential aspect of food security for the 21st century. While production must increase in the coming decades to meet demand, such increases will be accompanied by diminished natural resources and rising productio...

  3. Insights into molecular mechanism of blast resistance in weedy rice

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Weedy rice is a serious pest in direct-seeded rice fields in the U.S. and worldwide. Under suitable conditions, weedy rice can reduce crop yields up to 70%. However, weedy rice may carry novel disease resistance genes. Rice blast disease caused by the fungus Magnaporthe oryzae is a major disease wo...

  4. Rice Annotation Project Database (RAP-DB): an integrative and interactive database for rice genomics.

    PubMed

    Sakai, Hiroaki; Lee, Sung Shin; Tanaka, Tsuyoshi; Numa, Hisataka; Kim, Jungsok; Kawahara, Yoshihiro; Wakimoto, Hironobu; Yang, Ching-chia; Iwamoto, Masao; Abe, Takashi; Yamada, Yuko; Muto, Akira; Inokuchi, Hachiro; Ikemura, Toshimichi; Matsumoto, Takashi; Sasaki, Takuji; Itoh, Takeshi

    2013-02-01

    The Rice Annotation Project Database (RAP-DB, http://rapdb.dna.affrc.go.jp/) has been providing a comprehensive set of gene annotations for the genome sequence of rice, Oryza sativa (japonica group) cv. Nipponbare. Since the first release in 2005, RAP-DB has been updated several times along with the genome assembly updates. Here, we present our newest RAP-DB based on the latest genome assembly, Os-Nipponbare-Reference-IRGSP-1.0 (IRGSP-1.0), which was released in 2011. We detected 37,869 loci by mapping transcript and protein sequences of 150 monocot species. To provide plant researchers with highly reliable and up to date rice gene annotations, we have been incorporating literature-based manually curated data, and 1,626 loci currently incorporate literature-based annotation data, including commonly used gene names or gene symbols. Transcriptional activities are shown at the nucleotide level by mapping RNA-Seq reads derived from 27 samples. We also mapped the Illumina reads of a Japanese leading japonica cultivar, Koshihikari, and a Chinese indica cultivar, Guangluai-4, to the genome and show alignments together with the single nucleotide polymorphisms (SNPs) and gene functional annotations through a newly developed browser, Short-Read Assembly Browser (S-RAB). We have developed two satellite databases, Plant Gene Family Database (PGFD) and Integrative Database of Cereal Gene Phylogeny (IDCGP), which display gene family and homologous gene relationships among diverse plant species. RAP-DB and the satellite databases offer simple and user-friendly web interfaces, enabling plant and genome researchers to access the data easily and facilitating a broad range of plant research topics.

  5. Seed Priming with Selenium: Consequences for Emergence, Seedling Growth, and Biochemical Attributes of Rice.

    PubMed

    Khaliq, Abdul; Aslam, Farhena; Matloob, Amar; Hussain, Saddam; Geng, Mingjian; Wahid, Abdul; ur Rehman, Hafeez

    2015-08-01

    The present study was undertaken to appraise the role of selenium priming for improving emergence and seedling growth of basmati rice. Seeds of two fine rice cultivars (Super and Shaheen Basmati) were primed with concentrations of 15, 30, 45, 60, 75, 90, and 105 μmol L(-1) selenium. Untreated dry- and hydro-primed seeds were maintained as the control and positive control, respectively. Selenium priming resulted in early commencement of emergence, triggered seedling growth irrespective of rice cultivar over untreated control, and was more effective than hydro-priming except at higher concentrations. Lower electrical conductivity of seed leachates, reduced lipid peroxidation, greater α-amylase activity, higher soluble sugars, and enhanced activities of enzymatic antioxidants (superoxide dismutase (SOD), peroxidase (POX), catalase (CAT), and glutathione peroxidase (GPX)) were observed in seeds primed with selenium. Rice seedlings derived from selenium-primed seeds exhibited more chlorophyll contents, while total phenolics were comparable with those of the control seedlings. The improved starch metabolism, greater membrane stability, and increased activity of antioxidants were considered as possible mechanisms responsible for such improvements in emergence and seedling vigor of rice mediated by selenium priming. Priming with selenium (15-60 μmol L(-1)) favored rice emergence and seedling growth. Nevertheless, soaking seeds in relatively concentrated (90 and 105 μmol L(-1)) selenium solution had overall detrimental effects.

  6. Abscisic acid interacts antagonistically with salicylic acid signaling pathway in rice-Magnaporthe grisea interaction.

    PubMed

    Jiang, Chang-Jie; Shimono, Masaki; Sugano, Shoji; Kojima, Mikiko; Yazawa, Katsumi; Yoshida, Riichiro; Inoue, Haruhiko; Hayashi, Nagao; Sakakibara, Hitoshi; Takatsuji, Hiroshi

    2010-06-01

    Plant hormones play pivotal signaling roles in plant-pathogen interactions. Here, we report characterization of an antagonistic interaction of abscisic acid (ABA) with salicylic acid (SA) signaling pathways in the rice-Magnaporthe grisea interaction. Exogenous application of ABA drastically compromised the rice resistance to both compatible and incompatible M. grisea strains, indicating that ABA negatively regulates both basal and resistance gene-mediated blast resistance. ABA markedly suppressed the transcriptional upregulation of WRKY45 and OsNPR1, the two key components of the SA signaling pathway in rice, induced by SA or benzothiadiazole or by blast infection. Overexpression of OsNPR1 or WRKY45 largely negated the enhancement of blast susceptibility by ABA, suggesting that ABA acts upstream of WRKY45 and OsNPR1 in the rice SA pathway. ABA-responsive genes were induced during blast infection in a pattern reciprocal to those of WRKY45 and OsPR1b in the compatible rice-blast interaction but only marginally in the incompatible one. These results suggest that the balance of SA and ABA signaling is an important determinant for the outcome of the rice-M. grisea interaction. ABA was detected in hyphae and conidia of M. grisea as well as in culture media, implying that blast-fungus-derived ABA could play a role in triggering ABA signaling at host infection sites.

  7. Agriculture Education. Soybeans and Rice.

    ERIC Educational Resources Information Center

    Stuttgart Public Schools, AR.

    This curriculum guide is designed for group instruction of secondary students enrolled in one or two semester-long courses in agricultural education. The guide presents units of study in the following areas: (1) soybeans, (2) rice, and (3) orientation. Each of the 17 units of instruction follows a typical format: terminal objective, specific…

  8. Energy use pattern in rice milling industries-a critical appraisal.

    PubMed

    Goyal, S K; Jogdand, S V; Agrawal, A K

    2014-11-01

    Rice milling industry is one of the most energy consuming industries. Like capital, labour and material, energy is one of the production factors which used to produce final product. In economical term, energy is demand-derived goods and can be regarded as intermediate good whose demand depends on the demand of final product. This paper deals with various types of energy pattern used in rice milling industries viz., thermal energy, mechanical energy, electrical energy and human energy. The important utilities in a rice mill are water, air, steam, electricity and labour. In a rice mill some of the operations are done manually namely, cleaning, sun drying, feeding paddy to the bucket elevators, weighing and packaging, etc. So the man-hours are also included in energy accounting. Water is used for soaking and steam generation. Electricity is the main energy source for these rice mills and is imported form the state electricity board grids. Electricity is used to run motors, pumps, blowers, conveyors, fans, lights, etc. The variations in the consumption rate of energy through the use of utilities during processing must also accounted for final cost of the finished product. The paddy milling consumes significant quantity of fuels and electricity. The major energy consuming equipments in the rice milling units are; boilers and steam distribution, blowers, pumps, conveyers, elevators, motors, transmission systems, weighing, etc. Though, wide variety of technologies has been evolved for efficient use of energy for various equipments of rice mills, so far, only a few have improved their energy efficiency levels. Most of the rice mills use old and locally available technologies and are also completely dependent on locally available technical personnel.

  9. Dynamic Regulation of Auxin Response during Rice Development Revealed by Newly Established Hormone Biosensor Markers

    PubMed Central

    Yang, Jing; Yuan, Zheng; Meng, Qingcai; Huang, Guoqiang; Périn, Christophe; Bureau, Charlotte; Meunier, Anne-Cécile; Ingouff, Mathieu; Bennett, Malcolm J.; Liang, Wanqi; Zhang, Dabing

    2017-01-01

    The hormone auxin is critical for many plant developmental processes. Unlike the model eudicot plant Arabidopsis (Arabidopsis thaliana), auxin distribution and signaling in rice tissues has not been systematically investigated due to the absence of suitable auxin response reporters. In this study we observed the conservation of auxin signaling components between Arabidopsis and model monocot crop rice (Oryza sativa), and generated complementary types of auxin biosensor constructs, one derived from the Aux/IAA-based biosensor DII-VENUS but constitutively driven by maize ubiquitin-1 promoter, and the other termed DR5-VENUS in which a synthetic auxin-responsive promoter (DR5rev) was used to drive expression of the yellow fluorescent protein (YFP). Using the obtained transgenic lines, we observed that during the vegetative development, accumulation of DR5-VENUS signal was at young and mature leaves, tiller buds and stem base. Notably, abundant DR5-VENUS signals were observed in the cytoplasm of cortex cells surrounding lateral root primordia (LRP) in rice. In addition, auxin maxima and dynamic re-localization were seen at the initiation sites of inflorescence and spikelet primordia including branch meristems (BMs), female and male organs. The comparison of these observations among Arabidopsis, rice and maize suggests the unique role of auxin in regulating rice lateral root emergence and reproduction. Moreover, protein localization of auxin transporters PIN1 homologs and GFP tagged OsAUX1 overlapped with DR5-VENUS during spikelet development, helping validate these auxin response reporters are reliable markers in rice. This work firstly reveals the direct correspondence between auxin distribution and rice reproductive and root development at tissue and cellular level, and provides high-resolution auxin tools to probe fundamental developmental processes in rice and to establish links between auxin, development and agronomical traits like yield or root architecture. PMID

  10. Rice production in relation to soil quality under different rice-based cropping systems

    NASA Astrophysics Data System (ADS)

    Tran Ba, Linh; Sleutel, Steven; Nguyen Van, Qui; Thi, Guong Vo; Le Van, Khoa; Cornelis, Wim

    2016-04-01

    Soil quality of shallow paddy soils may be improved by introducing upland crops and thus a more diverse crop cultivation pattern. Yet, the causal relationship between crop performance and enhanced soil traits in rice-upland crop rotations remains elusive. The objectives of this study were to (i) find correlations among soil properties under different rice-upland crop systems and link selected soil properties to rice growth and yield, (ii) present appropriate values of soil parameters for sustainable rice productivity in heavy clay soil, (iii) evaluate the effect of rotating rice with upland crops on rice yield and economic benefit in a long-term experiment. A rice-upland crop rotational field experiment in the Vietnamese Mekong delta was conducted for 10 years using a randomized complete block design with four treatments and four replications. Treatments were: (i) rice-rice-rice (control - conventional system as farmers' practice), (ii) rice-maize-rice, (iii) rice-mung bean-rice, and (iv) rice-mung bean-maize. Soil and plant sampling were performed after harvest of the rice crop at the end of the final winter-spring cropping season (i.e. year 10). Results show differences in rice growth and yield, and economic benefit as an effect of the crop rotation system. These differences were linked with changes in bulk density, soil porosity, soil aggregate stability index, soil penetration resistance, soil macro-porosity, soil organic carbon, acid hydrolysable soil C and soil nutrient elements, especially at soil depth of 20-30 cm. This is evidenced by the strong correlation (P < 0.01) between rice plant parameters, rice yield and soil properties such as bulk density, porosity, penetration resistance, soil organic carbon and Chydrolysable. It turned out that good rice root growth and rice yield corresponded to bulk density values lower than 1.3 Mg m-3, soil porosity higher than 50%, penetration resistance below 1.0 MPa, and soil organic carbon above 25 g kg-1. The optimal

  11. Mapping paddy rice planting areas through time series analysis of MODIS land surface temperature and vegetation index data

    NASA Astrophysics Data System (ADS)

    Zhang, Geli; Xiao, Xiangming; Dong, Jinwei; Kou, Weili; Jin, Cui; Qin, Yuanwei; Zhou, Yuting; Wang, Jie; Menarguez, Michael Angelo; Biradar, Chandrashekhar

    2015-08-01

    Knowledge of the area and spatial distribution of paddy rice is important for assessment of food security, management of water resources, and estimation of greenhouse gas (methane) emissions. Paddy rice agriculture has expanded rapidly in northeastern China in the last decade, but there are no updated maps of paddy rice fields in the region. Existing algorithms for identifying paddy rice fields are based on the unique physical features of paddy rice during the flooding and transplanting phases and use vegetation indices that are sensitive to the dynamics of the canopy and surface water content. However, the flooding phenomena in high latitude area could also be from spring snowmelt flooding. We used land surface temperature (LST) data from the Moderate Resolution Imaging Spectroradiometer (MODIS) sensor to determine the temporal window of flooding and rice transplantation over a year to improve the existing phenology-based approach. Other land cover types (e.g., evergreen vegetation, permanent water bodies, and sparse vegetation) with potential influences on paddy rice identification were removed (masked out) due to their different temporal profiles. The accuracy assessment using high-resolution images showed that the resultant MODIS-derived paddy rice map of northeastern China in 2010 had a high accuracy (producer and user accuracies of 92% and 96%, respectively). The MODIS-based map also had a comparable accuracy to the 2010 Landsat-based National Land Cover Dataset (NLCD) of China in terms of both area and spatial pattern. This study demonstrated that our improved algorithm by using both thermal and optical MODIS data, provides a robust, simple and automated approach to identify and map paddy rice fields in temperate and cold temperate zones, the northern frontier of rice planting.

  12. Mapping paddy rice planting areas through time series analysis of MODIS land surface temperature and vegetation index data

    PubMed Central

    Zhang, Geli; Xiao, Xiangming; Dong, Jinwei; Kou, Weili; Jin, Cui; Qin, Yuanwei; Zhou, Yuting; Wang, Jie; Menarguez, Michael Angelo; Biradar, Chandrashekhar

    2016-01-01

    Knowledge of the area and spatial distribution of paddy rice is important for assessment of food security, management of water resources, and estimation of greenhouse gas (methane) emissions. Paddy rice agriculture has expanded rapidly in northeastern China in the last decade, but there are no updated maps of paddy rice fields in the region. Existing algorithms for identifying paddy rice fields are based on the unique physical features of paddy rice during the flooding and transplanting phases and use vegetation indices that are sensitive to the dynamics of the canopy and surface water content. However, the flooding phenomena in high latitude area could also be from spring snowmelt flooding. We used land surface temperature (LST) data from the Moderate Resolution Imaging Spectroradiometer (MODIS) sensor to determine the temporal window of flooding and rice transplantation over a year to improve the existing phenology-based approach. Other land cover types (e.g., evergreen vegetation, permanent water bodies, and sparse vegetation) with potential influences on paddy rice identification were removed (masked out) due to their different temporal profiles. The accuracy assessment using high-resolution images showed that the resultant MODIS-derived paddy rice map of northeastern China in 2010 had a high accuracy (producer and user accuracies of 92% and 96%, respectively). The MODIS-based map also had a comparable accuracy to the 2010 Landsat-based National Land Cover Dataset (NLCD) of China in terms of both area and spatial pattern. This study demonstrated that our improved algorithm by using both thermal and optical MODIS data, provides a robust, simple and automated approach to identify and map paddy rice fields in temperate and cold temperate zones, the northern frontier of rice planting. PMID:27667901

  13. Aerobic rice mechanization: techniques for crop establishment

    NASA Astrophysics Data System (ADS)

    Khusairy, K. M.; Ayob, H.; Chan, C. S.; Fauzi, M. I. Mohamed; Mohamad Fakhrul, Z. O.; Shahril Shah, G. S. M.; Azlan, O.; Rasad, M. A.; Hashim, A. M.; Arshad, Z.; E, E. Ibrahim; Saifulizan, M. N.

    2015-12-01

    Rice being the staple food crops, hundreds of land races in it makes the diversity of rice crops. Aerobic rice production was introduced which requires much less water input to safeguard and sustain the rice production and conserve water due to decreasing water resources, climatic changes and competition from urban and industrial users. Mechanization system plays an important role for the success of aerobic rice cultivation. All farming activities for aerobic rice production are run on aerobic soil conditions. Row seeder mechanization system is developed to replace conventional seeding technique on the aerobic rice field. It is targeted for small and the large scale aerobic rice farmers. The aero - seeder machine is used for the small scale aerobic rice field, while the accord - seeder is used for the large scale aerobic rice field. The use of this mechanization machine can eliminate the tedious and inaccurate seeding operations reduce labour costs and increases work rate. The machine is easy to operate and it can increase crop establishment rate. It reduce missing hill, increasing planting and crop with high yield can be produce. This machine is designed for low costs maintenance and it is easy to dismantle and assemble during maintenance and it is safe to be used.

  14. Suppression of the rice fatty-acid desaturase gene OsSSI2 enhances resistance to blast and leaf blight diseases in rice.

    PubMed

    Jiang, Chang-Jie; Shimono, Masaki; Maeda, Satoru; Inoue, Haruhiko; Mori, Masaki; Hasegawa, Morifumi; Sugano, Shoji; Takatsuji, Hiroshi

    2009-07-01

    Fatty acids and their derivatives play important signaling roles in plant defense responses. It has been shown that suppressing a gene for stearoyl acyl carrier protein fatty-acid desaturase (SACPD) enhances the resistance of Arabidopsis (SSI2) and soybean to multiple pathogens. In this study, we present functional analyses of a rice homolog of SSI2 (OsSSI2) in disease resistance of rice plants. A transposon insertion mutation (Osssi2-Tos17) and RNAi-mediated knockdown of OsSSI2 (OsSSI2-kd) reduced the oleic acid (18:1) level and increased that of stearic acid (18:0), indicating that OsSSI2 is responsible for fatty-acid desaturase activity. These plants displayed spontaneous lesion formation in leaf blades, retarded growth, slight increase in endogenous free salicylic acid (SA) levels, and SA/benzothiadiazole (BTH)-specific inducible genes, including WRKY45, a key regulator of SA/BTH-induced resistance, in rice. Moreover, the OsSSI2-kd plants showed markedly enhanced resistance to the blast fungus Magnaporthe grisea and leaf-blight bacteria Xanthomonas oryzae pv. oryzae. These results suggest that OsSSI2 is involved in the negative regulation of defense responses in rice, as are its Arabidopsis and soybean counterparts. Microarray analyses identified 406 genes that were differentially expressed (>or=2-fold) in OsSSI2-kd rice plants compared with wild-type rice and, of these, approximately 39% were BTH responsive. Taken together, our results suggest that induction of SA-responsive genes, including WRKY45, is likely responsible for enhanced disease resistance in OsSSI2-kd rice plants.

  15. Rice domestication: histories and mysteries.

    PubMed

    Gross, Briana L

    2012-09-01

    Domesticated rice (Oryza sativa) is one of the world's most important food crops, culturally, nutritionally and economically (Khush 1997). Thus, it is no surprise that there is intense curiosity about its genetic and geographical origins, its response to selection under domestication, and the genetic structure of its wild relative, Oryza rufipogon. Studies of Oryza attempting to answer these questions have accompanied each stage of the development of molecular markers, starting with allozymes and continuing to genome sequencing. While many of these studies have been restricted to small sample sizes, in terms of either the number of markers used or the number and distribution of the accessions, costs are now low enough that researchers are including large numbers of molecular markers and accessions. How will these studies relate to previous findings and long-held assumptions about rice domestication and evolution? If the paper in this issue of Molecular Ecology (Huang et al. 2012) is any indication, there will be some considerable surprises in store. In this study, a geographically and genomically thorough sampling of O. rufipogon and O. sativa revealed two genetically distinct groups of wild rice and also indicated that only one of these groups appears to be related to domesticated rice. While this fits well with previous studies indicating that there are genetic subdivisions within O. rufipogon, it stands in contrast to previous findings that the two major varieties of O. sativa (indica and japonica) were domesticated from two (or more) subpopulations of wild rice.

  16. RiceFREND: a platform for retrieving coexpressed gene networks in rice.

    PubMed

    Sato, Yutaka; Namiki, Nobukazu; Takehisa, Hinako; Kamatsuki, Kaori; Minami, Hiroshi; Ikawa, Hiroshi; Ohyanagi, Hajime; Sugimoto, Kazuhiko; Itoh, Jun-Ichi; Antonio, Baltazar A; Nagamura, Yoshiaki

    2013-01-01

    Similarity of gene expression across a wide range of biological conditions can be efficiently used in characterization of gene function. We have constructed a rice gene coexpression database, RiceFREND (http://ricefrend.dna.affrc.go.jp/), to identify gene modules with similar expression profiles and provide a platform for more accurate prediction of gene functions. Coexpression analysis of 27 201 genes was performed against 815 microarray data derived from expression profiling of various organs and tissues at different developmental stages, mature organs throughout the growth from transplanting until harvesting in the field and plant hormone treatment conditions, using a single microarray platform. The database is provided with two search options, namely, 'single guide gene search' and 'multiple guide gene search' to efficiently retrieve information on coexpressed genes. A user-friendly web interface facilitates visualization and interpretation of gene coexpression networks in HyperTree, Cytoscape Web and Graphviz formats. In addition, analysis tools for identification of enriched Gene Ontology terms and cis-elements provide clue for better prediction of biological functions associated with the coexpressed genes. These features allow users to clarify gene functions and gene regulatory networks that could lead to a more thorough understanding of many complex agronomic traits.

  17. Isoflavone content and profile comparisons of cooked soybean-rice mixtures: electric rice cooker versus electric pressure rice cooker.

    PubMed

    Chung, Ill-Min; Yu, Bo-Ra; Park, Inmyoung; Kim, Seung-Hyun

    2014-12-10

    This study examined the effects of heat and pressure on the isoflavone content and profiles of soybeans and rice cooked together using an electric rice cooker (ERC) and an electric pressure rice cooker (EPRC). The total isoflavone content of the soybean-rice mixture after ERC and EPRC cooking relative to that before cooking was ∼90% in soybeans and 14-15% in rice. Malonylglucosides decreased by an additional ∼20% in EPRC-cooked soybeans compared to those cooked using the ERC, whereas glucosides increased by an additional ∼15% in EPRC-cooked soybeans compared to those in ERC-cooked soybeans. In particular, malonylgenistin was highly susceptible to isoflavone conversion during soybean-rice cooking. Total genistein and total glycitein contents decreased in soybeans after ERC and EPRC cooking, whereas total daidzein content increased in EPRC-cooked soybeans (p < 0.05). These results may be useful for improving the content of nutraceuticals, such as isoflavones, in soybeans.

  18. Tier I Rice Model - Version 1.0 - Guidance for Estimating Pesticide Concentrations in Rice Paddies

    EPA Pesticide Factsheets

    Describes a Tier I Rice Model (Version 1.0) for estimating surface water exposure from the use of pesticides in rice paddies. The concentration calculated can be used for aquatic ecological risk and drinking water exposure assessments.

  19. Discrimination of Transgenic Rice containing the Cry1Ab Protein using Terahertz Spectroscopy and Chemometrics

    NASA Astrophysics Data System (ADS)

    Xu, Wendao; Xie, Lijuan; Ye, Zunzhong; Gao, Weilu; Yao, Yang; Chen, Min; Qin, Jianyuan; Ying, Yibin

    2015-07-01

    Spectroscopic techniques combined with chemometrics methods have proven to be effective tools for the discrimination of objects with similar properties. In this work, terahertz time-domain spectroscopy (THz-TDS) combined with discriminate analysis (DA) and principal component analysis (PCA) with derivative pretreatments was performed to differentiate transgenic rice (Hua Hui 1, containing the Cry1Ab protein) from its parent (Ming Hui 63). Both rice samples and the Cry1Ab protein were ground and pressed into pellets for terahertz (THz) measurements. The resulting time-domain spectra were transformed into frequency-domain spectra, and then, the transmittances of the rice and Cry1Ab protein were calculated. By applying the first derivative of the THz spectra in conjunction with the DA model, the discrimination of transgenic from non-transgenic rice was possible with accuracies up to 89.4% and 85.0% for the calibration set and validation set, respectively. The results indicated that THz spectroscopic techniques and chemometrics methods could be new feasible ways to differentiate transgenic rice.

  20. Discrimination of Transgenic Rice containing the Cry1Ab Protein using Terahertz Spectroscopy and Chemometrics

    PubMed Central

    Xu, Wendao; Xie, Lijuan; Ye, Zunzhong; Gao, Weilu; Yao, Yang; Chen, Min; Qin, Jianyuan; Ying, Yibin

    2015-01-01

    Spectroscopic techniques combined with chemometrics methods have proven to be effective tools for the discrimination of objects with similar properties. In this work, terahertz time-domain spectroscopy (THz-TDS) combined with discriminate analysis (DA) and principal component analysis (PCA) with derivative pretreatments was performed to differentiate transgenic rice (Hua Hui 1, containing the Cry1Ab protein) from its parent (Ming Hui 63). Both rice samples and the Cry1Ab protein were ground and pressed into pellets for terahertz (THz) measurements. The resulting time-domain spectra were transformed into frequency-domain spectra, and then, the transmittances of the rice and Cry1Ab protein were calculated. By applying the first derivative of the THz spectra in conjunction with the DA model, the discrimination of transgenic from non-transgenic rice was possible with accuracies up to 89.4% and 85.0% for the calibration set and validation set, respectively. The results indicated that THz spectroscopic techniques and chemometrics methods could be new feasible ways to differentiate transgenic rice. PMID:26154950

  1. QTL pyramiding for improving of cold tolerance at fertilization stage in rice.

    PubMed

    Shinada, Hiroshi; Iwata, Natsuko; Sato, Takashi; Fujino, Kenji

    2014-03-01

    Vigorous cold tolerance at the fertilization stage (CTF) is a very important characteristic for stable rice production in cold temperature conditions. Because CTF is a quantitatively inherited trait, pyramiding quantitative trait loci (QTLs) using marker-assisted selection (MAS) is effective for improving CTF levels in rice breeding programs. We previously identified three QTLs controlling CTF, qCTF7, qCTF8 and qCTF12, using backcrossed inbred lines derived from a cross between rice cultivar Eikei88223 (vigorous CTF) and Suisei (very weak CTF). However, pyramiding of these QTLs for the application of MAS in practical rice breeding programs have not yet been elucidated. In this study, we examined the effect of pyramiding QTLs for improvement of CTF level using eight possible genotype classes from the 152 F3 population derived from a cross between Eikei88223 and Suisei. Increasing of CTF levels in combinations between qCTF7 and qCTF12 and between qCTF8 and qCTF12 were detected. Furthermore, we compared the haplotype pattern around the QTLs for CTF among the rice cultivars from Hokkaido. These results are useful for improvement of new cultivars with high CTF levels using MAS and identification of genetic resources with the novel QTL(s) for CTF.

  2. Detection and quantification of trace elements in rice and rice products using x-ray fluorescence

    NASA Astrophysics Data System (ADS)

    Foran, Kelly A.; Fleming, David E. B.

    2015-12-01

    We used X-ray fluorescence (XRF) to examine the presence of arsenic (As) and other trace elements (manganese, iron, nickel, copper, and zinc) in rice and rice products. A portable XRF analyzer was used to test samples, and amplitudes for the analyzed elements were identified in the resulting data. The detection limit of the system was sufficiently low to detect As in some rice and rice product samples.

  3. Molecular mapping of a novel gene, Grh5, conferring resistance to green rice leafhopper (Nephotettix cincticeps Uhler) in rice, Oryza sativa L.

    PubMed

    Fujita, Daisuke; Doi, Kazuyuki; Yoshimura, Atsushi; Yasui, Hideshi

    2006-08-01

    The green rice leafhopper (GRH), Nephotettix cincticeps Uhler, is one of the most serious insect pests affecting cultivated rice (Oryza sativa L.) in temperate regions of East Asia. An accession of the wild rice species, Oryza rufipogon Griff. (W1962), was found to be highly resistant to GRH by an antibiosis test. To understand the genetic basis of the GRH resistance, a BC1F1 population derived from a cross between a susceptible Japonica variety, Taichung 65 (T65), and a highly resistant accession W1962 was analyzed by quantitative trait loci (QTL) mapping. A single major QTL for GRH resistance was detected on rice chromosome 8. A nearly isogenic population containing segments of the targeted QTL region derived from W1962 was then developed through advanced backcrossing with marker-assisted selection. Further molecular mapping using a BC4F2 population revealed that a new resistance gene, designated as Green rice leafhopper resistance 5 (Grh5), was located on the distal region of the long arm of chromosome 8 and tightly linked to the simple sequence repeat markers RM3754 and RM3761. A nearly isogenic line (NIL) carrying Grh5 was subsequently developed in the progeny of the mapping population. The resistance level of Grh5-NIL was compared with those of developed NILs for GRH resistance and was found to have the highest resistance. The DNA markers found to be closely linked to Grh5 would be useful for marker-assisted selection for the improvement of resistance to GRH in rice.

  4. The role of momilactones in rice allelopathy.

    PubMed

    Kato-Noguchi, Hisashi; Peters, Reuben J

    2013-02-01

    Large field screening programs and laboratory experiments in many countries have indicated that rice is allelopathic and releases allelochemical(s) into its environment. A number of compounds, such as phenolic acids, fatty acids, phenylalkanoic acids, hydroxamic acids, terpenes, and indoles, have been identified as potential rice allelochemicals. However, the studies reviewed here demonstrate that the labdane-related diterpenoid momilactones are the most important, with momilactone B playing a particularly critical role. Rice plants secrete momilactone B from their roots into the neighboring environments over their entire life cycle at phytotoxic levels, and momilactone B seems to account for the majority of the observed rice allelopathy. In addition, genetic studies have shown that selective removal of the momilactones only from the complex mixture found in rice root exudates significantly reduces allelopathy, demonstrating that these serve as allelochemicals, the importance of which is reflected in the presence of a dedicated momilactone biosynthetic gene cluster in the rice genome.

  5. Oscillating Transcriptome during Rice-Magnaporthe Interaction.

    PubMed

    Sharma, T R; Das, Alok; Thakur, Shallu; Devanna, B N; Singh, Pankaj Kumar; Jain, Priyanka; Vijayan, Joshitha; Kumar, Shrawan

    2016-01-01

    Rice blast disease caused by the fungus, Magnaporthe oryzae, is one of the most devastating diseases of rice. Deciphering molecular mechanism of host-pathogen interactions is of great importance in devising disease management strategies. Transcription being the first step for gene regulation in eukaryotes, basic understanding of the transcriptome is sine qua non for devising effective management strategy. The availability of genome sequences of rice and M. oryzae has facilitated the process to a large extent. The current review summarizes recent understanding of rice-blast pathosystem, application of transcriptomics approaches to understand the interactions employing different platforms, major determinants in the interaction and possibility of using certain candidate for conditioning enhanced disease resistance (Effector Triggered Immunity and PAMP Triggered Immunity) and downstream signalling in rice. A better understanding of the interaction elements and effective strategies hold potential to reduce yield losses in rice caused by M. oryzae.

  6. Novel transgenic rice-based vaccines.

    PubMed

    Azegami, Tatsuhiko; Itoh, Hiroshi; Kiyono, Hiroshi; Yuki, Yoshikazu

    2015-04-01

    Oral vaccination can induce both systemic and mucosal antigen-specific immune responses. To control rampant mucosal infectious diseases, the development of new effective oral vaccines is needed. Plant-based vaccines are new candidates for oral vaccines, and have some advantages over the traditional vaccines in cost, safety, and scalability. Rice seeds are attractive for vaccine production because of their stability and resistance to digestion in the stomach. The efficacy of some rice-based vaccines for infectious, autoimmune, and other diseases has been already demonstrated in animal models. We reported the efficacy in mice, safety, and stability of a rice-based cholera toxin B subunit vaccine called MucoRice-CTB. To advance MucoRice-CTB for use in humans, we also examined its efficacy and safety in primates. The potential of transgenic rice production as a new mucosal vaccine delivery system is reviewed from the perspective of future development of effective oral vaccines.

  7. Characterizing irrigation water requirements for rice production from the Arkansas Rice Research Verification Program

    Technology Transfer Automated Retrieval System (TEKTRAN)

    This study investigated rice irrigation water use in the University of Arkansas Rice Research Verification Program between the years of 2003 and 2011. Irrigation water use averaged 747 mm (29.4 inches) over the nine years. A significant 40% water savings was reported for rice grown under a zero gr...

  8. Effects of rice harvest moisture on kernel damage and milled rice surface free fatty acid levels.

    PubMed

    Parker, Amanda M; Proctor, Andrew; Eason, Robert L; Jain, Vishal

    2007-01-01

    Surface free fatty acid (FFA) on milled rice is a key factor in determining rice quality and acceptability to the brewing industry. Rice FFA oxidizes, causing off-flavors and odors to develop, compromising the brewing quality of milled rice. The effect of harvest moisture (13%, 16%, and 20%), harvester type (1688 Case and 9500 John Deere), and rice variety (Cocodrie and Bengal) on harvest damaged rough rice and milled rice surface FFA after drying to 12% moisture and 6 mo rough rice storage was examined. The Case harvester produced more damaged kernels than the John Deere harvester, but this was not reflected in surface FFA development. There were no significant FFA differences in variety or harvester type. Rice harvested at a higher moisture content (20%) produced significantly greater FFA values, with a peak near 0.1%, than rice harvested at lower moisture contents (13% and 16%), which had FFA values near 0.08%. Retention of bran by damaged kernels at high harvest moisture probably was responsible for promoting surface FFA development, but if bran was lost at lower harvest moistures, surface FFA, development was limited. Harvest moisture affected milled rice FFA, although rough rice was dried to 12% immediately after harvesting.

  9. Global Gene Expression of Rice after Infections with Rice Blast and Sheath blight Pathogens

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Rice (Oryza sativa) production worldwide has been challenged by increased new virulent pathogens. Over the years, genetic diversity needed for fighting diseases has been decreasing in cultivated rice around the globe. This presents a real challenge for rice crop protection. In an effort to develo...

  10. Effect of volunteer rice infestation on grain quality and yield of rice

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Volunteer rice (Oryza sativa L.) plants arise from shattered seeds of the previous crop, which could reduce the yield of cultivated rice and the commercial value of harvested grain. Volunteer rice plants from a cultivar other than the current crop produce grains that may differ in physico-chemical t...

  11. Relative competitive ability of rice with strawhull and blackhull red rice biotypes

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Weed interference depends largely upon the species composition of the weed community and an ability to compete with the cultured crop. Weedy red rice is a major weed pest of rice in the southern U.S. The focus of this study was to evaluate the competitive ability of rice against common, genetically ...

  12. Introgression of Clearfield(TM) rice crop traits into weedy red rice outcrosses

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Studies were conducted to determine the impact of introgression of crop alleles into weedy rice populations. Seeds of 89 weedy rice accessions collected from Arkansas fields in 11 counties, with a history of Clearfield(TM) rice production, were planted in 2011 and treated with two applications of im...

  13. Development of genome-wide PCR-based markers from insertion, deletion and single nucleotide polymorphisms for closely related Japanese rice cultivars and identification of QTLs for the appearance of cooked rice and polished rice

    PubMed Central

    Kinoshita, Noriko; Takano, Sho; Shimoda, Naomi; Takamure, Itsuro; Sato, Takashi; Kato, Kiyoaki

    2016-01-01

    Appearance of rice grain is an important property, affecting its acceptance by consumers. Moreover, appearance is a complex characteristic involving many components, including glossiness and whiteness. The genetic bases for the glossiness of cooked rice and the whiteness of polished rice (WPR) were determined using 133 recombinant inbred lines (RILs) derived from a cross between two closely related cultivars from Hokkaido, Joiku462, with high glossiness and whiteness, and Yukihikari, an ancestor of Joiku462 with low glossiness and whiteness. Analyses identified 167 genome-wide InDel markers, five cleaved amplified polymorphic sequences (CAPS) and eight derived CAPS markers differentiating the parental lines. The glossiness area (GLA) and glossiness strength (GLS) of cooked rice and WPR were determined for RILs in two locations, Pippu and Sapporo, Hokkaido. Four QTLs were detected. qGLA10 and qGLS9 were detected on chromosomes 10 and 9, respectively, with both being significant at both geographic locations. qWPR1 on chromosome 1 was significant at Pippu, and qWPR4 on chromosome 4 was significant at Sapporo. The Joiku462 alleles at all QTLs increased each trait. The PCR-based markers flanking these four QTLs may be useful for improvement of GLA, GLS and WPR. PMID:28163590

  14. Metaproteomic identification of diazotrophic methanotrophs and their localization in root tissues of field-grown rice plants.

    PubMed

    Bao, Zhihua; Okubo, Takashi; Kubota, Kengo; Kasahara, Yasuhiro; Tsurumaru, Hirohito; Anda, Mizue; Ikeda, Seishi; Minamisawa, Kiwamu

    2014-08-01

    In a previous study by our group, CH4 oxidation and N2 fixation were simultaneously activated in the roots of wild-type rice plants in a paddy field with no N input; both processes are likely controlled by a rice gene for microbial symbiosis. The present study examined which microorganisms in rice roots were responsible for CH4 oxidation and N2 fixation under the field conditions. Metaproteomic analysis of root-associated bacteria from field-grown rice (Oryza sativa Nipponbare) revealed that nitrogenase complex-containing nitrogenase reductase (NifH) and the alpha subunit (NifD) and beta subunit (NifK) of dinitrogenase were mainly derived from type II methanotrophic bacteria of the family Methylocystaceae, including Methylosinus spp. Minor nitrogenase proteins such as Methylocella, Bradyrhizobium, Rhodopseudomonas, and Anaeromyxobacter were also detected. Methane monooxygenase proteins (PmoCBA and MmoXYZCBG) were detected in the same bacterial group of the Methylocystaceae. Because these results indicated that Methylocystaceae members mediate both CH4 oxidation and N2 fixation, we examined their localization in rice tissues by using catalyzed reporter deposition-fluorescence in situ hybridization (CARD-FISH). The methanotrophs were localized around the epidermal cells and vascular cylinder in the root tissues of the field-grown rice plants. Our metaproteomics and CARD-FISH results suggest that CH4 oxidation and N2 fixation are performed mainly by type II methanotrophs of the Methylocystaceae, including Methylosinus spp., inhabiting the vascular bundles and epidermal cells of rice roots.

  15. Total and inorganic arsenic in Iranian rice.

    PubMed

    Cano-Lamadrid, Marina; Munera-Picazo, Sandra; Burló, Francisco; Hojjati, Mohammad; Carbonell-Barrachina, Ángel A

    2015-05-01

    It is well known that arsenic (As) exposure, particularly to inorganic species (i-As), has adverse effects on humans. Nowadays, the European Union (EU) has still not regulated the maximum residue limit of As in commercial samples of rice and rice-based products, although it is actively working on the topic. The European Food Safety Authority (EFSA) is collecting data on total arsenic (t-As) and i-As from different rice-producing regions not only from EU countries but also from other parts of the world to finally set up this maximum threshold. As Iran is a rice-producing country, the aim of this work was to evaluate the contents of t-As and i-As in 15 samples of Iranian white, nonorganic, and aromatic rice collected from the most important rice-producing regions of the country. The means of t-As and i-As were 120 and 82 μg/kg, respectively. The experimental i-As mean in Iranian rice was below the Chinese standard for the i-As in rice, 150 μg/kg, and the Food and Agriculture Organization of the United Nations (FAO) limit, 200 μg/kg. Therefore, Iranian rice seems to have reasonable low i-As content and it is safe to be marketed in any market, including China and the EU.

  16. Arsenic in rice: a cause for concern.

    PubMed

    Hojsak, Iva; Braegger, Christian; Bronsky, Jiri; Campoy, Cristina; Colomb, Virginie; Decsi, Tamas; Domellöf, Magnus; Fewtrell, Mary; Mis, Nataša Fidler; Mihatsch, Walter; Molgaard, Christian; van Goudoever, Johannes

    2015-01-01

    Inorganic arsenic intake is likely to affect long-term health. High concentrations are found in some rice-based foods and drinks widely used in infants and young children. In order to reduce exposure, we recommend avoidance of rice drinks for infants and young children. For all of the rice products, strict regulation should be enforced regarding arsenic content. Moreover, infants and young children should consume a balanced diet including a variety of grains as carbohydrate sources. Although rice protein-based infant formulas are an option for infants with cows' milk protein allergy, the inorganic arsenic content should be declared and the potential risks should be considered when using these products.

  17. Wheat products as acceptable substitutes for rice.

    PubMed

    Yu, B H; Kies, C

    1993-07-01

    The objective of the study was to compare the acceptability to semi-trained US American and Asian palatability panelist, of four wheat products processed to be possible replacers of rice in human diets. Products evaluated using rice as the control standard of excellence were steamed whole wheat, couscous (steamed, extracted wheat flour semolina), rosamarina (rice shaped, extracted wheat flour pasta), and bulgar (steamed, pre-cooked partly debranned, cracked wheat). Using a ten point hedonic rating scale, both groups of panelists gave rosamarina closely followed by couscous, most favorable ratings although these ratings were somewhat lower than that of the positive control, steamed polished rice. Bulgar wheat was given the lowest evaluation and was, in general, found to be an unacceptable replacement for rice by both American and Asian judges because of its dark, 'greasy' color and distinctive flavor. In their personal dietaries, judges included rice from 0.25 to 18 times per week with the Asian judges consuming rice significantly more times per week than did the American judges (10.8 +/- 4.71 vs 1.75 +/- 1.65, p < 0.01). However, rice consumption patterns, nationality, race, or sex of the judges was not demonstrated to affect scoring of the wheat products as rice replacers.

  18. Natural Variations in SLG7 Regulate Grain Shape in Rice

    PubMed Central

    Zhou, Yong; Miao, Jun; Gu, Haiyong; Peng, Xiurong; Leburu, Mamotshewa; Yuan, Fuhai; Gu, Houwen; Gao, Yun; Tao, Yajun; Zhu, Jinyan; Gong, Zhiyun; Yi, Chuandeng; Gu, Minghong; Yang, Zefeng; Liang, Guohua

    2015-01-01

    Rice (Oryza sativa) grain shape, which is controlled by quantitative trait loci (QTL), has a strong effect on yield production and quality. However, the molecular basis for grain development remains largely unknown. In this study, we identified a novel QTL, Slender grain on chromosome 7 (SLG7), that is responsible for grain shape, using backcross introgression lines derived from 9311 and Azucena. The SLG7 allele from Azucena produces longer and thinner grains, although it has no influence on grain weight and yield production. SLG7 encodes a protein homologous to LONGIFOLIA 1 and LONGIFOLIA 2, both of which increase organ length in Arabidopsis. SLG7 is constitutively expressed in various tissues in rice, and the SLG7 protein is located in plasma membrane. Morphological and cellular analyses suggested that SLG7 produces slender grains by longitudinally increasing cell length, while transversely decreasing cell width, which is independent from cell division. Our findings show that the functions of SLG7 family members are conserved across monocots and dicots and that the SLG7 allele could be applied in breeding to modify rice grain appearance. PMID:26434724

  19. Functional Analysis of Jasmonates in Rice through Mutant Approaches

    PubMed Central

    Dhakarey, Rohit; Kodackattumannil Peethambaran, Preshobha; Riemann, Michael

    2016-01-01

    Jasmonic acid, one of the major plant hormones, is, unlike other hormones, a lipid-derived compound that is synthesized from the fatty acid linolenic acid. It has been studied intensively in many plant species including Arabidopsis thaliana, in which most of the enzymes participating in its biosynthesis were characterized. In the past 15 years, mutants and transgenic plants affected in the jasmonate pathway became available in rice and facilitate studies on the functions of this hormone in an important crop. Those functions are partially conserved compared to other plant species, and include roles in fertility, response to mechanical wounding and defense against herbivores. However, new and surprising functions have also been uncovered by mutant approaches, such as a close link between light perception and the jasmonate pathway. This was not only useful to show a phenomenon that is unique to rice but also helped to establish this role in plant species where such links are less obvious. This review aims to provide an overview of currently available rice mutants and transgenic plants in the jasmonate pathway and highlights some selected roles of jasmonate in this species, such as photomorphogenesis, and abiotic and biotic stress. PMID:27135235

  20. The quiet revolution in Asia's rice value chains.

    PubMed

    Reardon, Thomas; Chen, Kevin Z; Minten, Bart; Adriano, Lourdes; Dao, The Anh; Wang, Jianying; Gupta, Sunipa Das

    2014-12-01

    There is a rapid transformation afoot in the rice value chain in Asia. The upstream is changing quickly-farmers are undertaking capital-led intensification and participating in burgeoning markets for land rental, fertilizer and pesticides, irrigation water, and seed, and shifting from subsistence to small commercialized farms; in some areas landholdings are concentrating. Midstream, in wholesale and milling, there is a quiet revolution underway, with thousands of entrepreneurs investing in equipment, increasing scale, diversifying into higher quality, and the segments are undergoing consolidation and vertical coordination and integration. Mills, especially in China, are packaging and branding, and building agent networks in wholesale markets, and large mills are building direct relationships with supermarkets. The downstream retail segment is undergoing a "supermarket revolution," again with the lead in change in China. In most cases the government is not playing a direct role in the market, but enabling this transformation through infrastructural investment. The transformation appears to be improving food security for cities by reducing margins, offering lower consumer rice prices, and increasing quality and diversity of rice. This paper discusses findings derived from unique stacked surveys of all value chain segments in seven zones, more and less developed, around Bangladesh, China, India, and Vietnam.

  1. Estimation of rice leaf nitrogen contents based on hyperspectral LIDAR

    NASA Astrophysics Data System (ADS)

    Du, Lin; Gong, Wei; Shi, Shuo; Yang, Jian; Sun, Jia; Zhu, Bo; Song, Shalei

    2016-02-01

    Precision agriculture has become a global research hotspot in recent years. Thus, a technique for rapidly monitoring a farmland in a large scale and for accurately monitoring the growing status of crops needs to be established. In this paper, a novel technique, i.e., hyperspectral LIDAR (HL) which worked based on wide spectrum emission and a 32-channel detector was introduced, and its potential in vegetation detection was then evaluated. These spectra collected by HL were used to classify and derive the nitrogen contents of rice under four different nitrogen content levels with support vector machine (SVM) regression. Meanwhile the wavelength selection and channel correction method for achieving high spectral resolution were discussed briefly. The analysis results show that: (1) the reflectance intensity of the selected characteristic wavelengths of HL system has high correlation with different nitrogen contents levels of rice. (2) By increasing the number of wavelengths in calculation, the classification accuracy is greatly improved (from 54% with 4 wavelengths to 83% with 32 wavelengths) and so the regression coefficient r2 is (from 0.51 with 4 wavelengths to 0.75 with 32 wavelengths). (3) Support vector machine (SVM) is a useful regression method for rice leaf nitrogen contents retrieval. These analysis results can help farmers to make fertilization strategies more accurately. The receiving channels and characteristic wavelengths of HL system can be flexibly selected according to different requirements and thus this system will be applied in other fields, such as geologic exploration and environmental monitoring.

  2. Physical maps and recombination frequency of six rice chromosomes.

    PubMed

    Wu, Jianzhong; Mizuno, Hiroshi; Hayashi-Tsugane, Mika; Ito, Yukiyo; Chiden, Yoshino; Fujisawa, Masaki; Katagiri, Satoshi; Saji, Shoko; Yoshiki, Shoji; Karasawa, Wataru; Yoshihara, Rie; Hayashi, Akiko; Kobayashi, Harumi; Ito, Kazue; Hamada, Masao; Okamoto, Masako; Ikeno, Maiko; Ichikawa, Yoko; Katayose, Yuichi; Yano, Masahiro; Matsumoto, Takashi; Sasaki, Takuji

    2003-12-01

    We constructed physical maps of rice chromosomes 1, 2, and 6-9 with P1-derived artificial chromosome (PAC) and bacterial artificial chromosome (BAC) clones. These maps, with only 20 gaps, cover more than 97% of the predicted length of the six chromosomes. We submitted a total of 193 Mbp of non-overlapping sequences to public databases. We analyzed the DNA sequences of 1316 genetic markers and six centromere-specific repeats to facilitate characterization of chromosomal recombination frequency and of the genomic composition and structure of the centromeric regions. We found marked changes in the relative recombination rate along the length of each chromosome. Chromosomal recombination at the centromere core and surrounding regions on the six chromosomes was completely suppressed. These regions have a total physical length of about 23 Mbp, corresponding to 11.4% of the entire size of the six chromosomes. Chromosome 6 has the longest quiescent region, with about 5.6 Mbp, followed by chromosome 8, with quiescent region about half this size. Repetitive sequences accounted for at least 40% of the total genomic sequence on the partly sequenced centromeric region of chromosome 1. Rice CentO satellite DNA is arrayed in clusters and is closely associated with the presence of Centromeric Retrotransposon of Rice (CRR)- and RIce RetroElement 7 (RIRE7)-like retroelement sequences. We also detected relatively small coldspot regions outside the centromeric region; their repetitive content and gene density were similar to those of regions with normal recombination rates. Sequence analysis of these regions suggests that either the amount or the organization patterns of repetitive sequences may play a role in the inactivation of recombination.

  3. Breeding of new rice cultivar 'Tohoku 194' with 'Sasanishiki'-type good eating quality of cooked rice.

    PubMed

    Nagano, Kuniaki; Sasaki, Kunihiko; Endo, Takashi

    2013-06-01

    Cooked rice of 'Sasanishiki' is soft and not as sticky as those of Japanese leading cultivars 'Koshihikari' and 'Hitomebore'. As a method for efficient selection of a breeding line having a good eating quality like that of 'Sasanishiki', the use of physical properties of cooked rice and cooking quality was examined. There were differences of physical properties of the surface layer, starch-iodine blue value per solid substance weight in cooking water and volume expansion of cooked rice between 'Sasanishiki' and 'Hitomebore', these properties being considered to be usable for the selection of breeding lines. Using these traits as selection targets, one line, named 'Tohoku 194', which has eating quality highly similar to that of 'Sasanishiki' and cold tolerance derived from 'Hitomebore', was selected from progeny of a cross between 'Sasanishiki' and 'Hitomebore'. An application for registration as a new variety has been submitted for 'Tohoku 194' under the Japanese Plant Variety Protection Act, and is expected to become a recommended cultivar in Miyagi Prefecture. 'Tohoku 194' may fulfill various demands of consumers and companies in the food industry.

  4. Origin, dispersal, cultivation and variation of rice.

    PubMed

    Khush, G S

    1997-09-01

    There are two cultivated and twenty-one wild species of genus Oryza. O. sativa, the Asian cultivated rice is grown all over the world. The African cultivated rice, O. glaberrima is grown on a small scale in West Africa. The genus Oryza probably originated about 130 million years ago in Gondwanaland and different species got distributed into different continents with the breakup of Gondwanaland. The cultivated species originated from a common ancestor with AA genome. Perennial and annual ancestors of O. sativa are O. rufipogon and O. nivara and those of O. glaberrima are O. longistaminata, O. breviligulata and O. glaberrima probably domesticated in Niger river delta. Varieties of O. sativa are classified into six groups on the basis of genetic affinity. Widely known indica rices correspond to group I and japonicas to group VI. The so called javanica rices also belong to group VI and are designated as tropical japonicas in contrast to temperate japonicas grown in temperate climate. Indica and japonica rices had a polyphyletic origin. Indicas were probably domesticated in the foothills of Himalayas in Eastern India and japonicas somewhere in South China. The indica rices dispersed throughout the tropics and subtropics from India. The japonica rices moved northward from South China and became the temperate ecotype. They also moved southward to Southeast Asia and from there to West Africa and Brazil and became tropical ecotype. Rice is now grown between 55 degrees N and 36 degrees S latitudes. It is grown under diverse growing conditions such as irrigated, rainfed lowland, rainfed upland and floodprone ecosystems. Human selection and adaptation to diverse environments has resulted in numerous cultivars. It is estimated that about 120,000 varieties of rice exist in the world. After the establishment of International Rice Research Institute in 1960, rice varietal improvement was intensified and high yielding varieties were developed. These varieties are now planted to 70

  5. Ethanol sensitivity of rice and oat coleoptiles.

    PubMed

    Kato-Noguchi, Hisashi

    2002-05-01

    The ability to avoid the ethanol-induced injury was evaluated in rice (Oryza sativa L.) and oat (Avena sativa L.) coleoptiles. The growth of the rice and oat coleoptiles was inhibited by ethanol exogenously applied at concentrations greater than 200 and 30 mM, respectively. At 300 mM ethanol, oat coleoptiles were brown and flaccid but rice coleoptiles did not show any visible symptoms of toxicity. The acetaldehyde level in rice and oat coleoptiles was increased by exogenously applied ethanol and the increases were greater in oat than in rice coleoptiles under aerobic and anaerobic conditions. At 300 mM ethanol, the acetaldehyde concentrations in the rice and oat coleoptiles were 46 and 87 nmol g-1 FW under aerobic conditions, respectively, and 52 and 124 nmol g-1 FW under anaerobic conditions, respectively. The activity of alcohol dehydrogenase (ADH; EC 1.1.1.1) in the direction of ethanol to acetaldehyde was greater in oat than in rice coleoptiles and ADH protein in oat coleoptiles was more induced by exogenously applied ethanol than that in rice coleoptiles. These results suggest that in vivo conversion rate of ethanol to acetaldehyde by ADH is lower in rice than oat coleoptiles, which may be one of the reasons that ethanol sensitivity of rice is much lower than that of oat coleoptiles. The great ability of rice to avoid the ethanol-induced injuries may contribute its anoxia tolerance when glycolysis and ethanolic fermentation replace the Krebs cycle as the main source of energy under anaerobic conditions.

  6. Transgenic expression of the dicotyledonous pattern recognition receptor EFR in rice leads to ligand-dependent activation of defense responses

    SciTech Connect

    Schwessinger, Benjamin; Bahar, Ofir; Thomas, Nicolas; Holton, Nicolas; Nekrasov, Vladimir; Ruan, Deling; Canlas, Patrick E.; Daudi, Arsalan; Petzold, Christopher J.; Singan, Vasanth R.; Kuo, Rita; Chovatia, Mansi; Daum, Christopher; Heazlewood, Joshua L.; Zipfel, Cyril; Ronald, Pamela C.

    2015-03-30

    Plant plasma membrane localized pattern recognition receptors (PRRs) detect extracellular pathogen-associated molecules. PRRs such as Arabidopsis EFR and rice XA21 are taxonomically restricted and are absent from most plant genomes. Here we show that rice plants expressing EFR or the chimeric receptor EFR::XA21, containing the EFR ectodomain and the XA21 intracellular domain, sense both Escherichia coli- and Xanthomonas oryzae pv. oryzae (Xoo)-derived elf18 peptides at sub-nanomolar concentrations. Treatment of EFR and EFR::XA21 rice leaf tissue with elf18 leads to MAP kinase activation, reactive oxygen production and defense gene expression. Although expression of EFR does not lead to robust enhanced resistance to fully virulent Xoo isolates, it does lead to quantitatively enhanced resistance to weakly virulent Xoo isolates. EFR interacts with OsSERK2 and the XA21 binding protein 24 (XB24), two key components of the rice XA21-mediated immune response. Rice-EFR plants silenced for OsSERK2, or overexpressing rice XB24 are compromised in elf18-induced reactive oxygen production and defense gene expression indicating that these proteins are also important for EFR-mediated signaling in transgenic rice. Taken together, our results demonstrate the potential feasibility of enhancing disease resistance in rice and possibly other monocotyledonous crop species by expression of dicotyledonous PRRs. Our results also suggest that Arabidopsis EFR utilizes at least a subset of the known endogenous rice XA21 signaling components.

  7. Fine Mapping and Candidate Gene Analysis of the Tiller Suppression Gene ts1 in Rice

    PubMed Central

    Liu, Lei; Meng, Fen; He, Yonggang; Zhu, Menghao; Shen, Yanhao; Zhang, Zhihong

    2017-01-01

    Tiller number is one of the key factors that influences rice plant type and yield components. In this study, an EMS-induced rice tiller suppression mutant ts1 was characterized. Morphological and histological observations revealed that, in the ts1 plants, the tiller buds were abnormally formed and therefore cannot outgrow into tillers. With an F2 population derived from a cross between ts1 and an indica cultivar Wushansimiao, a major gene, tiller suppression 1 (ts1) was fine-mapped to a 108.5 kb genomic region between markers ID8378 and SSR6884 on the short arm of rice chromosome 2. Candidate gene analysis identified nineteen putative genes. Among them, ORF4 (LOC_Os02g01610) is a PPR gene which harbored a point mutation c.+733/C→T in ts1 mutant plants. A co-dominant SNP marker cd-733C/T was subsequently developed and the SNP assay demonstrated that the point mutation co-segregated with tiller suppression phenotype. Quantitative RT-PCR analysis showed that the expression level of ORF4 in ts1 plants was significantly lower than that in their wild plants, and the expression of rice tillering regulators MOC1 and HTD1 was also significantly decreased in ts1 plants. Our data indicated that ORF4 was a strong candidate gene for ts1 and ts1 might play a role in regulating rice tillering through MOC1 and HTD1 associated pathway. The results above provide a basis for further functional characterization of ts1 and will shed light on molecular mechanism of rice tillering. The informative SNP marker cd-733C/T will facilitate marker-assisted selection of ts1 in rice plant type breeding. PMID:28107441

  8. Microwave Backscatter and Attenuation Dependence of Leaf Area Index for Flooded Rice Fields

    NASA Technical Reports Server (NTRS)

    Durden, Stephen L.; Morrissey, Leslie A.; Livingston, Gerald P.

    1995-01-01

    Wetlands are important for their role in global climate as a source of methane and other reduced trace gases. As part of an effort to determine whether radar is suitable for wetland vegetation monitoring, we have studied the dependence of microwave backscatter and attenuation on leaf area index (LAI) for flooded rice fields. We find that the radar return from a flooded rice field does show dependence on LAI. In particular, the C-band VV cross section per unit area decreases with increasing LAI. A simple model for scattering from rice fields is derived and fit to the observed HH and VV data. The model fit provides insight into the relation of backscatter to LAI and is also used to calculate the canopy path attenuation as a function of LAI.

  9. Conversion of rice straw to monomeric phenols under supercritical methanol and ethanol.

    PubMed

    Singh, Rawel; Srivastava, Vartika; Chaudhary, Kajal; Gupta, Piyush; Prakash, Aditya; Balagurumurthy, Bhavya; Bhaskar, Thallada

    2015-01-01

    Hydrothermal liquefaction of rice straw has been carried out using various organic solvents (CH3OH, C2H5OH) at different temperatures (250, 280 and 300 °C) and residence times (15, 30 and 60 min) to understand the effect of solvent and various reaction parameters on product distribution. Maximum liquid product yield (47.52 wt%) was observed using ethanol at 300 °C and 15 min reaction time. FTIR and NMR ((1)H and (13)C) of liquid product indicate that lignin in rice straw was converted to various monomeric phenols. GC-MS of the liquid product showed the presence of various phenol and guaiacol derivatives. Main compounds observed in liquid product were phenol, 4-ethylphenol, 4-ethyl-2-methoxyphenol (4-ethylguaiacol), 2,6-dimethoxyphenol (syringol), 2-isopropyl-5-methylphenol (thymol). Powder XRD and SEM of bio-residue showed that rice straw was decomposed to low molecular weight monomeric phenols.

  10. Selectivity of the Cd2+/Ca2+ exchange on modified rice hull silica.

    PubMed

    Sánchez-Flores, Norma A; Solache, Marcos; Olguín, M Teresa; Fripiat, José J; Pacheco-Malagón, Graciela; Saniger, José M; Bulbulian, Silvia

    2009-03-01

    The rice hull ash is composed by 94% of SiO2, an agricultural waste that can be recovered and purified by a depolymerization reaction yielding an organo-silicic gel. The purpose of this paper is to show that this silica can be used to fix Cd2+ from aqueous solution. The pH of hydrolysis of the organo-silicic gel is the main factor modifying the distribution between the solid and the solution. The contact time between the Cd2+ solution and the solid was studied to optimize the sorption conditions. The equilibrium measurements were performed after 40 hours at room temperature. The competition with Ca2+ ions in the solutions was also studied in order to evaluate the selectivity of the Cd2+ fixation. It was found that the rice hull ash has a higher capacity to fix Cd2+ than the rice hull derivatives.

  11. Biodegradation of clomazone in a California rice field soil: carbon allocation and community effects.

    PubMed

    Tomco, Patrick L; Holmes, William E; Tjeerdema, Ronald S

    2013-03-20

    Degradation pathways for the herbicide clomazone in a California rice field soil were characterized via pulse-labeling of anaerobic (flooded) and aerobic (moist) soil microcosms. Clomazone-derived (13)C in the major C pools of a rice ecosystem and soil phospholipid fatty acid (PLFA) profiles were analyzed over time to determine if (1) the compound accumulates in the microbial biomass, (2) it affects temporal microbial population dynamics, and (3) it is either preferentially metabolized or cometabolized. In anaerobic microcosms, the compound was rapidly biotransformed to ring-open clomazone, upon which it persisted in the aqueous phase, whereas aerobic microcosms degraded it slower but a greater percentage was mineralized. Anaerobic biomass decreased after clomazone was added, and aerobic actinomycete abundance differed between treatments and controls. Additionally, PLFA and (13)C PLFA were statistically similar between treatment and controls. Thus, microbial cometabolism is likely to be the dominant degrading mechanism governing clomazone fate in California rice fields.

  12. Rice Crop Monitoring and Yield Estimation Through Cosmo Skymed and TerraSAR-X: A SAR-Based Experience in India

    NASA Astrophysics Data System (ADS)

    Pazhanivelan, S.; Kannan, P.; Nirmala Mary, P. Christy; Subramanian, E.; Jeyaraman, S.; Nelson, A.; Setiyono, T.; Holecz, F.; Barbieri, M.; Yadav, M.

    2015-04-01

    Rice is the most important cereal crop governing food security in Asia. Reliable and regular information on the area under rice production is the basis of policy decisions related to imports, exports and prices which directly affect food security. Recent and planned launches of SAR sensors coupled with automated processing can provide sustainable solutions to the challenges on mapping and monitoring rice systems. High resolution (3m) Synthetic Aperture Radar (SAR) imageries were used to map and monitor rice growing areas in selected three sites in TamilNadu, India to determine rice cropping extent, track rice growth and estimate yields. A simple, robust, rule-based classification for mapping rice area with multi-temporal, X-band, HH polarized SAR imagery from COSMO Skymed and TerraSAR X and site specific parameters were used. The robustness of the approach is demonstrated on a very large dataset involving 30 images across 3 footprints obtained during 2013-14. A total of 318 in-season site visits were conducted across 60 monitoring locations for rice classification and 432 field observations were made for accuracy assessment. Rice area and Start of Season (SoS) maps were generated with classification accuracies ranging from 87- 92 per cent. Using ORYZA2000, a weather driven process based crop growth simulation model; yield estimates were made with the inclusion of rice crop parameters derived from the remote sensing products viz., seasonal rice area, SoS and backscatter time series. Yield Simulation accuracy levels of 87 per cent at district level and 85- 96 per cent at block level demonstrated the suitability of remote sensing products for policy decisions ensuring food security and reducing vulnerability of farmers in India.

  13. Dissecting the genetic diversity in African rice

    Technology Transfer Automated Retrieval System (TEKTRAN)

    African cultivated rice, Oryza glaberrima, and its progenitor, O. barthii are excellent sources of important genes for rice improvement because they exhibit tolerance to several abiotic and biotic stresses. Development of advance backcross (ABC) populations between an unadapted donor parent and ada...

  14. Ricecraft: Rice Is for More Than Eating.

    ERIC Educational Resources Information Center

    Rice Council of America, Houston, TX.

    Rice can be the basis for mosaics, flower arrangements, games, toys, and many things children would like to make. It can add new dimensions to making candles, coasters, and jewelry. Working with rice can aid in the development of appreciation of texture, symmetry, coordination, imagination and, at the same time, result in hand-made gifts for…

  15. Low oil-uptake rice batters.

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Rice starch and flour are popular for use in foods, because they are known to be nutritious, gluten-free, and hypoallergenic – properties which make them particularly desirable for use in infant foods, and in products for people with celiac disease (gluten intolerance). One application for rice sta...

  16. 33 CFR 117.324 - Rice Creek.

    Code of Federal Regulations, 2013 CFR

    2013-07-01

    ... 33 Navigation and Navigable Waters 1 2013-07-01 2013-07-01 false Rice Creek. 117.324 Section 117.324 Navigation and Navigable Waters COAST GUARD, DEPARTMENT OF HOMELAND SECURITY BRIDGES DRAWBRIDGE OPERATION REGULATIONS Specific Requirements Florida § 117.324 Rice Creek. The CSX Railroad Swingbridge,...

  17. Connecting with Rice: Carolina Lowcountry and Africa

    ERIC Educational Resources Information Center

    Mitchell, Jerry T.; Collins, Larianne; Wise, Susan S.; Caughman, Monti

    2012-01-01

    Though lasting less than 200 years, large-scale rice production in South Carolina and Georgia "probably represented the most significant utilization of the tidewater zone for crop agriculture ever attained in the United States." Rice is a specialty crop where successful cultivation relied heavily upon "adaptation" to nature via…

  18. 33 CFR 117.324 - Rice Creek.

    Code of Federal Regulations, 2011 CFR

    2011-07-01

    ... 33 Navigation and Navigable Waters 1 2011-07-01 2011-07-01 false Rice Creek. 117.324 Section 117.324 Navigation and Navigable Waters COAST GUARD, DEPARTMENT OF HOMELAND SECURITY BRIDGES DRAWBRIDGE OPERATION REGULATIONS Specific Requirements Florida § 117.324 Rice Creek. The CSX Railroad Swingbridge,...

  19. 33 CFR 117.324 - Rice Creek.

    Code of Federal Regulations, 2014 CFR

    2014-07-01

    ... 33 Navigation and Navigable Waters 1 2014-07-01 2014-07-01 false Rice Creek. 117.324 Section 117.324 Navigation and Navigable Waters COAST GUARD, DEPARTMENT OF HOMELAND SECURITY BRIDGES DRAWBRIDGE OPERATION REGULATIONS Specific Requirements Florida § 117.324 Rice Creek. The CSX Railroad Swingbridge,...

  20. 33 CFR 117.324 - Rice Creek.

    Code of Federal Regulations, 2012 CFR

    2012-07-01

    ... 33 Navigation and Navigable Waters 1 2012-07-01 2012-07-01 false Rice Creek. 117.324 Section 117.324 Navigation and Navigable Waters COAST GUARD, DEPARTMENT OF HOMELAND SECURITY BRIDGES DRAWBRIDGE OPERATION REGULATIONS Specific Requirements Florida § 117.324 Rice Creek. The CSX Railroad Swingbridge,...

  1. 33 CFR 117.324 - Rice Creek.

    Code of Federal Regulations, 2010 CFR

    2010-07-01

    ... 33 Navigation and Navigable Waters 1 2010-07-01 2010-07-01 false Rice Creek. 117.324 Section 117.324 Navigation and Navigable Waters COAST GUARD, DEPARTMENT OF HOMELAND SECURITY BRIDGES DRAWBRIDGE OPERATION REGULATIONS Specific Requirements Florida § 117.324 Rice Creek. The CSX Railroad Swingbridge,...

  2. Simulating rice response to climate change

    SciTech Connect

    Singh, U.; Padilla, J.L. |

    1995-12-31

    The response of rice (Oryza sativa L.) to elevated CO{sub 2} concentration and temperature increase was simulated using the CERES-rice model. CERES-rice belongs to the International Benchmark Sites Network for Agrotechnology Transfer (IBSNAT) family of crop and nutrient dynamics models. Long-term historical data from the International Rice Research Institute (IRRI) wetland site was used to quantify the climatic change effects. The model simulated such beneficial effects of CO{sub 2} enrichment as increased grain yields, reduced transpiration, increased water use efficiency, improved use of intercepted radiation, reduced N losses, and higher N use efficiency. The trends were reversed for all of the above parameters with increase in temperature. CERES-rice simulated these negative trends in low input rice production as well. Based on the model`s prediction, some of the negative effects of temperature increase in warmer regions of the world could be offset by use of rice varieties that are tolerant to high temperature-induced spikelet sterility, and planting varieties with longer growth duration, particularly, longer grain filling duration. With improved varieties and good management future impact of climate change could be capitalized to have positive effects on rice production. Although the model has been extensively tested, it is critical to validate it with field data from extreme temperature and CO{sub 2} level studies. 33 refs., 13 figs., 3 tabs.

  3. Novel gene expression tools for rice biotechnology

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Biotechnology is an effective and important method of improving both quality and agronomic traits in rice. We are developing novel molecular tools for genetic engineering, with a focus on developing novel transgene expression control elements (i.e. promoters) for rice. A suite of monocot grass promo...

  4. Rice aroma and flavor: a literature review.

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Descriptive sensory analysis has identified over a dozen different aromas and flavors in rice. Instrumental analyses have found over 200 volatile compounds present in rice. However, after over 30 years of research, little is known about the relationships between the numerous volatile compounds and a...

  5. Important sensory properties differentiating premium rice cultivars.

    Technology Transfer Automated Retrieval System (TEKTRAN)

    In rice-consuming countries worldwide, specific cultivars are recognized as premium, “gold standard” cultivars, while others are recognized as being superior, but not the best. It has been difficult to ascertain whether preferences for premium rice cultivars are driven by discernable differences in...

  6. Influence of intermittent irrigation, red rice biotype, and rice grain type on outcrossing between red rice and imidazolinone-resistant rice

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Whether outcrossing rates between red rice and imazethapyr resistant rice are affected as a function of irrigation management is unclear. Potentially, differences between conventionally-flooded (CNV) and intermittently flooded (INT) systems could affect plant water deficits, as well as vegetative a...

  7. Grain Unloading Of Arsenic Species In Rice

    EPA Science Inventory

    Rice (Oryza sativa) is the staple food for over half the world's population yet may represent a significant dietary source of inorganic arsenic (As), a nonthreshold, class 1 human carcinogen. Rice grain As is dominated by the inorganic species, and the organic species dim...

  8. Evaluation of origins of CH4 carbon emitted from rice paddies

    NASA Astrophysics Data System (ADS)

    Watanabe, Akira; Takeda, Takuya; Kimura, Makoto

    1999-10-01

    Possible carbon sources for CH4 emitted from rice paddies are organic matter applied to the fields, such as rice straw (RS), soil organic matter (SOM), and carbon supplied from rice plants (RP), such as exudates and sloughed tissues. To estimate the contribution of each carbon source to CH4 emission, a pot experiment was conducted using 13C-enriched soil sample and 13C-enriched RS as tracers. The percentage contribution of RP carbon was estimated by subtraction. When RS was applied at a rate corresponding to 6 t ha-1, the percentage contributions of RS, SOM, and RP carbon to CH4 emission throughout the period of rice growth were 42%, 18-21%, and 37-40%, respectively. The values for SOM and RP carbon for the treatment in which RS was not applied were 15-20% and 80-85%, respectively. Seasonal variations in the percentage contribution of soil organic carbon to CH4 emission were small in the range between 13% and 30% for the pots with RS and between 15% and 24% for the pots without RS. In the RS-applied treatment, RS and SOM accounted for almost 100% of the CH4 carbon early in the period of rice growth, while 65-70% of the CH4 emission in the milky stage was derived from RP carbon.

  9. Rayleigh-Rice Mixture Parameter Estimation via EM Algorithm for Change Detection in Multispectral Images.

    PubMed

    Zanetti, Massimo; Bovolo, Francesca; Bruzzone, Lorenzo

    2015-12-01

    The problem of estimating the parameters of a Rayleigh-Rice mixture density is often encountered in image analysis (e.g., remote sensing and medical image processing). In this paper, we address this general problem in the framework of change detection (CD) in multitemporal and multispectral images. One widely used approach to CD in multispectral images is based on the change vector analysis. Here, the distribution of the magnitude of the difference image can be theoretically modeled by a Rayleigh-Rice mixture density. However, given the complexity of this model, in applications, a Gaussian-mixture approximation is often considered, which may affect the CD results. In this paper, we present a novel technique for parameter estimation of the Rayleigh-Rice density that is based on a specific definition of the expectation-maximization algorithm. The proposed technique, which is characterized by good theoretical properties, iteratively updates the parameters and does not depend on specific optimization routines. Several numerical experiments on synthetic data demonstrate the effectiveness of the method, which is general and can be applied to any image processing problem involving the Rayleigh-Rice mixture density. In the CD context, the Rayleigh-Rice model (which is theoretically derived) outperforms other empirical models. Experiments on real multitemporal and multispectral remote sensing images confirm the validity of the model by returning significantly higher CD accuracies than those obtained by using the state-of-the-art approaches.

  10. Identification of QTLs for resistant starch and total alkaloid content in brown and polished rice.

    PubMed

    Zeng, Y W; Sun, D; Du, J; Pu, X Y; Yang, S M; Yang, X M; Yang, T; Yang, J Z

    2016-07-29

    An F3 population consisting of 117 F2:3 families derived from a cross between two varieties of rice, Gongmi No. 3 and Diantun 502, with a large difference in their resistant starch and total alkaloid content, was used for quantitative trait locus (QTL) mapping. Two QTLs of resistant starch for rice (qRS7-1, qRS7-2) were identified in a linkage group on chromosome 7, which could explain phenotypic variance from 7.6 to 17.3%, due to additive effects for resistant starch from Gongmi No. 3 or over-dominance effects for qRS7-2 of the marker interval (RM3404-RM478) on chromosome 7 from Gongmi No. 3, accounting for 13.8-17.3% of the phenotypic variance. Two QTLs of total alkaloids for brown rice (qALb7-1, qALb7-2) were identified in the same linkage group, which could explain phenotypic variance from 7.7 and 19.3%, respectively, due to dominance or over-dominance effects for total alkaloids on chromosome 7 from Diantun 502. To our knowledge, these are the first QTLs to be identified, which are related to resistant starch and total alkaloid content in rice. These results are beneficial for understanding the genetic basis of, as well as for developing markers linked with, resistant starch and total alkaloids of functional components for marker-assisted selection breeding in rice.

  11. Anti-invasive activity against cancer cells of phytochemicals in red jasmine rice (Oryza sativa L.).

    PubMed

    Pintha, Komsak; Yodkeeree, Supachai; Pitchakarn, Pornsirit; Limtrakul, Pornngarm

    2014-01-01

    Red rice contains pharmacological substances including phenolics, oryzanol, tocotrienol and tocopherol. Recently, red rice extract has been employed as a source of antioxidants for inhibition of tumor growth. This study was carried out to evaluate the anti-invasion effects of red rice extract fractions on cancer cells. It was found that at 100 μg/ml of crude ethanolic extract (CEE), hexane fraction (Hex) and dichloromethane fraction (DCM) could reduce HT1080 and MDA-MB-231 cancer cell invasion. Hex and DCM revealed higher potency levels than CEE, whereas an ethyl acetate fraction (EtOAc) had no effect. Gelatin zymography revealed that Hex decreased the secretion and activity of matrix metalloproteinase-2 and -9 (MMP-2 and-9). In contrast, the DCM fraction exhibited slightly effect on MMPs secretion and had no effect on MMPs activity. Collagenase activity was significantly inhibited by the Hex and DCM fractions. High amounts of γ-oryzanol and γ-tocotrienol were found in the Hex and DCM fractions and demonstrated an anti-invasion property. On the other hand, proanthocyanidin was detected only in the CEE fraction and reduced MDA-MB-231 cells invasion property. These observations suggest that proanthocyanidin, γ-oryzanol and γ-tocotrienol in the red rice fractions might be responsible for the anti invasion activity. The red rice extract may have a potential to serve as a food-derived chemotherapeutic agent for cancer patients.

  12. Particle size distribution of rice flour affecting the starch enzymatic hydrolysis and hydration properties.

    PubMed

    de la Hera, Esther; Gomez, Manuel; Rosell, Cristina M

    2013-10-15

    Rice flour is becoming very attractive as raw material, but there is lack of information about the influence of particle size on its functional properties and starch digestibility. This study evaluates the degree of dependence of the rice flour functional properties, mainly derived from starch behavior, with the particle size distribution. Hydration properties of flours and gels and starch enzymatic hydrolysis of individual fractions were assessed. Particle size heterogeneity on rice flour significantly affected functional properties and starch features, at room temperature and also after gelatinization; and the extent of that effect was grain type dependent. Particle size heterogeneity on rice flour induces different pattern in starch enzymatic hydrolysis, with the long grain having slower hydrolysis as indicated the rate constant (k). No correlation between starch digestibility and hydration properties or the protein content was observed. It seems that in intact granules interactions with other grain components must be taken into account. Overall, particle size fractionation of rice flour might be advisable for selecting specific physico-chemical properties.

  13. Elucidation of molecular dynamics of invasive species of rice

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Cultivated rice fields are aggressively invaded by weedy rice in the U.S. and worldwide. Weedy rice results in loss of yield and seed contamination. The molecular dynamics of the evolutionary adaptive traits of weedy rice are not fully understood. To understand the molecular basis and identify the i...

  14. 7 CFR 868.201 - Definition of rough rice.

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... 7 Agriculture 7 2011-01-01 2011-01-01 false Definition of rough rice. 868.201 Section 868.201... FOR CERTAIN AGRICULTURAL COMMODITIES United States Standards for Rough Rice Terms Defined § 868.201 Definition of rough rice. Rice (Oryza sativa L.) which consists of 50 percent or more of paddy kernels...

  15. 21 CFR 573.160 - Ammoniated rice hulls.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ... 21 Food and Drugs 6 2010-04-01 2010-04-01 false Ammoniated rice hulls. 573.160 Section 573.160... Additive Listing § 573.160 Ammoniated rice hulls. The food additive ammoniated rice hulls may be safely... obtained by the treatment of ground rice hulls with monocalcium phosphate and anhydrous ammonia at...

  16. 7 CFR 868.201 - Definition of rough rice.

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    ... 7 Agriculture 7 2014-01-01 2014-01-01 false Definition of rough rice. 868.201 Section 868.201... FOR CERTAIN AGRICULTURAL COMMODITIES United States Standards for Rough Rice Terms Defined § 868.201 Definition of rough rice. Rice (Oryza sativa L.) which consists of 50 percent or more of paddy kernels...

  17. 7 CFR 868.301 - Definition of milled rice.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... 7 Agriculture 7 2013-01-01 2013-01-01 false Definition of milled rice. 868.301 Section 868.301... FOR CERTAIN AGRICULTURAL COMMODITIES United States Standards for Milled Rice Terms Defined § 868.301 Definition of milled rice. Whole or broken kernels of rice (Oryza sativa L.) from which the hulls and...

  18. 21 CFR 573.160 - Ammoniated rice hulls.

    Code of Federal Regulations, 2014 CFR

    2014-04-01

    ... 21 Food and Drugs 6 2014-04-01 2014-04-01 false Ammoniated rice hulls. 573.160 Section 573.160... Additive Listing § 573.160 Ammoniated rice hulls. The food additive ammoniated rice hulls may be safely... obtained by the treatment of ground rice hulls with monocalcium phosphate and anhydrous ammonia at...

  19. 21 CFR 172.890 - Rice bran wax.

    Code of Federal Regulations, 2011 CFR

    2011-04-01

    ... 21 Food and Drugs 3 2011-04-01 2011-04-01 false Rice bran wax. 172.890 Section 172.890 Food and... Multipurpose Additives § 172.890 Rice bran wax. Rice bran wax may be safely used in food in accordance with the following conditions: (a) It is the refined wax obtained from rice bran and meets the...

  20. 21 CFR 172.890 - Rice bran wax.

    Code of Federal Regulations, 2012 CFR

    2012-04-01

    ... 21 Food and Drugs 3 2012-04-01 2012-04-01 false Rice bran wax. 172.890 Section 172.890 Food and... Multipurpose Additives § 172.890 Rice bran wax. Rice bran wax may be safely used in food in accordance with the following conditions: (a) It is the refined wax obtained from rice bran and meets the...

  1. 21 CFR 573.160 - Ammoniated rice hulls.

    Code of Federal Regulations, 2012 CFR

    2012-04-01

    ... 21 Food and Drugs 6 2012-04-01 2012-04-01 false Ammoniated rice hulls. 573.160 Section 573.160... Additive Listing § 573.160 Ammoniated rice hulls. The food additive ammoniated rice hulls may be safely... obtained by the treatment of ground rice hulls with monocalcium phosphate and anhydrous ammonia at...

  2. 7 CFR 868.201 - Definition of rough rice.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... 7 Agriculture 7 2010-01-01 2010-01-01 false Definition of rough rice. 868.201 Section 868.201... FOR CERTAIN AGRICULTURAL COMMODITIES United States Standards for Rough Rice Terms Defined § 868.201 Definition of rough rice. Rice (Oryza sativa L.) which consists of 50 percent or more of paddy kernels...

  3. Modification of physical properties of freeze-dried rice

    NASA Technical Reports Server (NTRS)

    Huber, C. S.

    1971-01-01

    Freeze cycling process consists of alternately freezing and thawing precooked rice for two cycles, rice is then frozen and freeze-dehydrated in vacuum sufficient to remove water from rice by sublimitation. Process modifies rice grain structure and porosity, enabling complete rehydration in one minute in hot water.

  4. 7 CFR 868.201 - Definition of rough rice.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... 7 Agriculture 7 2013-01-01 2013-01-01 false Definition of rough rice. 868.201 Section 868.201... FOR CERTAIN AGRICULTURAL COMMODITIES United States Standards for Rough Rice Terms Defined § 868.201 Definition of rough rice. Rice (Oryza sativa L.) which consists of 50 percent or more of paddy kernels...

  5. 7 CFR 868.301 - Definition of milled rice.

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... 7 Agriculture 7 2011-01-01 2011-01-01 false Definition of milled rice. 868.301 Section 868.301... FOR CERTAIN AGRICULTURAL COMMODITIES United States Standards for Milled Rice Terms Defined § 868.301 Definition of milled rice. Whole or broken kernels of rice (Oryza sativa L.) from which the hulls and...

  6. 21 CFR 172.890 - Rice bran wax.

    Code of Federal Regulations, 2013 CFR

    2013-04-01

    ... 21 Food and Drugs 3 2013-04-01 2013-04-01 false Rice bran wax. 172.890 Section 172.890 Food and... Multipurpose Additives § 172.890 Rice bran wax. Rice bran wax may be safely used in food in accordance with the following conditions: (a) It is the refined wax obtained from rice bran and meets the...

  7. 7 CFR 868.201 - Definition of rough rice.

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ... 7 Agriculture 7 2012-01-01 2012-01-01 false Definition of rough rice. 868.201 Section 868.201... FOR CERTAIN AGRICULTURAL COMMODITIES United States Standards for Rough Rice Terms Defined § 868.201 Definition of rough rice. Rice (Oryza sativa L.) which consists of 50 percent or more of paddy kernels...

  8. 7 CFR 868.301 - Definition of milled rice.

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ... 7 Agriculture 7 2012-01-01 2012-01-01 false Definition of milled rice. 868.301 Section 868.301... FOR CERTAIN AGRICULTURAL COMMODITIES United States Standards for Milled Rice Terms Defined § 868.301 Definition of milled rice. Whole or broken kernels of rice (Oryza sativa L.) from which the hulls and...

  9. 21 CFR 573.160 - Ammoniated rice hulls.

    Code of Federal Regulations, 2013 CFR

    2013-04-01

    ... 21 Food and Drugs 6 2013-04-01 2013-04-01 false Ammoniated rice hulls. 573.160 Section 573.160... Additive Listing § 573.160 Ammoniated rice hulls. The food additive ammoniated rice hulls may be safely... obtained by the treatment of ground rice hulls with monocalcium phosphate and anhydrous ammonia at...

  10. 21 CFR 573.160 - Ammoniated rice hulls.

    Code of Federal Regulations, 2011 CFR

    2011-04-01

    ... 21 Food and Drugs 6 2011-04-01 2011-04-01 false Ammoniated rice hulls. 573.160 Section 573.160... Additive Listing § 573.160 Ammoniated rice hulls. The food additive ammoniated rice hulls may be safely... obtained by the treatment of ground rice hulls with monocalcium phosphate and anhydrous ammonia at...

  11. 21 CFR 172.890 - Rice bran wax.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ... 21 Food and Drugs 3 2010-04-01 2009-04-01 true Rice bran wax. 172.890 Section 172.890 Food and... Multipurpose Additives § 172.890 Rice bran wax. Rice bran wax may be safely used in food in accordance with the following conditions: (a) It is the refined wax obtained from rice bran and meets the...

  12. 7 CFR 868.301 - Definition of milled rice.

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    ... 7 Agriculture 7 2014-01-01 2014-01-01 false Definition of milled rice. 868.301 Section 868.301... FOR CERTAIN AGRICULTURAL COMMODITIES United States Standards for Milled Rice Terms Defined § 868.301 Definition of milled rice. Whole or broken kernels of rice (Oryza sativa L.) from which the hulls and...

  13. 7 CFR 868.301 - Definition of milled rice.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... 7 Agriculture 7 2010-01-01 2010-01-01 false Definition of milled rice. 868.301 Section 868.301... FOR CERTAIN AGRICULTURAL COMMODITIES United States Standards for Milled Rice Terms Defined § 868.301 Definition of milled rice. Whole or broken kernels of rice (Oryza sativa L.) from which the hulls and...

  14. Golden Rice is an effective source for vitamin A

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Genetically engineered "Golden Rice" contains up to 35 ug Beta-carotene per gram of rice. It is important to determine the vitamin A equivalency of Golden Rice Beta-carotene to project the potential effect of this biofortified grain in rice-consuming populations that commonly exhibit low vitamin A s...

  15. Identification of Some Degradation Products of Golden Rice Beta- carotene

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Golden Rice (GR2) is genetically modified rice, which can contain as high as 37 ug of beta-carotene per g of dry rice. It was developed to combat vitamin A deficiency (VAD), a major malnutrition problem in many parts of the developing world, especially in South and South Eastern Asia, where rice is ...

  16. Signatures of adaptation in the weedy rice genome

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Weedy rice is a common problem of by product of domestication that has evolved multiple times from cultivated and wild rice relatives. Here we use whole genome sequences to examine the origin and adaptation of the two major US weedy red rice strains, with a comparison to Chinese weedy red rice. We f...

  17. Rice Bran: Production, Composition, Functionality and Food Applications, Physiological Benefits

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Animal and human studies show cholesterol-lowering with rice bran in hypercholesterolemic individuals. Specific rice bran fractions showing hypocholesterolemic activity include rice bran oil, unsaponifiable matter, dietary fiber and protein. There is a dose response to the level of rice bran and r...

  18. Rice blast research: improving our arsenal and using it

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Rice blast disease is a constant threat to U.S. rice production, and there have been sporadic outbreaks of the disease for many decades. However, the U.S. southern rice growing area has been fortunate because the pathogen population has been relatively stable compared to other rice producing areas i...

  19. The trafficking pathway of a wheat storage protein in transgenic rice endosperm

    PubMed Central

    Oszvald, Maria; Tamas, Laszlo; Shewry, Peter R.; Tosi, Paola

    2014-01-01

    Background and Aims The trafficking of proteins in the endoplasmic reticulum (ER) of plant cells is a topic of considerable interest since this organelle serves as an entry point for proteins destined for other organelles, as well as for the ER itself. In the current work, transgenic rice was used to study the pattern and pathway of deposition of the wheat high molecular weight (HMW) glutenin sub-unit (GS) 1Dx5 within the rice endosperm using specific antibodies to determine whether it is deposited in the same or different protein bodies from the rice storage proteins, and whether it is located in the same or separate phases within these. Methods The protein distribution and the expression pattern of HMW sub-unit 1Dx5 in transgenic rice endosperm at different stages of development were determined using light and electron microscopy after labelling with antibodies. Key results The use of HMW-GS-specific antibodies showed that sub-unit 1Dx5 was expressed mainly in the sub-aleurone cells of the endosperm and that it was deposited in both types of protein body present in the rice endosperm: derived from the ER and containing prolamins, and derived from the vacuole and containing glutelins. In addition, new types of protein bodies were also formed within the endosperm cells. Conclusions The results suggest that the HMW 1Dx5 protein could be trafficked by either the ER or vacuolar pathway, possibly depending on the stage of development, and that its accumulation in the rice endosperm could compromise the structural integrity of protein bodies and their segregation into two distinct populations in the mature endosperm. PMID:24603605

  20. Mitigation options for methane emissions from rice fields in the Philippines

    SciTech Connect

    Lantin, R.S.; Buendia, L.V.; Wassmann, R.

    1996-12-31

    The contribution of Philippine rice production to global methane emission and breakthroughs in methane emission studies conducted in the country are presented in this paper. A significant impact in the reduction of GHG emissions from agriculture can be achieved if methane emissions from ricefields can be abated. This study presents the contribution of Philippine rice cultivation to global methane emission and breakthroughs in methane emission studies in the country which address the issue of mitigation. Using the derived emission factors from local measurements, rice cultivation contributes 566.6 Gg of methane emission in the Philippines. This value is 62% of the total methane emitted from the agriculture sector. The emission factors employed which are 78% of the IPCC value for irrigated rice and 95% for rainfed rice were derived from measurements with an automatic system taken during the growth duration in the respective ecosystems. Plots drained for 2 weeks at midtillering and before harvest gave a significant reduction in methane emission as opposed to continuously flooded plots and plots drained before harvest. The cultivar Magat reduced methane emission by 50% as compared to the check variety IR72. The application of ammonium sulfate instead of urea reduced methane emission by 10% to 34%. Addition of 6 t ha{sup {minus}1} phosphogypsum in combination with urea reduced emission by 74% as opposed to plots applied with urea alone. It is also from the results of such measurements that abatement strategies are based as regards to modifying treatments such as water management, fertilization, and choice of rice variety. It is not easy to identify and recommend mitigation strategies that will fit a particular cropping system. However, the identified mitigation options provide focus for the abatement of methane emission from ricefields.

  1. Infection of rice plants by rice black streaked dwarf virus improves an egg parasitoid, Anagrus nilaparvatae (Hymenoptera: Mymaridae), of rice planthoppers.

    PubMed

    Xu, Hongxing; He, Xiaochan; Zheng, Xusong; Yang, Yajun; Tian, Junce; Lu, Zhongxian

    2014-10-01

    The effects of rice plants infected by rice black streaked dwarf virus (RBSDV) on the host preference, duration of immature stages, sex ratio, and adult longevity and parasitic capacity of an egg parasitoid, Anagrus nilaparvatae Pang et Wang, of rice brown planthopper, Nilaparvata lugens Stål, were evaluated. Tests of response to plant volatiles using an olfactometer showed that A. nilaparvatae preferred rice plants harboring rice brown planthopper eggs over plants free of rice brown planthopper eggs. However, both the response to plant volatiles and the host selectivity test showed no significant differences in host preference between RBSDV-infected plants and healthy plants when both contained rice brown planthopper eggs. The developmental duration at immature stage of the male A. nilaparvatae in rice brown planthopper eggs on RBSDV-infected rice plants was significantly prolonged, and the parasitic capacity of rice brown planthopper eggs was significantly increased in comparison with the A. nilaparvatae parasite in rice brown planthopper eggs on healthy rice plants. There were no significant differences between RBSDV-infected rice plants and healthy rice plants in other ecological fitness parameters, including the developmental duration of female adults, female percentage, and adult longevity of A. nilaparvatae.

  2. Residues of chlorantraniliprole in rice field ecosystem.

    PubMed

    Zhang, Jin-Ming; Chai, Wei-Gang; Wu, Yin-Liang

    2012-04-01

    The fate of chlorantraniliprole was studied in rice field ecosystem, and a simple and reliable analytical method was developed for determination of chlorantraniliprole in soil, rice straw, paddy water and brown rice. Chlorantraniliprole residues were extracted from samples with acetonitrile. The extract was cleaned up with QuEChERS (Quick, Easy, Cheap, Effective, Rugged and Safe) method, and determined by high-performance liquid chromatography electrospray ionization tandem mass spectrometry (LC-ESI-MS/MS). The average recoveries were 76.9-82.4% from soil, 83.6-89.3% from rice straw, 95.2-103.1% from paddy water and 84.9-87.7% from brown rice. The relative standard deviation was less than 15%. The limits of detection (LODs) of chlorantraniliprole calculated as a sample concentration (S/N ratio of 3) were 0.012 μg L(-1) for paddy water, 0.15 μg kg(-1) for soil, brown rice and rice straw. The results of the kinetics study of chlorantraniliprole residue showed that chlorantraniliprole degradation in soil, water and rice straw coincided with C=0.01939e(-0.0434t), C=0.01425e(-0.8111t), and C=1.171e(-0.198t), respectively; the half-lives were about 16.0 d, 0.85 d and 3.50 d, respectively. The degradation rate of chlorantraniliprole in water was the fastest, followed by rice straw. The final residues of chlorantraniliprole on brown rice were lower than maximum residue limit (MRL) of 0.02 mg kg(-1) after 14 d Pre-Harvest Interval (PHI). Therefore, a dosage of 150 mL a.i.hm(-2) was recommended, which could be considered as safe to human beings and animals.

  3. Changes in rice allelopathy and rhizosphere microflora by inhibiting rice phenylalanine ammonia-lyase gene expression.

    PubMed

    Fang, Changxun; Zhuang, Yuee; Xu, Tiecheng; Li, Yingzhe; Li, Yue; Lin, Wenxiong

    2013-02-01

    Gene expression of phenylalanine ammonia-lyase (PAL) in allelopathic rice PI312777 was inhibited by RNA interference (RNAi). Transgenic rice showed lower levels of PAL gene expression and PAL activity than wild type rice (WT). The concentrations of phenolic compounds were lower in the root tissues and root exudates of transgenic rice than in those of wild type plants. When barndyardgrass (BYG) was used as the receiver plant, the allelopathic potential of transgenic rice was reduced. The sizes of the bacterial and fungal populations in rice rhizospheric soil at the 3-, 5-, and 7-leaf stages were estimated by using quantitative PCR (qPCR), which showed a decrease in both populations at all stages of leaf development analyzed. However, PI312777 had a larger microbial population than transgenic rice. In addition, in T-RFLP studies, 14 different groups of bacteria were detected in WT and only 6 were detected in transgenic rice. This indicates that there was less rhizospheric bacterial diversity associated with transgenic rice than with WT. These findings collectively suggest that PAL functions as a positive regulator of rice allelopathic potential.

  4. Can the co-cultivation of rice and fish help sustain rice production?

    NASA Astrophysics Data System (ADS)

    Hu, Liangliang; Zhang, Jian; Ren, Weizheng; Guo, Liang; Cheng, Yongxu; Li, Jiayao; Li, Kexin; Zhu, Zewen; Zhang, Jiaen; Luo, Shiming; Cheng, Lei; Tang, Jianjun; Chen, Xin

    2016-06-01

    Because rice feeds half of the world’s population, a secure global food supply depends on sustainable rice production. Here we test whether the co-cultivation of rice and fish into one “rice-fish system” (RFS; fish refers to aquatic animals in this article) could help sustain rice production. We examined intensive and traditional RFSs that have been widely practiced in China. We found that rice yields did not decrease when fish yield was below a threshold value in each intensive RFS. Below the thresholds, moreover, fish yields in intensive RFSs can be substantially higher than those in traditional RFS without reducing rice yield. Relative to rice monoculture, the use of fertilizer-nitrogen and pesticides decreased, and the farmers’ net income increased in RFSs. The results suggest that RFSs can help sustain rice production, and suggest that development of co-culture technologies (i.e. proper field configuration for fish and rice) is necessary to achieve the sustainability.

  5. Can the co-cultivation of rice and fish help sustain rice production?

    PubMed Central

    Hu, Liangliang; Zhang, Jian; Ren, Weizheng; Guo, Liang; Cheng, Yongxu; Li, Jiayao; Li, Kexin; Zhu, Zewen; Zhang, Jiaen; Luo, Shiming; Cheng, Lei; Tang, Jianjun; Chen, Xin

    2016-01-01

    Because rice feeds half of the world’s population, a secure global food supply depends on sustainable rice production. Here we test whether the co-cultivation of rice and fish into one “rice-fish system” (RFS; fish refers to aquatic animals in this article) could help sustain rice production. We examined intensive and traditional RFSs that have been widely practiced in China. We found that rice yields did not decrease when fish yield was below a threshold value in each intensive RFS. Below the thresholds, moreover, fish yields in intensive RFSs can be substantially higher than those in traditional RFS without reducing rice yield. Relative to rice monoculture, the use of fertilizer-nitrogen and pesticides decreased, and the farmers’ net income increased in RFSs. The results suggest that RFSs can help sustain rice production, and suggest that development of co-culture technologies (i.e. proper field configuration for fish and rice) is necessary to achieve the sustainability. PMID:27349875

  6. Rice Domestication Revealed by Reduced Shattering of Archaeological rice from the Lower Yangtze valley

    PubMed Central

    Zheng, Yunfei; Crawford, Gary W.; Jiang, Leping; Chen, Xugao

    2016-01-01

    Plant remains dating to between 9000 and 8400 BP from a probable ditch structure at the Huxi site include the oldest rice (Oryza sativa) spikelet bases and associated plant remains recovered in China. The remains document an early stage of rice domestication and the ecological setting in which early cultivation was taking place. The rice spikelet bases from Huxi include wild (shattering), intermediate, and domesticated (non-shattering) forms. The relative frequency of intermediate and non-shattering spikelet bases indicates that selection for, at the very least, non-shattering rice was underway at Huxi. The rice also has characteristics of japonica rice (Oryza sativa subsp. japonica), helping to clarify the emergence of a significant lineage of the crop. Seeds, phytoliths and their context provide evidence of increasing anthropogenesis and cultivation during the occupation. Rice spikelet bases from Kuahuqiao (8000–7700 BP), Tianluoshan (7000–6500 BP), Majiabang (6300–6000 BP), and Liangzhu (5300–4300 BP) sites indicate that rice underwent continuing selection for reduced shattering and japonica rice characteristics, confirming a prolonged domestication process for rice. PMID:27324699

  7. Glycaemic index of some commercially available rice and rice products in Great Britain.

    PubMed

    Ranawana, D V; Henry, C J K; Lightowler, H J; Wang, D

    2009-01-01

    The glycaemic response to nine types of rice (white basmati, brown basmati, white and brown basmati, easy-cook basmati, basmati and wild rice, long-grain rice, easy-cook long-grain rice, Thai red rice, Thai glutinous rice) and two types of rice vermicelli (Guilin rice vermicelli, Jiangxi rice vermicelli) commercially available in the United Kingdom were compared against a glucose standard in a non-blind, randomized, repeated-measure, crossover design trial. Fourteen healthy subjects (six males, eight females), mean age 38 (standard deviation 16) years and mean body mass index 21.3 (standard deviation 2.3) kg/m(2), were recruited for the study. Subjects were served portions of the test foods and a standard food (glucose), on separate occasions, each containing 50 g available carbohydrates. Capillary blood glucose was measured from finger-prick samples in fasted subjects (-5 and 0 min) and at 15, 30, 45, 60, 90 and 120 min after the consumption of each test food. For each type of food, its glycaemic index (GI) was calculated geometrically by expressing the incremental area under the blood glucose curve as a percentage of each subject's average incremental area under the blood glucose curve for the standard food. The 10 foods exhibited a range of GI values from 37 to 92. The study indicated that rice noodles, long-grain rice, easy-cook long-grain rice and white basmati rice were low-GI foods, whilst all of the other foods were medium-GI and high-GI foods. The information presented in this paper may be useful in helping people select low-GI foods from the customary foods consumed by the British and Asian populations.

  8. 7 CFR 319.55a - Administrative instructions relating to entry of rice straw and rice hulls into Guam.

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ... 7 Agriculture 5 2012-01-01 2012-01-01 false Administrative instructions relating to entry of rice straw and rice hulls into Guam. 319.55a Section 319.55a Agriculture Regulations of the Department of... QUARANTINE NOTICES Rice Quarantine § 319.55a Administrative instructions relating to entry of rice straw...

  9. 7 CFR 319.55a - Administrative instructions relating to entry of rice straw and rice hulls into Guam.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... 7 Agriculture 5 2013-01-01 2013-01-01 false Administrative instructions relating to entry of rice straw and rice hulls into Guam. 319.55a Section 319.55a Agriculture Regulations of the Department of... QUARANTINE NOTICES Rice Quarantine § 319.55a Administrative instructions relating to entry of rice straw...

  10. 7 CFR 319.55a - Administrative instructions relating to entry of rice straw and rice hulls into Guam.

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    ... 7 Agriculture 5 2014-01-01 2014-01-01 false Administrative instructions relating to entry of rice straw and rice hulls into Guam. 319.55a Section 319.55a Agriculture Regulations of the Department of... QUARANTINE NOTICES Rice Quarantine § 319.55a Administrative instructions relating to entry of rice straw...

  11. 7 CFR 319.55a - Administrative instructions relating to entry of rice straw and rice hulls into Guam.

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... 7 Agriculture 5 2011-01-01 2011-01-01 false Administrative instructions relating to entry of rice straw and rice hulls into Guam. 319.55a Section 319.55a Agriculture Regulations of the Department of... QUARANTINE NOTICES Rice Quarantine § 319.55a Administrative instructions relating to entry of rice straw...

  12. 7 CFR 319.55a - Administrative instructions relating to entry of rice straw and rice hulls into Guam.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... 7 Agriculture 5 2010-01-01 2010-01-01 false Administrative instructions relating to entry of rice straw and rice hulls into Guam. 319.55a Section 319.55a Agriculture Regulations of the Department of... QUARANTINE NOTICES Rice Quarantine § 319.55a Administrative instructions relating to entry of rice straw...

  13. Analysis of rice blast resistance gene Pi-z in rice germplasm using pathogenicity assays and DNA markers

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The Pi-z(t) gene in rice confers resistance to a wide range of races of the rice blast fungus, Magnaporthe oryzae. The objective of this study was to characterize Pi-z(t) in 117 rice germplasm accessions using DNA markers and pathogenicity assays. The existence of Pi-z(t) in rice germplasm was detec...

  14. Evolutionary dynamics and structure of the rice blast resistance locus Pi-ta in wild, cultivated, and US weedy rice

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The Pi-ta gene in rice has been used to control rice blast pathogen, Magnaporthe oryza, in rice growing areas worldwide for decades. To understand the evolutionary process and natural selection of Pi-ta during rice domestication, we first examined sequences of the genomic region of Pi-ta in geograph...

  15. Rice Crop Monitoring by Earth Observation Data in the Asian Region

    NASA Astrophysics Data System (ADS)

    Oyoshi, K.; Sobue, S.; Tomiyama, N.; Okumura, T.; Rakwatin, P.

    2012-12-01

    Food security is a critical issue for the international community. In June 2011, the meeting of G20 agriculture ministers was held to discuss global food security and they agreed on an "Action Plan on Food Price Volatility and Agriculture". This plan includes a GEO Global Agricultural Monitoring (GEO-GLAM) initiative which utilizes remote sensing to improve projections of crop production and weather forecasting. Hence, satellite remote sensing is expected to contribute national, regional and global food security through the systematic and efficient collection of food security related information such as agro-meteorological condition, crop growth or yield estimation. Food security related information is utilized to take mitigation strategies or policies to manage food shortages or trading, and ensure food security. Especially in Asia, rice is the most important cereal crop because Asian countries are responsible for approximately 90% of the world rice productions and consumptions. There- fore, Asian countries are expected to contribute GLAM through the construction of rice crop monitoring system. We demonstrated the estimation of rice production, the crop phenology monitoring by Earth Observation (EO) data. The aim of this study is to establish a prototype system designed to provide paddy rice area and yield estimation. Generally, crop yield estimation is consist of two components, cultivated area and yield per area. The cultivated areas of paddy field are detected by the seasonal pattern of SAR data over paddy field. This means paddy field is filled with water just before planting rice, then covered by dense vegetation in growing season. The paddy filed map was derived from the seasonal Advanced Land Observation Satellite (ALOS) Phased Array type L-band Synthetic Aperture Radar (PALSAR) data with a simple threshold method. Then, to estimate rice productivity, we applied a simple rice crop model. The input data to the model are physical and chemical properties of

  16. Rice TOGO Browser: A platform to retrieve integrated information on rice functional and applied genomics.

    PubMed

    Nagamura, Yoshiaki; Antonio, Baltazar A; Sato, Yutaka; Miyao, Akio; Namiki, Nobukazu; Yonemaru, Jun-ichi; Minami, Hiroshi; Kamatsuki, Kaori; Shimura, Kan; Shimizu, Yuji; Hirochika, Hirohiko

    2011-02-01

    The Rice TOGO Browser is an online public resource designed to facilitate integration and visualization of mapping data of bacterial artificial chromosome (BAC)/P1-derived artificial chromosome (PAC) clones, genes, restriction fragment length polymorphism (RFLP)/simple sequence repeat (SSR) markers and phenotype data represented as quantitative trait loci (QTLs) onto the genome sequence, and to provide a platform for more efficient utilization of genome information from the point of view of applied genomics as well as functional genomics. Three search options, namely keyword search, region search and trait search, generate various types of data in a user-friendly interface with three distinct viewers, a chromosome viewer, an integrated map viewer and a sequence viewer, thereby providing the opportunity to view the position of genes and/or QTLs at the chromosomal level and to retrieve any sequence information in a user-defined genome region. Furthermore, the gene list, marker list and genome sequence in a specified region delineated by RFLP/SSR markers and any sequences designed as primers can be viewed and downloaded to support forward genetics approaches. An additional feature of this database is the graphical viewer for BLAST search to reveal information not only for regions with significant sequence similarity but also for regions adjacent to those with similarity but with no hits between sequences. An easy to use and intuitive user interface can help a wide range of users in retrieving integrated mapping information including agronomically important traits on the rice genome sequence. The database can be accessed at http://agri-trait.dna.affrc.go.jp/.

  17. Insulating panels with rice husk

    SciTech Connect

    Salas, J.; Veras, J.

    1986-01-01

    This study includes the quantitative results of tests caried out on 7.5 x 15.0 cm cylindrical test pieces and fullsized panels with a cement and rice husk, produced by using means belonging to the so-called ''appropriate technologies''. These results are summarized and analyzed with a view to providing a possible alternative for substituting other insulating materials, which are generally imported, in developing countries. The technical results presented point towards a promising future for the task undertaken, within the context of a research project on ''materials, technologies and prototypes for very low-cost housing'' which, in a - multinational capacity, is being developed at the Instituto E. Torroja.

  18. Association of Rice and Rice-Product Consumption With Arsenic Exposure Early in Life

    PubMed Central

    Karagas, Margaret R.; Punshon, Tracy; Sayarath, Vicki; Jackson, Brian P.; Folt, Carol L.; Cottingham, Kathryn L.

    2016-01-01

    IMPORTANCE Rice—a typical first food and major ingredient in various infant foods—contains inorganic arsenic (As), but the extent of As exposure from these foods has not been well characterized in early childhood. OBJECTIVE To determine the types and frequency of rice and rice-containing products consumed by infants in the first year of life and the association with As biomarker concentrations. DESIGN, SETTING, AND PARTICIPANTS Included were infants from singleton births of pregnant women enrolled in the New Hampshire Birth Cohort Study from 2011 to 2014 whose parents were interviewed during their first year of life. Enrolled women from selected clinics were aged 18 to 45 years, living in the same residence since their last menstrual period, in households served by a private water system, and had no plans to move during pregnancy. Data on infants’ intake of rice and rice products were collected from interviews with their parents at 4, 8, and 12 months’ follow-up and from a 3-day food diary at 12 months from March 2013 to August 2014. EXPOSURES Infants’ intake of rice and rice products. MAIN OUTCOMES AND MEASURES Total urinary As and the sum of As species measured using inductively coupled mass spectrometry and high-performance liquid chromatography with inductively coupled mass spectrometry. Commonly reported infant rice snacks were tested for As. RESULTS We obtained dietary data on 759 of 951 infants (79.8% participation rate). Of these, 391 infants (51.7%) were male, and the mean (SD) gestational age was 39.4 (1.7) weeks. An estimated 80% were introduced to rice cereal during their first year. At 12 months, 32.6% of infants (42 of 129) were fed rice snacks. Among infants aged 12 months who did not eat fish or seafood, the geometric mean total urinary As concentrations were higher among those who ate infant rice cereal (9.53 μg/L) or rice snacks (4.97 μg/L) compared with those who did not eat rice or rice products (2.85 μg/L; all P < .01). Infant rice

  19. Simultaneous Identification of Multiple Causal Mutations in Rice

    PubMed Central

    Yan, Wei; Chen, Zhufeng; Lu, Jiawei; Xu, Chunjue; Xie, Gang; Li, Yiqi; Deng, Xing Wang; He, Hang; Tang, Xiaoyan

    2017-01-01

    Next-generation sequencing technologies (NGST) are being used to discover causal mutations in ethyl methanesulfonate (EMS)-mutagenized plant populations. However, the published protocols often deliver too many candidate sites and sometimes fail to find the mutant gene of interest. Accurate identification of the causal mutation from massive background polymorphisms and sequencing deficiencies remains challenging. Here we describe a NGST-based method, named SIMM, that can simultaneously identify the causal mutations in multiple independent mutants. Multiple rice mutants derived from the same parental line were back-crossed, and for each mutant, the derived F2 individuals of the recessive mutant phenotype were pooled and sequenced. The resulting sequences were aligned to the Nipponbare reference genome, and single nucleotide polymorphisms (SNPs) were subsequently compared among the mutants. Allele index (AI) and Euclidean distance (ED) were incorporated into the analysis to reduce noises caused by background polymorphisms and re-sequencing errors. Corrections of sequence bias against GC- and AT-rich sequences in the candidate region were conducted when necessary. Using this method, we successfully identified seven new mutant alleles from Huanghuazhan (HHZ), an elite indica rice cultivar in China. All mutant alleles were validated by phenotype association assay. A pipeline based on Perl scripts for SIMM is publicly available at https://sourceforge.net/projects/simm/. PMID:28144247

  20. Improvement of Rice Biomass Yield through QTL-Based Selection

    PubMed Central

    Matsubara, Kazuki; Yamamoto, Eiji; Kobayashi, Nobuya; Ishii, Takuro; Tanaka, Junichi; Tsunematsu, Hiroshi; Yoshinaga, Satoshi; Matsumura, Osamu; Yonemaru, Jun-ichi; Mizobuchi, Ritsuko; Yamamoto, Toshio; Kato, Hiroshi; Yano, Masahiro

    2016-01-01

    Biomass yield of rice (Oryza sativa L.) is an important breeding target, yet it is not easy to improve because the trait is complex and phenotyping is laborious. Using progeny derived from a cross between two high-yielding Japanese cultivars, we evaluated whether quantitative trait locus (QTL)-based selection can improve biomass yield. As a measure of biomass yield, we used plant weight (aboveground parts only), which included grain weight and stem and leaf weight. We measured these and related traits in recombinant inbred lines. Phenotypic values for these traits showed a continuous distribution with transgressive segregation, suggesting that selection can affect plant weight in the progeny. Four significant QTLs were mapped for plant weight, three for grain weight, and five for stem and leaf weight (at α = 0.05); some of them overlapped. Multiple regression analysis showed that about 43% of the phenotypic variance of plant weight was significantly explained (P < 0.0001) by six of the QTLs. From F2 plants derived from the same parental cross as the recombinant inbred lines, we divergently selected lines that carried alleles with positive or negative additive effects at these QTLs, and performed successive selfing. In the resulting F6 lines and parents, plant weight significantly differed among the genotypes (at α = 0.05). These results demonstrate that QTL-based selection is effective in improving rice biomass yield. PMID:26986071

  1. Arsenic Transport in Rice and Biological Solutions to Reduce Arsenic Risk from Rice.

    PubMed

    Chen, Yanshan; Han, Yong-He; Cao, Yue; Zhu, Yong-Guan; Rathinasabapathi, Bala; Ma, Lena Q

    2017-01-01

    Rice (Oryza sativa L.) feeds ∼3 billion people. Due to the wide occurrence of arsenic (As) pollution in paddy soils and its efficient plant uptake, As in rice grains presents health risks. Genetic manipulation may offer an effective approach to reduce As accumulation in rice grains. The genetics of As uptake and metabolism have been elucidated and target genes have been identified for genetic engineering to reduce As accumulation in grains. Key processes controlling As in grains include As uptake, arsenite (AsIII) efflux, arsenate (AsV) reduction and AsIII sequestration, and As methylation and volatilization. Recent advances, including characterization of AsV uptake transporter OsPT8, AsV reductase OsHAC1;1 and OsHAC1;2, rice glutaredoxins, and rice ABC transporter OsABCC1, make many possibilities to develop low-arsenic rice.

  2. Phylogeography of Asian wild rice, Oryza rufipogon, reveals multiple independent domestications of cultivated rice, Oryza sativa.

    PubMed

    Londo, Jason P; Chiang, Yu-Chung; Hung, Kuo-Hsiang; Chiang, Tzen-Yuh; Schaal, Barbara A

    2006-06-20

    Cultivated rice, Oryza sativa L., represents the world's most important staple food crop, feeding more than half of the human population. Despite this essential role in world agriculture, the history of cultivated rice's domestication from its wild ancestor, Oryza rufipogon, remains unclear. In this study, DNA sequence variation in three gene regions is examined in a phylogeographic approach to investigate the domestication of cultivated rice. Results indicate that India and Indochina may represent the ancestral center of diversity for O. rufipogon. Additionally, the data suggest that cultivated rice was domesticated at least twice from different O. rufipogon populations and that the products of these two independent domestication events are the two major rice varieties, Oryza sativa indica and Oryza sativa japonica. Based on this geographical analysis, O. sativa indica was domesticated within a region south of the Himalaya mountain range, likely eastern India, Myanmar, and Thailand, whereas O. sativa japonica was domesticated from wild rice in southern China.

  3. Arsenic Transport in Rice and Biological Solutions to Reduce Arsenic Risk from Rice

    PubMed Central

    Chen, Yanshan; Han, Yong-He; Cao, Yue; Zhu, Yong-Guan; Rathinasabapathi, Bala; Ma, Lena Q.

    2017-01-01

    Rice (Oryza sativa L.) feeds ∼3 billion people. Due to the wide occurrence of arsenic (As) pollution in paddy soils and its efficient plant uptake, As in rice grains presents health risks. Genetic manipulation may offer an effective approach to reduce As accumulation in rice grains. The genetics of As uptake and metabolism have been elucidated and target genes have been identified for genetic engineering to reduce As accumulation in grains. Key processes controlling As in grains include As uptake, arsenite (AsIII) efflux, arsenate (AsV) reduction and AsIII sequestration, and As methylation and volatilization. Recent advances, including characterization of AsV uptake transporter OsPT8, AsV reductase OsHAC1;1 and OsHAC1;2, rice glutaredoxins, and rice ABC transporter OsABCC1, make many possibilities to develop low-arsenic rice. PMID:28298917

  4. An Innovative Modeling and Measurement Approach to Improve Rice Water Use Efficiency in California

    NASA Astrophysics Data System (ADS)

    Montazar, A.; Little, C.; Rejmanek, H.; Tindula, G.; Snyder, R. L.

    2014-12-01

    California is amongst the top rice producing states in the USA, and more than 95 percent of California's rice is grown in the Sacramento Valley. Based on older literature, the rice water requirement (ETc), ranges between 914 and 1,100 mm. In this study, the actual rice water requirement was measured using the residual of the energy balance method over three paddy rice fields during 2011-2013 seasons in the Sacramento Valley. Net radiation and ground heat flux density were measured, and both eddy covariance (EC) and the surface renewal (SR) technique were employed to determine the sensible heat flux density. The surface renewal method uses high frequency temperature measurements from fine wire thermocouples above the canopy. Mean amplitude and duration of the ramps over half hour periods were determined using a structure function and the characteristics are employed to estimate the direction and magnitude of sensible heat flux using the ratio of the amplitude to the ramp duration as the change in temperature per unit time and the volumetric heat capacity of the air to estimate the magnitude of the heat flux. In the study, 76.2 mm diameter chromel-constantan thermocouples were used to measure high frequency temperature at 10 Hz. The results indicate that there is considerable variability in rice water use both spatially and temporally. The average three-year measured ET of the experimental fields located in Butte County was 734 and 725 mm; and in Colusa County was 771 mm. A typical crop coefficient (Kc) curve was derived from the measured ETc and reference ET (ETo) data. Spatial estimates of monthly climate data from the Sacramento Valley were used to calculate monthly mean ETo, and smooth curve fits of the monthly data gave estimates of typical daily ETo. The daily ETc was calculated as the product of ETo and Kc, and seasonal ETc was calculated by summing the daily ETc values. The results reveal that the seasonal rice ETc was less than earlier estimates. Surface

  5. Spatial Field Variability Mapping of Rice Crop using Clustering Technique from Space Borne Hyperspectral Data

    NASA Astrophysics Data System (ADS)

    Moharana, S.; Dutta, S.

    2015-12-01

    Precision farming refers to field-specific management of an agricultural crop at a spatial scale with an aim to get the highest achievable yield and to achieve this spatial information on field variability is essential. The difficulty in mapping of spatial variability occurring within an agriculture field can be revealed by employing spectral techniques in hyperspectral imagery rather than multispectral imagery. However an advanced algorithm needs to be developed to fully make use of the rich information content in hyperspectral data. In the present study, potential of hyperspectral data acquired from space platform was examined to map the field variation of paddy crop and its species discrimination. This high dimensional data comprising 242 spectral narrow bands with 30m ground resolution Hyperion L1R product acquired for Assam, India (30th Sept and 3rd Oct, 2014) were allowed for necessary pre-processing steps followed by geometric correction using Hyperion L1GST product. Finally an atmospherically corrected and spatially deduced image consisting of 112 band was obtained. By employing an advanced clustering algorithm, 12 different clusters of spectral waveforms of the crop were generated from six paddy fields for each images. The findings showed that, some clusters were well discriminated representing specific rice genotypes and some clusters were mixed treating as a single rice genotype. As vegetation index (VI) is the best indicator of vegetation mapping, three ratio based VI maps were also generated and unsupervised classification was performed for it. The so obtained 12 clusters of paddy crop were mapped spatially to the derived VI maps. From these findings, the existence of heterogeneity was clearly captured in one of the 6 rice plots (rice plot no. 1) while heterogeneity was observed in rest of the 5 rice plots. The degree of heterogeneous was found more in rice plot no.6 as compared to other plots. Subsequently, spatial variability of paddy field was

  6. Fine mapping of the lesion mimic and early senescence 1 (lmes1) in rice (Oryza sativa).

    PubMed

    Li, Zhi; Zhang, Yingxin; Liu, Lin; Liu, Qunen; Bi, Zhenzhen; Yu, Ning; Cheng, Shihua; Cao, Liyong

    2014-07-01

    A novel rice mutant, lesion mimic and early senescence 1 (lmes1), was induced from the rice 93-11 cultivar in a γ-ray field. This mutant exhibited spontaneous disease-like lesions in the absence of pathogen attack at the beginning of the tillering stage. Moreover, at the booting stage, lmes1 mutants exhibited a significantly increased MDA but decreased chlorophyll content, soluble protein content and photosynthetic rate in the leaves, which are indicative of an early senescence phenotype. The lmes1 mutant was significantly more resistant than 93-11 against rice bacterial blight infection, which was consistent with a marked increase in the expression of three resistance-related genes. Here, we employed a map-based cloning approach to finely map the lmes1 gene. In an initial mapping with 94 F2 individuals derived from a cross between the lmes1 mutant and Nipponbare, the lmes1 gene was located in a 10.6-cM region on the telomere of the long arm of chromosome 7 using simple sequence repeat (SSR) markers. To finely map lmes1, we derived two F2 populations with 940 individuals from two crosses between the lmes1 mutant and two japonica rice varieties, Nipponbare and 02428. Finally, the lmes1 gene was mapped to an 88-kb region between two newly developed inDel markers, Zl-3 and Zl-22, which harbored 15 ORFs.

  7. Efficient Secretion of Recombinant Proteins from Rice Suspension-Cultured Cells Modulated by the Choice of Signal Peptide

    PubMed Central

    Huang, Li-Fen; Tan, Chia-Chun; Yeh, Ju-Fang; Liu, Hsin-Yi; Liu, Yu-Kuo; Ho, Shin-Lon; Lu, Chung-An

    2015-01-01

    Plant-based expression systems have emerged as a competitive platform in the large-scale production of recombinant proteins. By adding a signal peptide, αAmy3sp, the desired recombinant proteins can be secreted outside transgenic rice cells, making them easy to harvest. In this work, to improve the secretion efficiency of recombinant proteins in rice expression systems, various signal peptides including αAmy3sp, CIN1sp, and 33KDsp have been fused to the N-terminus of green fluorescent protein (GFP) and introduced into rice cells to explore the efficiency of secretion of foreign proteins. 33KDsp had better efficiency than αAmy3sp and CIN1sp for the secretion of GFP from calli and suspension-cultured cells. 33KDsp was further applied for the secretion of mouse granulocyte-macrophage colony-stimulating factor (mGM-CSF) from transgenic rice suspension-cultured cells; approximately 76%–92% of total rice-derived mGM-CSF (rmGM-CSF) was detected in the culture medium. The rmGM-CSF was bioactive and could stimulate the proliferation of a murine myeloblastic leukemia cell line, NSF-60. The extracellular yield of rmGM-CSF reached 31.7 mg/L. Our study indicates that 33KDsp is better at promoting the secretion of recombinant proteins in rice suspension-cultured cell systems than the commonly used αAmy3sp. PMID:26473722

  8. Enhancement of innate immune system in monocot rice by transferring the dicotyledonous elongation factor Tu receptor EFR.

    PubMed

    Lu, Fen; Wang, Huiqin; Wang, Shanzhi; Jiang, Wendi; Shan, Changlin; Li, Bin; Yang, Jun; Zhang, Shiyong; Sun, Wenxian

    2015-07-01

    The elongation factor Tu (EF-Tu) receptor (EFR) in cruciferous plants specifically recognizes the N-terminal acetylated elf18 region of bacterial EF-Tu and thereby activates plant immunity. It has been demonstrated that Arabidopsis EFR confers broad-spectrum bacterial resistance in the EFR transgenic solanaceous plants. Here, the transgenic rice plants (Oryza sativa L. ssp. japonica cv. Zhonghua 17) and cell cultures with constitutive expression of AtEFR were developed to investigate whether AtEFR senses EF-Tu and thus enhances bacterial resistance in the monocot plants. We demonstrated that the Xanthomonas oryzae-derived elf18 peptide induced oxidative burst and mitogen-activated protein kinase activation in the AtEFR transgenic rice cells and plants, respectively. Pathogenesis-related genes, such as OsPBZ1, were upregulated dramatically in transgenic rice plant and cell lines in response to elf18 stimulation. Importantly, pretreatment with elf18 triggered strong resistance to X. oryzae pv. oryzae in the transgenic plants, which was largely dependent on the AtEFR expression level. These plants also exhibited enhanced resistance to rice bacterial brown stripe, but not to rice fungal blast. Collectively, the results indicate that the rice plants with heterologous expression of AtEFR recognize bacterial EF-Tu and exhibit enhanced broad-spectrum bacterial disease resistance and that pattern recognition receptor-mediated immunity may be manipulated across the two plant classes, dicots and monocots.

  9. GOLGI TRANSPORT 1B Regulates Protein Export from the Endoplasmic Reticulum in Rice Endosperm Cells[OPEN

    PubMed Central

    Liu, Feng; Wang, Yunlong; Liu, Xi; Wang, Di; Zhu, Xiaopin; Jing, Ruonan; Wu, Mingming; Hao, Yuanyuan; Jiang, Ling; Wang, Chunming

    2016-01-01

    Coat protein complex II (COPII) mediates the first step of anterograde transport of newly synthesized proteins from the endoplasmic reticulum (ER) to other endomembrane compartments in eukaryotes. A group of evolutionarily conserved proteins (Sar1, Sec23, Sec24, Sec13, and Sec31) constitutes the basic COPII coat machinery; however, the details of how the COPII coat assembly is regulated remain unclear. Here, we report a protein transport mutant of rice (Oryza sativa), named glutelin precursor accumulation4 (gpa4), which accumulates 57-kD glutelin precursors and forms two types of ER-derived abnormal structures. GPA4 encodes the evolutionarily conserved membrane protein GOT1B (also known as GLUP2), homologous to the Saccharomyces cerevisiae GOT1p. The rice GOT1B protein colocalizes with Arabidopsis thaliana Sar1b at Golgi-associated ER exit sites (ERESs) when they are coexpressed in Nicotiana benthamiana. Moreover, GOT1B physically interacts with rice Sec23, and both proteins are present in the same complex(es) with rice Sar1b. The distribution of rice Sar1 in the endomembrane system, its association with rice Sec23c, and the ERES organization pattern are significantly altered in the gpa4 mutant. Taken together, our results suggest that GOT1B plays an important role in mediating COPII vesicle formation at ERESs, thus facilitating anterograde transport of secretory proteins in plant cells. PMID:27803308

  10. Genetic analysis and identification of SSR markers associated with rice blast disease in a BC2F1 backcross population.

    PubMed

    Hasan, N; Rafii, M Y; Abdul Rahim, H; Nusaibah, S A; Mazlan, N; Abdullah, S

    2017-01-23

    Rice (Oryza sativa L.) blast disease is one of the most destructive rice diseases in the world. The fungal pathogen, Magnaporthe oryzae, is the causal agent of rice blast disease. Development of resistant cultivars is the most preferred method to achieve sustainable rice production. However, the effectiveness of resistant cultivars is hindered by the genetic plasticity of the pathogen genome. Therefore, information on genetic resistance and virulence stability are vital to increase our understanding of the molecular basis of blast disease resistance. The present study set out to elucidate the resistance pattern and identify potential simple sequence repeat markers linked with rice blast disease. A backcross population (BC2F1), derived from crossing MR264 and Pongsu Seribu 2 (PS2), was developed using marker-assisted backcross breeding. Twelve microsatellite markers carrying the blast resistance gene clearly demonstrated a polymorphic pattern between both parental lines. Among these, two markers, RM206 and RM5961, located on chromosome 11 exhibited the expected 1:1 testcross ratio in the BC2F1 population. The 195 BC2F1 plants inoculated against M. oryzae pathotype P7.2 showed a significantly different distribution in the backcrossed generation and followed Mendelian segregation based on a single-gene model. This indicates that blast resistance in PS2 is governed by a single dominant gene, which is linked to RM206 and RM5961 on chromosome 11. The findings presented in this study could be useful for future blast resistance studies in rice breeding programs.

  11. Disruption of a rice pentatricopeptide repeat protein causes a seedling-specific albino phenotype and its utilization to enhance seed purity in hybrid rice production.

    PubMed

    Su, Ning; Hu, Mao-Long; Wu, Dian-Xing; Wu, Fu-Qing; Fei, Gui-Lin; Lan, Ying; Chen, Xiu-Ling; Shu, Xiao-Li; Zhang, Xin; Guo, Xiu-Ping; Cheng, Zhi-Jun; Lei, Cai-Lin; Qi, Cun-Kou; Jiang, Ling; Wang, Haiyang; Wan, Jian-Min

    2012-05-01

    The pentatricopeptide repeat (PPR) gene family represents one of the largest gene families in higher plants. Accumulating data suggest that PPR proteins play a central and broad role in modulating the expression of organellar genes in plants. Here we report a rice (Oryza sativa) mutant named young seedling albino (ysa) derived from the rice thermo/photoperiod-sensitive genic male-sterile line Pei'ai64S, which is a leading male-sterile line for commercial two-line hybrid rice production. The ysa mutant develops albino leaves before the three-leaf stage, but the mutant gradually turns green and recovers to normal green at the six-leaf stage. Further investigation showed that the change in leaf color in ysa mutant is associated with changes in chlorophyll content and chloroplast development. Map-based cloning revealed that YSA encodes a PPR protein with 16 tandem PPR motifs. YSA is highly expressed in young leaves and stems, and its expression level is regulated by light. We showed that the ysa mutation has no apparent negative effects on several important agronomic traits, such as fertility, stigma extrusion rate, selfed seed-setting rate, hybrid seed-setting rate, and yield heterosis under normal growth conditions. We further demonstrated that ysa can be used as an early marker for efficient identification and elimination of false hybrids in commercial hybrid rice production, resulting in yield increases by up to approximately 537 kg ha(-1).

  12. Critical Importance of alpha-glucosidase contained in rice kernel for alcohol fermentation of rice polish.

    PubMed

    Iwata, Hiroshi; Suzuki, Toshiaki; Takahashi, Kazuhide; Aramaki, Isao

    2002-01-01

    In our previous study, we proposed a new alcoholic beverage called nuka-sake, which is made from uncooked rice polish without any enzyme source such as koji. In nuka-sake brewing, the uncooked rice polish serves not only as the fermentation material but also as the enzyme source. In the present study, the results of both laboratory-scale nuka-sake brewing runs with various grades of rice polish and analysis of amylolitic enzyme distribution in rice polish suggested that alpha-glucosidase (EC 3.2.1.20) is a key enzyme of parallel fermentation in nuka-sake brewing. Miglitol, a specific inhibitor of alpha-glucosidase, strongly inhibited glucose production from rice polish. To obtain further evidence regarding the contribution of alpha-glucosidase, this enzyme was purified from rice grain kernels (Yamadanishiki cultivar) and supplied for both rice polish saccharification and nuka-sake brewing. The purified alpha-glucosidase promoted both glucose production from rice polish and alcohol fermentation in nuka-sake brewing. Based on these results, it was considered that the alpha-glucosidase contained in rice polish plays an important role in glucose production. This role may be a rate-limiting factor for parallel fermentation in nuka-sake brewing. Moreover, oligosaccarides accumulated during the saccharification of uncooked rice polish, implying the contribution of not only alpha-glucosidase but also alpha-amylase (EC 3.2.1.1). Through this result, it can be speculated that the starch contained in rice polish will be decomposed to glucose as a result of the action of alpha-glucosidase and alpha-amylase contained in rice polish.

  13. Statistical rice yield modeling using blended MODIS-Landsat based crop phenology metrics in Taiwan

    NASA Astrophysics Data System (ADS)

    Chen, C. R.; Chen, C. F.; Nguyen, S. T.; Lau, K. V.

    2015-12-01

    Taiwan is a populated island with a majority of residents settled in the western plains where soils are suitable for rice cultivation. Rice is not only the most important commodity, but also plays a critical role for agricultural and food marketing. Information of rice production is thus important for policymakers to devise timely plans for ensuring sustainably socioeconomic development. Because rice fields in Taiwan are generally small and yet crop monitoring requires information of crop phenology associating with the spatiotemporal resolution of satellite data, this study used Landsat-MODIS fusion data for rice yield modeling in Taiwan. We processed the data for the first crop (Feb-Mar to Jun-Jul) and the second (Aug-Sep to Nov-Dec) in 2014 through five main steps: (1) data pre-processing to account for geometric and radiometric errors of Landsat data, (2) Landsat-MODIS data fusion using using the spatial-temporal adaptive reflectance fusion model, (3) construction of the smooth time-series enhanced vegetation index 2 (EVI2), (4) rice yield modeling using EVI2-based crop phenology metrics, and (5) error verification. The fusion results by a comparison bewteen EVI2 derived from the fusion image and that from the reference Landsat image indicated close agreement between the two datasets (R2 > 0.8). We analysed smooth EVI2 curves to extract phenology metrics or phenological variables for establishment of rice yield models. The results indicated that the established yield models significantly explained more than 70% variability in the data (p-value < 0.001). The comparison results between the estimated yields and the government's yield statistics for the first and second crops indicated a close significant relationship between the two datasets (R2 > 0.8), in both cases. The root mean square error (RMSE) and mean absolute error (MAE) used to measure the model accuracy revealed the consistency between the estimated yields and the government's yield statistics. This

  14. 40 CFR 406.60 - Applicability; description of the parboiled rice processing subcategory.

    Code of Federal Regulations, 2014 CFR

    2014-07-01

    ... parboiled rice processing subcategory. 406.60 Section 406.60 Protection of Environment ENVIRONMENTAL... Rice Processing Subcategory § 406.60 Applicability; description of the parboiled rice processing... rice is cleaned, cooked and dried before being milled....

  15. 40 CFR 406.60 - Applicability; description of the parboiled rice processing subcategory.

    Code of Federal Regulations, 2011 CFR

    2011-07-01

    ... parboiled rice processing subcategory. 406.60 Section 406.60 Protection of Environment ENVIRONMENTAL... Rice Processing Subcategory § 406.60 Applicability; description of the parboiled rice processing... rice is cleaned, cooked and dried before being milled....

  16. 40 CFR 406.60 - Applicability; description of the parboiled rice processing subcategory.

    Code of Federal Regulations, 2010 CFR

    2010-07-01

    ... parboiled rice processing subcategory. 406.60 Section 406.60 Protection of Environment ENVIRONMENTAL... Rice Processing Subcategory § 406.60 Applicability; description of the parboiled rice processing... rice is cleaned, cooked and dried before being milled....

  17. 40 CFR 406.60 - Applicability; description of the parboiled rice processing subcategory.

    Code of Federal Regulations, 2013 CFR

    2013-07-01

    ... parboiled rice processing subcategory. 406.60 Section 406.60 Protection of Environment ENVIRONMENTAL... Rice Processing Subcategory § 406.60 Applicability; description of the parboiled rice processing... rice is cleaned, cooked and dried before being milled....

  18. 40 CFR 406.60 - Applicability; description of the parboiled rice processing subcategory.

    Code of Federal Regulations, 2012 CFR

    2012-07-01

    ... parboiled rice processing subcategory. 406.60 Section 406.60 Protection of Environment ENVIRONMENTAL... Rice Processing Subcategory § 406.60 Applicability; description of the parboiled rice processing... rice is cleaned, cooked and dried before being milled....

  19. Understanding the evolution of rice technology in China - from traditional agriculture to GM rice today.

    PubMed

    Shen, Xiaobai

    2010-01-01

    This paper provides an historical survey of the evolution of rice technology in China, from the traditional farming system to genetically modified rice today. Using sociotechnological analytical framework, it analyses rice technology as a socio-technical ensemble - a complex interaction of material and social elements, and discusses the specificity of technology development and its socio-technical outcomes. It points to two imperatives in rice variety development: wholesale transporting agricultural technology and social mechanism to developing countries are likely lead to negative consequences; indigenous innovation including deploying GM technology for seed varietal development and capturing/cultivating local knowledge will provide better solutions.

  20. A map of rice genome variation reveals the origin of cultivated rice.

    PubMed

    Huang, Xuehui; Kurata, Nori; Wei, Xinghua; Wang, Zi-Xuan; Wang, Ahong; Zhao, Qiang; Zhao, Yan; Liu, Kunyan; Lu, Hengyun; Li, Wenjun; Guo, Yunli; Lu, Yiqi; Zhou, Congcong; Fan, Danlin; Weng, Qijun; Zhu, Chuanrang; Huang, Tao; Zhang, Lei; Wang, Yongchun; Feng, Lei; Furuumi, Hiroyasu; Kubo, Takahiko; Miyabayashi, Toshie; Yuan, Xiaoping; Xu, Qun; Dong, Guojun; Zhan, Qilin; Li, Canyang; Fujiyama, Asao; Toyoda, Atsushi; Lu, Tingting; Feng, Qi; Qian, Qian; Li, Jiayang; Han, Bin

    2012-10-25

    Crop domestications are long-term selection experiments that have greatly advanced human civilization. The domestication of cultivated rice (Oryza sativa L.) ranks as one of the most important developments in history. However, its origins and domestication processes are controversial and have long been debated. Here we generate genome sequences from 446 geographically diverse accessions of the wild rice species Oryza rufipogon, the immediate ancestral progenitor of cultivated rice, and from 1,083 cultivated indica and japonica varieties to construct a comprehensive map of rice genome variation. In the search for signatures of selection, we identify 55 selective sweeps that have occurred during domestication. In-depth analyses of the domestication sweeps and genome-wide patterns reveal that Oryza sativa japonica rice was first domesticated from a specific population of O. rufipogon around the middle area of the Pearl River in southern China, and that Oryza sativa indica rice was subsequently developed from crosses between japonica rice and local wild rice as the initial cultivars spread into South East and South Asia. The domestication-associated traits are analysed through high-resolution genetic mapping. This study provides an important resource for rice breeding and an effective genomics approach for crop domestication research.

  1. Creation of transgenic rice plants producing small interfering RNA of Rice tungro spherical virus.

    PubMed

    Le, Dung Tien; Chu, Ha Duc; Sasaya, Takahide

    2015-01-01

    Rice tungro spherical virus (RTSV), also known as Rice waika virus, does not cause visible symptoms in infected rice plants. However, the virus plays a critical role in spreading Rice tungro bacilliform virus (RTBV), which is the major cause of severe symptoms of rice tungro disease. Recent studies showed that RNA interference (RNAi) can be used to develop virus-resistance transgenic rice plants. In this report, we presented simple procedures and protocols needed for the creation of transgenic rice plants capable of producing small interfering RNA specific against RTSV sequences. Notably, our study showed that 60 out of 64 individual hygromycin-resistant lines (putative transgenic lines) obtained through transformation carried transgenes designed for producing hairpin double-stranded RNA. Northern blot analyses revealed the presence of small interfering RNA of 21- to 24-mer in 46 out of 56 confirmed transgenic lines. Taken together, our study indicated that transgenic rice plants carrying an inverted repeat of 500-bp fragments encoding various proteins of RTSV can produce small interfering RNA from the hairpin RNA transcribed from that transgene. In light of recent studies with other viruses, it is possible that some of these transgenic rice lines might be resistant to RTSV.

  2. Lead in rice: analysis of baseline lead levels in market and field collected rice grains.

    PubMed

    Norton, Gareth J; Williams, Paul N; Adomako, Eureka E; Price, Adam H; Zhu, Yongguan; Zhao, Fang-Jie; McGrath, Steve; Deacon, Claire M; Villada, Antia; Sommella, Alessia; Lu, Ying; Ming, Lei; De Silva, P Mangala C S; Brammer, Hugh; Dasgupta, Tapash; Islam, M Rafiqul; Meharg, Andrew A

    2014-07-01

    In a large scale survey of rice grains from markets (13 countries) and fields (6 countries), a total of 1578 rice grain samples were analysed for lead. From the market collected samples, only 0.6% of the samples exceeded the Chinese and EU limit of 0.2 μg g(-1) lead in rice (when excluding samples collected from known contaminated/mine impacted regions). When evaluating the rice grain samples against the Food and Drug Administration's (FDA) provisional total tolerable intake (PTTI) values for children and pregnant women, it was found that only people consuming large quantities of rice were at risk of exceeding the PTTI from rice alone. Furthermore, 6 field experiments were conducted to evaluate the proportion of the variation in lead concentration in rice grains due to genetics. A total of 4 of the 6 field experiments had significant differences between genotypes, but when the genotypes common across all six field sites were assessed, only 4% of the variation was explained by genotype, with 9.5% and 11% of the variation explained by the environment and genotype by environment interaction respectively. Further work is needed to identify the sources of lead contamination in rice, with detailed information obtained on the locations and environments where the rice is sampled, so that specific risk assessments can be performed.

  3. Targeting the aluminum tolerance gene Alt3 region in rye, using rice/rye micro-colinearity.

    PubMed

    Miftahudin; Chikmawati, T; Ross, K; Scoles, G J; Gustafson, J P

    2005-03-01

    Characterization and manipulation of aluminum (Al) tolerance genes offers a solution to Al toxicity problems in crop cultivation on acid soil, which composes approximately 40% of all arable land. By exploiting the rice (Oryza sativa L.)/rye (Secale cereale L.) syntenic relationship, the potential for map-based cloning of genes controlling Al tolerance in rye (the most Al-tolerant cereal) was explored. An attempt to clone an Al tolerance gene (Alt3) from rye was initiated by using DNA markers flanking the rye Alt3 gene, from many cereals. Two rice-derived, PCR-based markers flanking the Alt3 gene, B1 and B4, were used to screen 1,123 plants of a rye F2 population segregating for Alt3. Fifteen recombinant plants were identified. Four additional RFLP markers developed from rice genes/putative genes, spanning 10 kb of a 160-kb rice BAC, were mapped to the Alt3 region. Two rice markers flanked the Alt3 locus at a distance of 0.05 cM, while two others co-segregated with it. The rice/rye micro-colinearity worked very well to delineate and map the Alt3 gene region in rye. A rye fragment suspected to be part of the Alt3 candidate gene was identified, but at this level, the rye/rice microsynteny relationship broke down. Because of sequence differences between rice and rye and the complexity of the rye sequence, we have been unable to clone a full-length candidate gene in rye. Further attempts to clone a full-length rye Alt3 candidate gene will necessitate the creation of a rye large-insert library.

  4. Quantifying methane emissions from rice paddies in Northeast China by integrating remote sensing mapping with a biogeochemical model

    NASA Astrophysics Data System (ADS)

    Zhang, Y.; Wang, Y. Y.; Su, S. L.; Li, C. S.

    2011-01-01

    The Sanjiang Plain located in Northeastern China is one of the major rice producing regions in the country. However, differing from the majority rice regions in Southern China, the Sanjinag Plain possesses a much cooler weather. Could the rice paddies in this domain be an important source of global methane? To answer this question, we calculated methane (CH4) emissions from the region by integrating remote sensing mapping with a process-based biogeochemistry model, Denitrification and Decomposition or DNDC. To quantify regional CH4 emissions from the plain, we first tested the model against a two-year dataset of CH4 fluxes measured at a typical rice field within the domian. A sensitivity test was conducted to find out the most sensitive factors affecting CH4 emissions in the region. Based on the understanding gained from the validation and sensitivity tests, a geographic information system (GIS) database was constructed to hold the spatially differentiated input information to drive DNDC for its regional simulations. The GIS database included a rice map derived from the Landsat TM images, which provided crucial information about the spatial distribution of the rice fields within the domain of 10.93 million hectares. The modeled results showed that the total 1.44 million ha of rice paddies in the plain emitted 0.43-0.58 Tg CH4-C per year with spatially differentiated annual emission rates ranging between 100-800 kg CH4-C/ha, which are comparable with that observed in Southern China. The modeled data indicated that the high SOC contents, long crop season and high rice biomass enhanced CH4 production in the cool paddies. The modeled results proved that the northern wetland agroecosystems could make important contributions to global greenhouse gas inventory.

  5. Mapping paddy rice planting area in cold temperate climate region through analysis of time series Landsat 8 (OLI), Landsat 7 (ETM+) and MODIS imagery.

    PubMed

    Qin, Yuanwei; Xiao, Xiangming; Dong, Jinwei; Zhou, Yuting; Zhu, Zhe; Zhang, Geli; Du, Guoming; Jin, Cui; Kou, Weili; Wang, Jie; Li, Xiangping

    2015-07-01

    Accurate and timely rice paddy field maps with a fine spatial resolution would greatly improve our understanding of the effects of paddy rice agriculture on greenhouse gases emissions, food and water security, and human health. Rice paddy field maps were developed using optical images with high temporal resolution and coarse spatial resolution (e.g., Moderate Resolution Imaging Spectroradiometer (MODIS)) or low temporal resolution and high spatial resolution (e.g., Landsat TM/ETM+). In the past, the accuracy and efficiency for rice paddy field mapping at fine spatial resolutions were limited by the poor data availability and image-based algorithms. In this paper, time series MODIS and Landsat ETM+/OLI images, and the pixel- and phenology-based algorithm are used to map paddy rice planting area. The unique physical features of rice paddy fields during the flooding/open-canopy period are captured with the dynamics of vegetation indices, which are then used to identify rice paddy fields. The algorithm is tested in the Sanjiang Plain (path/row 114/27) in China in 2013. The overall accuracy of the resulted map of paddy rice planting area generated by both Landsat ETM+ and OLI is 97.3%, when evaluated with areas of interest (AOIs) derived from geo-referenced field photos. The paddy rice planting area map also agrees reasonably well with the official statistics at the level of state farms (R(2) = 0.94). These results demonstrate that the combination of fine spatial resolution images and the phenology-based algorithm can provide a simple, robust, and automated approach to map the distribution of paddy rice agriculture in a year.

  6. Mapping paddy rice planting area in cold temperate climate region through analysis of time series Landsat 8 (OLI), Landsat 7 (ETM+) and MODIS imagery

    PubMed Central

    Qin, Yuanwei; Xiao, Xiangming; Dong, Jinwei; Zhou, Yuting; Zhu, Zhe; Zhang, Geli; Du, Guoming; Jin, Cui; Kou, Weili; Wang, Jie; Li, Xiangping

    2016-01-01

    Accurate and timely rice paddy field maps with a fine spatial resolution would greatly improve our understanding of the effects of paddy rice agriculture on greenhouse gases emissions, food and water security, and human health. Rice paddy field maps were developed using optical images with high temporal resolution and coarse spatial resolution (e.g., Moderate Resolution Imaging Spectroradiometer (MODIS)) or low temporal resolution and high spatial resolution (e.g., Landsat TM/ETM+). In the past, the accuracy and efficiency for rice paddy field mapping at fine spatial resolutions were limited by the poor data availability and image-based algorithms. In this paper, time series MODIS and Landsat ETM+/OLI images, and the pixel- and phenology-based algorithm are used to map paddy rice planting area. The unique physical features of rice paddy fields during the flooding/open-canopy period are captured with the dynamics of vegetation indices, which are then used to identify rice paddy fields. The algorithm is tested in the Sanjiang Plain (path/row 114/27) in China in 2013. The overall accuracy of the resulted map of paddy rice planting area generated by both Landsat ETM+ and OLI is 97.3%, when evaluated with areas of interest (AOIs) derived from geo-referenced field photos. The paddy rice planting area map also agrees reasonably well with the official statistics at the level of state farms (R2 = 0.94). These results demonstrate that the combination of fine spatial resolution images and the phenology-based algorithm can provide a simple, robust, and automated approach to map the distribution of paddy rice agriculture in a year. PMID:27695195

  7. Oryzabase. An integrated biological and genome information database for rice.

    PubMed

    Kurata, Nori; Yamazaki, Yukiko

    2006-01-01

    The aim of Oryzabase is to create a comprehensive view of rice (Oryza sativa) as a model monocot plant by integrating biological data with molecular genomic information (http://www.shigen.nig.ac.jp/rice/oryzabase/top/top.jsp). The database contains information about rice development and anatomy, rice mutants, and genetic resources, especially for wild varieties of rice. The anatomical description of rice development is unique and is the first known representation for rice. Developmental and anatomical descriptions include in situ gene expression data serving as stage and tissue markers. The systematic presentation of a large number of rice mutant and mutant trait genes is indispensable, as is description of research in wild strains, core collections, and their detailed characterization. Several genetic, physical, and expression maps with full genome and cDNA sequences are also combined with biological data in Oryzabase. These datasets, when pooled together, could provide a useful tool for gaining greater knowledge about the life cycle of rice, the relationship between phenotype and gene function, and rice genetic diversity. For exchanging community information, Oryzabase publishes the Rice Genetics Newsletter organized by the Rice Genetics Cooperative and provides a mailing service, rice-e-net/rice-net.

  8. [Effects of rice plants on methane emission from paddy fields].

    PubMed

    Jia, Zhongjun; Cai, Zucong

    2003-11-01

    Methane emission from rice paddy fields is the net result of the combination of many processes, i.e., CH4 production, CH4 oxidation and CH4 transportation in paddy soil. Rice plants play a key role in the CH4 emission from paddy fields, particularly in all the processes involved. The positive and negative effects of rice plants on CH4 emission from paddy fields are well recognized as the main factors influencing the temporal variation of CH4 emission flux in paddy field. Process-based studies about the effects of rice plants on methane emission from paddy fields were summarized, and different roles of rice plants on this emission were discussed. Root exudates and litters of rice plants could serve as the substrate for methanogenesis and enhance the CH4 production of paddy soils, resulting in a high CH4 emission peak, particularly in rice late growing season. Rhizospheric CH4 oxidation induced by rice root-excreted oxygen constitutes a main biogenic sink of CH4, which could account for 36-90% of CH4 produced in paddy soil over the entire growing season of rice. Up to 80% and more of CH4 released from rice field during a growing season could be emitted by rice plant-mediated transport. The fully developed aerenchyma of rice plants could be of importance in CH4 emission during rice growing seasons, and responsible for the CH4 emission peak observed at rice early growing season.

  9. Rice: a high or low glycemic index food?

    PubMed

    Miller, J B; Pang, E; Bramall, L

    1992-12-01

    We determined the glycemic (GI) and insulin-index (II) values for 12 rice products, using eight healthy subjects. The products were brown and white versions of three commercial varieties of rice [two varieties with normal amylose content (20%) and the other with 28% amylose], a waxy rice (0-2% amylose), a converted rice, a quick-cooking brown rice, puffed rice cakes, rice pasta, and rice bran. The GI of the rices ranged from 64 +/- 9 to 93 +/- 11, where glucose = 100. The high amylose rice gave a lower GI and II (P < 0.01) than did the normal-amylose and waxy-rice varieties. The converted rice and most other rice products gave a high GI. Insulin indices correlated positively with GI (r = 0.75, P < 0.05), although they were lower than expected. These results indicate that many varieties of rice, whether white, brown, or parboiled, should be classified as high GI foods. Only high-amylose varieties are potentially useful in low-GI diets.

  10. Efficient Production of a Bioactive Bevacizumab Monoclonal Antibody Using the 2A Self-cleavage Peptide in Transgenic Rice Callus

    PubMed Central

    Chen, Lei; Yang, Xiaoyu; Luo, Da; Yu, Weichang

    2016-01-01

    Bevacizumab, a humanized monoclonal antibody (mAb) targeting to the vascular endothelial growth factor (VEGF), has been widely used in clinical practice for the treatment of multiple cancers. Bevacizumab was mostly produced by the mammalian cell expression system. We here reported the first plant-derived Bevacizumab by using transgenic rice callus as an alternative gene expression system. Codon-optimized Bevacizumab light chain (BLC) and Bevacizumab heavy chain (BHC) genes were designed, synthesized as a polyprotein with a 2A self-cleavage linker peptide from the Foot-and-mouth disease virus, cloned into a plant binary vector under a constitutive maize ubiquitin promoter, and transformed into rice nuclear genome through Agrobacterium-mediated transformation. Southern blot and western blot analyses confirmed the integration and expression of BLC and BHC genes in transgenic rice callus. Enzyme-linked immunosorbent assay (ELISA) analysis indicated that the rice-derived Bevacizumab mAb was biologically active and the recombinant mAb was expressed at high levels (160.7–242.8 mg/Kg) in transgenic rice callus. The mAb was purified by using protein A affinity chromatography and the purified antibody was tested for its binding affinity with its target human VEGF (hVEGF) antigen by ELISA. Rice callus produced Bevacizumab and a commercial Bevacizumab (Avastin) were shown to have similar binding affinity to hVEGF. These results indicated that rice callus produced Bevacizumab could have similar biological activity and might potentially be used as a cost-effective biosimilar molecule in future cancer treatment. PMID:27555853

  11. Overdominant epistatic loci are the primary genetic basis of inbreeding depression and heterosis in rice. I. Biomass and grain yield.

    PubMed

    Li, Z K; Luo, L J; Mei, H W; Wang, D L; Shu, Q Y; Tabien, R; Zhong, D B; Ying, C S; Stansel, J W; Khush, G S; Paterson, A H

    2001-08-01

    To understand the genetic basis of inbreeding depression and heterosis in rice, main-effect and epistatic QTL associated with inbreeding depression and heterosis for grain yield and biomass in five related rice mapping populations were investigated using a complete RFLP linkage map of 182 markers, replicated phenotyping experiments, and the mixed model approach. The mapping populations included 254 F(10) recombinant inbred lines derived from a cross between Lemont (japonica) and Teqing (indica) and two BC and two testcross hybrid populations derived from crosses between the RILs and their parents plus two testers (Zhong 413 and IR64). For both BY and GY, there was significant inbreeding depression detected in the RI population and a high level of heterosis in each of the BC and testcross hybrid populations. The mean performance of the BC or testcross hybrids was largely determined by their heterosis measurements. The hybrid breakdown (part of inbreeding depression) values of individual RILs were negatively associated with the heterosis measurements of their BC or testcross hybrids, indicating the partial genetic overlap of genes causing hybrid breakdown and heterosis in rice. A large number of epistatic QTL pairs and a few main-effect QTL were identified, which were responsible for >65% of the phenotypic variation of BY and GY in each of the populations with the former explaining a much greater portion of the variation. Two conclusions concerning the loci associated with inbreeding depression and heterosis in rice were reached from our results. First, most QTL associated with inbreeding depression and heterosis in rice appeared to be involved in epistasis. Second, most ( approximately 90%) QTL contributing to heterosis appeared to be overdominant. These observations tend to implicate epistasis and overdominance, rather than dominance, as the major genetic basis of heterosis in rice. The implications of our results in rice evolution and improvement are discussed.

  12. Overdominant epistatic loci are the primary genetic basis of inbreeding depression and heterosis in rice. I. Biomass and grain yield.

    PubMed Central

    Li, Z K; Luo, L J; Mei, H W; Wang, D L; Shu, Q Y; Tabien, R; Zhong, D B; Ying, C S; Stansel, J W; Khush, G S; Paterson, A H

    2001-01-01

    To understand the genetic basis of inbreeding depression and heterosis in rice, main-effect and epistatic QTL associated with inbreeding depression and heterosis for grain yield and biomass in five related rice mapping populations were investigated using a complete RFLP linkage map of 182 markers, replicated phenotyping experiments, and the mixed model approach. The mapping populations included 254 F(10) recombinant inbred lines derived from a cross between Lemont (japonica) and Teqing (indica) and two BC and two testcross hybrid populations derived from crosses between the RILs and their parents plus two testers (Zhong 413 and IR64). For both BY and GY, there was significant inbreeding depression detected in the RI population and a high level of heterosis in each of the BC and testcross hybrid populations. The mean performance of the BC or testcross hybrids was largely determined by their heterosis measurements. The hybrid breakdown (part of inbreeding depression) values of individual RILs were negatively associated with the heterosis measurements of their BC or testcross hybrids, indicating the partial genetic overlap of genes causing hybrid breakdown and heterosis in rice. A large number of epistatic QTL pairs and a few main-effect QTL were identified, which were responsible for >65% of the phenotypic variation of BY and GY in each of the populations with the former explaining a much greater portion of the variation. Two conclusions concerning the loci associated with inbreeding depression and heterosis in rice were reached from our results. First, most QTL associated with inbreeding depression and heterosis in rice appeared to be involved in epistasis. Second, most ( approximately 90%) QTL contributing to heterosis appeared to be overdominant. These observations tend to implicate epistasis and overdominance, rather than dominance, as the major genetic basis of heterosis in rice. The implications of our results in rice evolution and improvement are discussed

  13. Assessment of MODIS spectral indices for determining rice paddy agricultural practices and hydroperiod

    NASA Astrophysics Data System (ADS)

    Tornos, Lucia; Huesca, Margarita; Dominguez, Jose Antonio; Moyano, Maria Carmen; Cicuendez, Victor; Recuero, Laura; Palacios-Orueta, Alicia

    2015-03-01

    Rice agricultural practices and hydroperiod dates must be determined to obtain information on water management practices and their environmental effects. Spectral indices derived from an 8-day MODIS composite allows to identify rice phenometrics at varying degrees of success. The aims of this study were (1) to assess the dynamics of the Normalized Difference Vegetation Index (NDVI), Normalized Difference Water Index (NDWI(1) and NDWI(2)) and Shortwave Angle Slope Index (SASI) in relation to rice agricultural practices and hydroperiod, and (2) to assess the capability for these indices to detect phenometrics in rice under different flooding regimes. Two rice farming areas in Spain that are governed under different water management practices, the Ebro Delta and Orellana, were studied over a 12-year period (2001-2012). The index time series autocorrelation function was calculated to determine index dynamics in both areas. Secondly, average indices were calculated to identify significant points close to key agricultural and flooding dates, and index behaviors and capacities to identify phenometrics were assessed on a pixel level. The index autocorrelation function produced a regular pattern in both zones, being remarkably homogeneous in the Ebro Delta. It was concluded that a combination of NDVI, NDWI(1), NDWI(2) and SASI may improve the results obtained through each index. NDVI was more effective at detecting the heading date and flooding trends in the Ebro Delta. NDWI(1), NDWI(2) and SASI identified the harvest and the end of environmental flooding in the Delta, and the flooding in Orellana, more effectively. These results may set strong foundations for the development of new strategies in rice monitoring systems, providing useful information to policy makers and environmental studies.

  14. Co-composting rice hulls and/or sawdust with poultry manure in NE Argentina.

    PubMed

    Leconte, M C; Mazzarino, M J; Satti, P; Iglesias, M C; Laos, F

    2009-09-01

    Rice hulls and sawdust are two common C-rich wastes derived from rice and timber agro-industries in subtropical NE Argentina. An alternative to the current management of these wastes (from bedding to uncontrolled burning) is composting. However, given their C-rich nature and high C/N ratio, adequate composting requires mixing with a N-rich waste, such as poultry manure. The effect of different proportions of poultry manure, rice hulls and/or sawdust on composting efficiency and final compost quality was studied. Five piles were prepared with a 2:1 and 1:1 ratio of sawdust or rice hulls to poultry manure, and 1:1:1 of all three materials (V/V). Different indicators of compost stability and quality were measured. Thermophilic phase was shorter for piles with rice hulls than for piles with sawdust (60 days vs. 105 days). Time required for stability was similar for both C-rich wastes (about 180 days). Characteristics of final composts were: pH 5.8-7.2, electrical conductivity 2.5-3.3 mS/cm, organic C 20-26%, total N 2.2-2.9%, lignin 19-22%, total Ca 18-24 g/kg, and extractable P 6-8 g/kg, the latter representing 60% of total P. Nitrogen conservation was high in all piles, especially in the one containing both C-rich wastes. Piles with sawdust were characterized by high total and available N, while piles with only rice hulls had higher Si, K and pH. Extractable P was higher in 1:1 piles, and organic C in 2:1 piles.

  15. Identification of novel and candidate miRNAs in rice by high throughput sequencing

    PubMed Central

    Sunkar, Ramanjulu; Zhou, Xuefeng; Zheng, Yun; Zhang, Weixiong; Zhu, Jian-Kang

    2008-01-01

    Background Small RNA-guided gene silencing at the transcriptional and post-transcriptional levels has emerged as an important mode of gene regulation in plants and animals. Thus far, conventional sequencing of small RNA libraries from rice led to the identification of most of the conserved miRNAs. Deep sequencing of small RNA libraries is an effective approach to uncover rare and lineage- and/or species-specific microRNAs (miRNAs) in any organism. Results In order to identify new miRNAs and possibly abiotic-stress regulated small RNAs in rice, three small RNA libraries were constructed from control rice seedlings and seedlings exposed to drought or salt stress, and then subjected to pyrosequencing. A total of 58,781, 43,003 and 80,990 unique genome-matching small RNAs were obtained from the control, drought and salt stress libraries, respectively. Sequence analysis confirmed the expression of most of the conserved miRNAs in rice. Importantly, 23 new miRNAs mostly each derived from a unique locus in rice genome were identified. Six of the new miRNAs are conserved in other monocots. Additionally, we identified 40 candidate miRNAs. Allowing not more than 3 mis-matches between a miRNA and its target mRNA, we predicted 20 targets for 9 of the new miRNAs. Conclusion Deep sequencing proved to be an effective strategy that allowed the discovery of 23 low-abundance new miRNAs and 40 candidate miRNAs in rice. PMID:18312648

  16. Genetic shift in local rice populations during rice breeding programs in the northern limit of rice cultivation in the world.

    PubMed

    Fujino, Kenji; Obara, Mari; Ikegaya, Tomohito; Tamura, Kenichi

    2015-09-01

    The rapid accumulation of pre-existing mutations may play major roles in the establishment and shaping of adaptability for local regions in current rice breeding programs. The cultivated rice, Oryza sativa L., which originated from tropical regions, is now grown worldwide due to the concerted efforts of breeding programs. However, the process of establishing local populations and their origins remain unclear. In the present study, we characterized DNA polymorphisms in the rice variety KITAAKE from Hokkaido, one of the northern limits of rice cultivation in the world. Indel polymorphisms were attributed to transposable element-like insertions, tandem duplications, and non-TE deletions as the original mutation events in the NIPPONBARE and KITAAKE genomes. The allele frequencies of the KITAAKE alleles markedly shifted to the current variety types among the local population from Hokkaido in the last two decades. The KITAAKE alleles widely distributed throughout wild rice and cultivated rice over the world. These have accumulated in the local population from Hokkaido via Japanese landraces as the ancestral population of Hokkaido. These results strongly suggested that combinations of pre-existing mutations played a role in the establishment of adaptability. This approach using the re-sequencing of local varieties in unique environmental conditions will be useful as a genetic resource in plant breeding programs in local regions.

  17. Satellite-based investigation of flood-affected rice cultivation areas in Chao Phraya River Delta, Thailand

    NASA Astrophysics Data System (ADS)

    Son, N. T.; Chen, C. F.; Chen, C. R.; Chang, L. Y.

    2013-12-01

    The occurrence of catastrophic floods in Thailand in 2011 caused significant damage to rice agriculture. This study investigated flood-affected rice cultivation areas in the Chao Phraya River Delta (CRD) rice bowl, Thailand using time-series moderate resolution imaging spectroradiometer (MODIS) data. The data were processed for 2008 (normal flood year) and 2011, comprising four main steps: (1) data pre-processing to construct time-series MODIS vegetation indices (VIs), to filter noise from the time-series VIs by the empirical mode decomposition (EMD), and to mask out non-agricultural areas in respect to water-related cropping areas; (2) flood-affected area classification using the unsupervised linear mixture model (ULMM); (3) rice crop classification using the support vector machines (SVM); and (4) accuracy assessment of flood and rice crop mapping results. The comparisons between the flood mapping results and the ground reference data indicated an overall accuracy of 97.9% and Kappa coefficient of 0.62 achieved for 2008, and 95.7% and 0.77 for 2011, respectively. These results were reaffirmed by close agreement (R2 > 0.8) between comparisons of the two datasets at the provincial level. The crop mapping results compared with the ground reference data revealed that the overall accuracies and Kappa coefficients obtained for 2008 were 88.5% and 0.82, and for 2011 were 84.1% and 0.76, respectively. A strong correlation was also found between MODIS-derived rice area and rice area statistics at the provincial level (R2 > 0.7). Rice crop maps overlaid on the flood-affected area maps showed that approximately 16.8% of the rice cultivation area was affected by floods in 2011 compared to 4.9% in 2008. A majority of the flood-expanded area was observed for the double-cropped rice (10.5%), probably due to flood-induced effects to the autumn-summer and rainy season crops. Information achieved from this study could be useful for agricultural planners to mitigate possible impacts

  18. Molecular biology of rice tungro viruses.

    PubMed

    Hull, R

    1996-01-01

    Rice tungro, the most important virus disease of rice in South and Southeast Asia, is caused by a complex of two viruses, rice tungro bacilliform virus (RTBV) and rice tungro spherical virus (RTSV). RTBV is a plant pararetrovirus with bacilliform particles, the structure of which is based on T = 3 icosahedral symmetry cut across the threefold axis.The particles encapsidate a circular double-stranded DNA of 8 kbp that encodes four proteins. The current information on the properties, functions, and expression of these proteins is discussed, as is the evidence for replication by reverse transcription. Two major strains of RTBV have been recognized, one from the Indian subcontinent and the other from Southeast Asia. RTSV particles contain a single-stranded RNA genome of 12 kb that encodes a large polyprotein and possibly one or two smaller proteins. The properties and processing of the polyprotein are described and the resemblance to picornaviruses noted.

  19. Reciprocating Internal Combustion Engines (RICE) | New ...

    EPA Pesticide Factsheets

    2017-04-10

    RICE use pistons that alternatively move back and forth to convert pressure into rotating motion. They're commonly used at power and manufacturing plants to generate electricity and to power pumps and compressors.

  20. President Kennedy's Speech at Rice University

    NASA Technical Reports Server (NTRS)

    1988-01-01

    This video tape presents unedited film footage of President John F. Kennedy's speech at Rice University, Houston, Texas, September 12, 1962. The speech expresses the commitment of the United States to landing an astronaut on the Moon.

  1. Rice plant development: from zygote to spikelet.

    PubMed

    Itoh, Jun-Ichi; Nonomura, Ken-Ichi; Ikeda, Kyoko; Yamaki, Shinichiro; Inukai, Yoshiaki; Yamagishi, Hiroshi; Kitano, Hidemi; Nagato, Yasuo

    2005-01-01

    Rice is becoming a model plant in monocotyledons and a model cereal crop. For better understanding of the rice plant, it is essential to elucidate the developmental programs of the life cycle. To date, several attempts have been made in rice to categorize the developmental processes of some organs into substages. These studies are based exclusively on the morphological and anatomical viewpoints. Recent advancement in genetics and molecular biology has given us new aspects of developmental processes. In this review, we first describe the phasic development of the rice plant, and then describe in detail the developmental courses of major organs, leaf, root and spikelet, and specific organs/tissues. Also, for the facility of future studies, we propose a staging system for each organ.

  2. [Red yeast rice: An unsafe food supplement?

    PubMed

    Steffen, Christian

    2017-03-01

    Red yeast rice is the fermentation product of the mould Monascus ruber and is traditionally used in East Asia to dye and conserve food. Its main pharmacologically active compound, monakolin K, was isolated from red yeast rice and is used as an inhibitor of cholesterol synthesis under the INN lovastatin. Lovastatin and several other statins are marketed as drugs whereas red yeast rice is offered as a food supplement. As statins can cause severe side effects, such as muscle damage and kidney failure, the dosing and information about interactions with drugs and food is essential for the use of these products. Furthermore, red yeast rice can contain the mycotoxin citrinin and several other substances that are not yet toxicologically evaluated.

  3. Value-added uses of co-products from the milling of rice.

    Technology Transfer Automated Retrieval System (TEKTRAN)

    In addition to the polished whole white rice, various co-products, including rice bran and broken rice, are generated during the milling of rice. In spite of plentiful supply and high nutrition, rice bran, and to a lesser extent, broken rice kernels are under-priced and under-utilized. The present ...

  4. Introgression of resistance-conferring ALS mutations in herbicide-resistant weedy rice

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Weedy red rice (Oryza sativa) competes aggressively with rice, reducing yields and grain quality. Clearfield™ rice, a nontransgenic, herbicide-resistant (HR) rice introduced in 2002 to control weedy rice, has resulted in some ALS-resistant weedy rice apparently due to gene flow. Studies were conduct...

  5. Evolutionary insights into the origins of weediness in U.S. red rice

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Weedy red rice is a widespread, economically challenging problem in Southern U.S. rice fields. The two major U.S. red rice types, strawhull and blackhull, are thought to have arisen independently from Asian rice populations in the distant past. Red rice is a weedy relative of rice, a genomic model...

  6. Direct and reverse pollen-mediated gene flow between GM rice and red rice weed

    PubMed Central

    Serrat, X.; Esteban, R.; Peñas, G.; Català, M. M.; Melé, E.; Messeguer, J.

    2013-01-01

    Potential risks of genetically modified (GM) crops must be identified before their commercialization, as happens with all new technologies. One of the major concerns is the proper risk assessment of adventitious presence of transgenic material in rice fields due to cross-pollination. Several studies have been conducted in order to quantify pollen-mediated gene flow from transgenic rice (Oryza sativa) to both conventional rice and red rice weed (O. sativa f. spontanea) under field conditions. Some of these studies reported GM pollen-donor rice transferring GM traits to red rice. However, gene flow also occurs in the opposite direction, in a phenomenon that we have called reverse gene flow, resulting in transgenic seeds that have incorporated the traits of wild red rice. We quantified reverse gene flow using material from two field trials. A molecular analysis based on amplified fragment length polymorphisms was carried out, being complemented with a phenotypic identification of red rice traits. In both field trials, the reverse gene flow detected was greater than the direct gene flow. The rate of direct gene flow varied according to the relative proportions of the donor (GM rice) and receptor (red rice) plants and was influenced by wind direction. The ecological impact of reverse gene flow is limited in comparison with that of direct gene flow because non-shattered and non-dormant seeds would be obtained in the first generation. Hybrid seed would remain in the spike and therefore most of it would be removed during harvesting. Nevertheless, this phenomenon must be considered in fields used for elite seed production and in developing countries where farmers often keep some seed for planting the following year. In these cases, there is a higher risk of GM red rice weed infestation increasing from year to year and therefore a proper monitoring plan needs to be established.

  7. [Effects of rice cleaning and cooking process on the residues of flutolanil, fenobucarb, silafluofen and buprofezin in rice].

    PubMed

    Satoh, Motoaki; Sakaguchi, Masayuki; Kobata, Masakazu; Sakaguchi, Yoko; Tanizawa, Haruna; Miura, Yuri; Sasano, Ryoichi; Nakanishi, Yutaka

    2003-02-01

    We studied the effect of cleaning and cooking on the residues of flutolanil, fenobucarb, silafluofen and buprofezin in rice. The rice had been sprayed in a paddy field in Wakayama city, with 3 kinds of pesticide application protocols: spraying once at the usual concentration of pesticides, repeated spraying (3 times) with the usual concentration of pesticides and spraying once with 3 times the usual concentration of pesticides. The residue levels of pesticide decreased during the rice cleaning process. Silafluofen, which has a higher log Pow value, remained in the hull of the rice. Fenobucarb, which has a lower log Pow value, penetrated inside the rice. The residue concentration of pesticide in polished rice was higher than that in pre-washed rice processed ready for cooking. During the cooking procedure, the reduction of pesticides in polished rice was higher than that in brown rice.

  8. Mycotoxin production on rice, pulses and oilseeds

    NASA Astrophysics Data System (ADS)

    Begum, Fouzia; Samajpati, N.

    Mycotoxin-producing fungi were isolated from contaminated grains of rice, pulses and oilseeds sold in the local markets of Calcutta for human consumption. It was found that aflatoxin B1 was produced by Aspergillus flavus and Aspergillus parasiticus, aflatoxin G1 by A. flavus, ochratoxin by Aspergillus ochraceous, sterigmatocystin by Aspergillus japonicus and citrinin by Penicillium citrinum. Aflatoxin B1 (333-10416μg/kg) was produced by Aspergillus spp. in rice, pulses and oilseeds.

  9. Identification of SNPs in closely-related temperate japonica rice cultivars using restriction enzyme-phased sequencing

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Very low polymorphism in the germplasm typically used by breeding programs poses a significant bottleneck with regarding to molecular breeding and the exploitation of breeding materials for quantitative trait analyses. California rice varieties, derived from a very small base of temperate japonica g...

  10. Production of Aflatoxin on Rice

    PubMed Central

    Shotwell, Odette L.; Hesseltine, C. W.; Stubblefield, R. D.; Sorenson, W. G.

    1966-01-01

    A method has been developed for the production of aflatoxin by growing Aspergillus flavus strain NRRL 2999 on the solid substrate rice. Optimal yields, more than 1 mg of aflatoxin B1 per g of starting material, were obtained in 5 days at 28 C. A crude product containing aflatoxins was isolated by chloroform extraction and precipitation with hexane from concentrated solutions. The crude product consisted of 50% aflatoxin in the following ratio: B1-B2-G1-G2, 100:0.15:0.22:0.02. Aflatoxin B1 was separated from almost all the impurities and from the other aflatoxins by chromatography on silica gel with 1% ethyl alcohol in chloroform. Analytically pure aflatoxin B1 was recrystallized from chloroform-hexane mixtures. Images Fig. 1 PMID:5970829

  11. Inhibition of gibberellin-induced elongation growth of rice by feruloyl oligosaccharides.

    PubMed

    Ishii, T; Nishijima, T

    1995-12-01

    The biological activity of cell wall-derived feruloyl oligosaccharides was investigated using a modified micro-drop bioassay. A feruloyl arabinoxylan trisaccharide (FAXX) and a feruloyl arabinoxylan tetrasaccharide (FAXXX) were found to inhibit the gibberellin-induced elongation of dwarf rice (Oryza sativa L., cv, Tan-ginbozu) that had been treated with uniconazole (S-3307), an inhibitor of the biosynthesis of gibberellins. An arabinoxylan trisaccharide (AXX) was ineffective. The growth-inhibitory effect of feruloyl oligosaccharides depended on their feruloyl and glycosyl moieties. The amount of esterified diferulic acid residues in the cell walls of the second leaf sheath of rice seedlings that had been treated with FAXX was almost same as that of controls. Feruloyl oligosaccharides did not inhibit the incorporation of [14C]leucine into acid-precipitable proteins by suspension-cultured maize cells, whereas cinnamic acid and its derivatives strongly inhibited such incorporation.

  12. Generation of a transgenic rice seed-based edible vaccine against house dust mite allergy.

    PubMed

    Yang, Lijun; Kajiura, Hiroyuki; Suzuki, Kazuya; Hirose, Sakiko; Fujiyama, Kazuhito; Takaiwa, Fumio

    2008-01-11

    As an alternative approach to conventional allergen-specific immunotherapy, transgenic rice seed expressing a major house dust mite (HDM) allergen, Der p 1, was developed as an edible vaccine. The C-terminal KDEL-tagged Der p 1 allergen specifically accumulated in seed endosperm tissue under the control of the endosperm-specific GluB1 promoter. Der p 1 reached a maximum concentration of 58 microg/grain and was deposited in the endoplasmic reticulum (ER)-derived protein body I (PB-I). Plant-derived Der p 1 was posttranslationally modified with high-mannose-type glycan structures. Glycosylated Der p 1 displayed reduced IgE binding capacity in comparison with its unglycosylated counterpart in vitro. Our results indicate that transgenic Der p 1 rice seeds are a safe, potential oral delivery vaccine for the treatment of HDM allergy.

  13. Ectopic expression of Hrf1 enhances bacterial resistance via regulation of diterpene phytoalexins, silicon and reactive oxygen species burst in rice.

    PubMed

    Li, Wenqi; Shao, Min; Zhong, Weigong; Yang, Jie; Okada, Kazunori; Yamane, Hisakazu; Zhang, Lei; Wang, Guang; Wang, Dong; Xiao, Shanshan; Chang, Shanshan; Qian, Guoliang; Liu, Fengquan

    2012-01-01

    Harpin proteins as elicitor derived from plant gram negative bacteria such as Xanthomonas oryzae pv. oryzae (Xoo), Erwinia amylovora induce disease resistance in plants by activating multiple defense responses. However, it is unclear whether phytoalexin production and ROS burst are involved in the disease resistance conferred by the expression of the harpin(Xoo) protein in rice. In this article, ectopic expression of hrf1 in rice enhanced resistance to bacterial blight. Accompanying with the activation of genes related to the phytoalexin biosynthesis pathway in hrf1-transformed rice, phytoalexins quickly and consistently accumulated concurrent with the limitation of bacterial growth rate. Moreover, the hrf1-transformed rice showed an increased ability for ROS scavenging and decreased hydrogen peroxide (H(2)O(2)) concentration. Furthermore, the localization and relative quantification of silicon deposition in rice leaves was detected by scanning electron microscopy (SEM) and energy-dispersive X-ray spectrometer (EDS). Finally, the transcript levels of defense response genes increased in transformed rice. These results show a correlation between Xoo resistance and phytoalexin production, H(2)O(2), silicon deposition and defense gene expression in hrf1-transformed rice. These data are significant because they provide evidence for a better understanding the role of defense responses in the incompatible interaction between bacterial disease and hrf1-transformed plants. These data also supply an opportunity for generating nonspecific resistance to pathogens.

  14. Sensory optimization of broken-rice based snacks fortified with protein and fiber.

    PubMed

    Sriwattana, S; Laokuldilok, N; Prinyawiwatkul, W

    2008-08-01

    A 3-component mixture experiment was used to optimize the formulation of broken-rice based snack fortified with protein and fiber based on consumer sensory acceptability. Soy protein isolate and guar gum were used as a good source of protein and fiber, respectively, according to DRV (daily reference value) based on a 2000-calorie diet. A consumer panel evaluated sensory acceptability of color, crispness, and flavor, and overall liking of 12 experimental broken-rice based snack formulations. Predicted models derived from the restricted nonintercept regression analysis were used to plot mixture response surfaces (MRS) of each sensory attribute. Areas within the MRS plots having predicted acceptability scores of at least 6.5 (on a 9-point hedonic scale) for color, crispness, flavor, and overall liking were selected to derive a predicted optimum formulation range. Flavor acceptability was a limiting factor in attaining the optimum formulation range, which consisted of 40% to 48% broken-rice flour, 8% to 16% guar gum, and 20% to 33% soy protein isolate. To verify the obtained predicted models, the formulation containing 48% broken-rice flour, 8% guar gum, and 20% soy protein isolate, which was located in the optimum area, was chosen to support our effort to utilize and add value to broken rice. Selected physicochemical measurements of the chosen optimized formulation were determined. One serving size (30 g) of the chosen optimized snack product provided 6.58 g protein and 3.80 g dietary fiber, which met the US FDA definition of a good source of protein and dietary fiber.

  15. Characterization of rice blast resistance gene Pi61(t) in rice germplasm

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Identification of resistance (R) genes to races of Magnaporthe oryzae in rice germplasm is essential for the development of rice cultivars with long lasting blast resistance. In the present study, one major quantitative trait locus, qPi93-3, was fine mapped using a recombinant inbred line (RIL), F8 ...

  16. Identification of broad spectrum rice blast resistance genes with IRRI Rice monogenic lines

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Rice blast disease, caused by the fungus Magnaporthe oryzae, is the most destructive rice disease worldwide. This disease is managed with a combination of the use of resistant cultivars, application of fungicides, and improved cultural practices. Among them, the use of resistant cultivars is the mos...

  17. Genomic dissection of small RNAs in wild rice (Oryza rufipogon): lessons for rice domestication.

    PubMed

    Wang, Yu; Bai, Xuefei; Yan, Chenghai; Gui, Yiejie; Wei, Xinghua; Zhu, Qian-Hao; Guo, Longbiao; Fan, Longjiang

    2012-11-01

    The lack of a MIRNA set and genome sequence of wild rice (Oryza rufipogon) has prevented us from determining the role of MIRNA genes in rice domestication. In this study, a genome, three small RNA populations and a degradome of O. rufipogon were sequenced by Illumina platform and the expression levels of microRNAs (miRNAs) were investigated by miRNA chips. A de novo O. rufipogon genome was assembled using c. 55× coverage of raw sequencing data and a total of 387 MIRNAs were identified in the O. rufipogon genome based on c. 5.2 million unique small RNA reads from three different tissues of O. rufipogon. Of these, O. rufipogon MIRNAs, 259 were not found in the cultivated rice, suggesting a loss of these MIRNAs in the cultivated rice. We also found that 48 MIRNAs were novel in the cultivated rice, suggesting that they were potential targets of domestication selection. Some miRNAs showed significant expression differences between wild and cultivated rice, suggesting that expression of miRNA could also be a target of domestication, as demonstrated for the miR164 family. Our results illustrated that MIRNA genes, like protein-coding genes, might have been significantly shaped during rice domestication and could be one of the driving forces that contributed to rice domestication.

  18. Simultaneous rough rice drying and rice bran stabilization using infrared radiation heating

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The objective of this study was to develop a new rice drying method by using IR heating followed by tempering. Freshly harvested medium grain rice (M206) samples with different initial moisture contents (IMCs) were used in this study. The samples were dried for one- and two-passes by using a catalyt...

  19. Electrophysiological responses of the rice leaffolder, cnaphalocrocis medinalis (lepidoptera: pyralidae), to rice plant volatiles

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The electrophysiological activities of 38 synthetic volatiles that were known to be released from the rice plants (Poaceae: Oryza spp.) were studied using electroantennogram (EAG) recording technique on male and female antennae of the rice leaffolder, Cnaphalocrocis medinalis (Guenée) (Lepidoptera: ...

  20. Feasibility of Simultaneous Rough Rice Drying and Disinfestations by Infrared Radiation Heating and Rice Milling Quality

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The objective of this study was to investigate the drying characteristics, milling quality and effectiveness of disinfestation of rough rice under conditions of infrared (IR) radiation heating. Freshly harvested medium grain rice (M202) samples with low (20.6%) and high (25.0%) moisture contents (M...

  1. Germinated brown rice as a value added rice product: A review.

    PubMed

    Patil, Swati Bhauso; Khan, Md Khalid

    2011-12-01

    Rice is a staple food for over half of the world's population. Germinated brown rice (GBR) is considered whole food because only the outermost layer i.e. the hull of the rice kernel is removed which causes least damage to its nutritional value. Brown rice can be soaked in water at 30 °C for specified hours for germination to get GBR. Soaking for 3 h and sprouting for 21 h has been found to be optimum for getting the highest gamma-aminobutyric acid (GABA) content in GBR, which is the main reason behind the popularity of GBR. The intake of GBR instead of white rice ameliorates the hyperglycemia, boosts the immune system, lowers blood pressure, inhibits development of cancer cells and assists the treatment of anxiety disorders. Germination process could be used as enzymatic modification of starch that affects pasting properties of GBR flour. GBR would improve the bread quality when substituted for wheat flour. It is concluded that GBR has potential to become innovative rice by preserving all nutrients in the rice grain for human consumption in order to create the highest value from rice.

  2. Current progress on genetic interactions of rice with rice blast and sheath blight fungi

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Analysis of genetic interactions between rice and its pathogenic fungi Magnaporthe oryzae and Rhizoctonia solani should lead to a better understanding of molecular mechanisms of host resistance, and the improvement of strategies to manage rice blast and sheath blight diseases. Presently dozens of ri...

  3. Development and characterization of a emulsions containing purple rice bran and brown rice oil

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The aims of this study were to characterize purple rice bran oil (PRBO) as extracted from the bran, and to produce and characterize a nano-emulsion containing purple rice bran oil. An emulsion was prepared using PRBO (10%), sodium caseinate (5%) and water (85%). The mixture was sonicated followed ...

  4. Head rice rate measurement based on concave point matching

    NASA Astrophysics Data System (ADS)

    Yao, Yuan; Wu, Wei; Yang, Tianle; Liu, Tao; Chen, Wen; Chen, Chen; Li, Rui; Zhou, Tong; Sun, Chengming; Zhou, Yue; Li, Xinlu

    2017-01-01

    Head rice rate is an important factor affecting rice quality. In this study, an inflection point detection-based technology was applied to measure the head rice rate by combining a vibrator and a conveyor belt for bulk grain image acquisition. The edge center mode proportion method (ECMP) was applied for concave points matching in which concave matching and separation was performed with collaborative constraint conditions followed by rice length calculation with a minimum enclosing rectangle (MER) to identify the head rice. Finally, the head rice rate was calculated using the sum area of head rice to the overall coverage of rice. Results showed that bulk grain image acquisition can be realized with test equipment, and the accuracy rate of separation of both indica rice and japonica rice exceeded 95%. An increase in the number of rice did not significantly affect ECMP and MER. High accuracy can be ensured with MER to calculate head rice rate by narrowing down its relative error between real values less than 3%. The test results show that the method is reliable as a reference for head rice rate calculation studies.

  5. Head rice rate measurement based on concave point matching

    PubMed Central

    Yao, Yuan; Wu, Wei; Yang, Tianle; Liu, Tao; Chen, Wen; Chen, Chen; Li, Rui; Zhou, Tong; Sun, Chengming; Zhou, Yue; Li, Xinlu

    2017-01-01

    Head rice rate is an important factor affecting rice quality. In this study, an inflection point detection-based technology was applied to measure the head rice rate by combining a vibrator and a conveyor belt for bulk grain image acquisition. The edge center mode proportion method (ECMP) was applied for concave points matching in which concave matching and separation was performed with collaborative constraint conditions followed by rice length calculation with a minimum enclosing rectangle (MER) to identify the head rice. Finally, the head rice rate was calculated using the sum area of head rice to the overall coverage of rice. Results showed that bulk grain image acquisition can be realized with test equipment, and the accuracy rate of separation of both indica rice and japonica rice exceeded 95%. An increase in the number of rice did not significantly affect ECMP and MER. High accuracy can be ensured with MER to calculate head rice rate by narrowing down its relative error between real values less than 3%. The test results show that the method is reliable as a reference for head rice rate calculation studies. PMID:28128315

  6. Expressing the maize anthocyanin regulatory gene Lc increased flavonoid content in the seed of white pericarp rice and purple pericarp rice.

    PubMed

    Song, Y E; Wang, X; Shen, Z W; Xu, Y; Li, J Y

    2013-11-01

    The colour of red, purple, brown and white occurs in pericarp of rice. Here, the maize anthocyanin regulatory gene Lc under control of the promoter of the rice glutelin gene Gt1 was introduced in the white pericarp rice "Chao2-10" and purple pericarp rice "Qingjiaozidao". The results demonstrated that some transgenic "Chao2-10" rice pericarps became brown, and the total flavonoid contents in the unpolished rice of the two transgenic rices increased significantly compared with their respective controls. Unpolished rice kernel thickness and weight in the two transgenic rices decreased slightly.

  7. Effect of temperature on Chinese rice wine brewing with high concentration presteamed whole sticky rice.

    PubMed

    Liu, Dengfeng; Zhang, Hong-Tao; Xiong, Weili; Hu, Jianhua; Xu, Baoguo; Lin, Chi-Chung; Xu, Ling; Jiang, Lihua

    2014-01-01

    Production of high quality Chinese rice wine largely depends on fermentation temperature. However, there is no report on the ethanol, sugars, and acids kinetics in the fermentation mash of Chinese rice wine treated at various temperatures. The effects of fermentation temperatures on Chinese rice wine quality were investigated. The compositions and concentrations of ethanol, sugars, glycerol, and organic acids in the mash of Chinese rice wine samples were determined by HPLC method. The highest ethanol concentration and the highest glycerol concentration both were attained at the fermentation mash treated at 23 °C. The highest peak value of maltose (90 g/L) was obtained at 18 °C. Lactic acid and acetic acid both achieved maximum values at 33 °C. The experimental results indicated that temperature contributed significantly to the ethanol production, acid flavor contents, and sugar contents in the fermentation broth of the Chinese rice wines.

  8. Effect of Temperature on Chinese Rice Wine Brewing with High Concentration Presteamed Whole Sticky Rice

    PubMed Central

    Zhang, Hong-Tao; Xiong, Weili; Hu, Jianhua; Xu, Baoguo; Lin, Chi-Chung; Xu, Ling; Jiang, Lihua

    2014-01-01

    Production of high quality Chinese rice wine largely depends on fermentation temperature. However, there is no report on the ethanol, sugars, and acids kinetics in the fermentation mash of Chinese rice wine treated at various temperatures. The effects of fermentation temperatures on Chinese rice wine quality were investigated. The compositions and concentrations of ethanol, sugars, glycerol, and organic acids in the mash of Chinese rice wine samples were determined by HPLC method. The highest ethanol concentration and the highest glycerol concentration both were attained at the fermentation mash treated at 23°C. The highest peak value of maltose (90 g/L) was obtained at 18°C. Lactic acid and acetic acid both achieved maximum values at 33°C. The experimental results indicated that temperature contributed significantly to the ethanol production, acid flavor contents, and sugar contents in the fermentation broth of the Chinese rice wines. PMID:24672788

  9. Mitochondrial-Derived Oxidants and Cellular Responses to Low Dose/Low LET Ionizing Radiation

    SciTech Connect

    Spitz, Douglas R.

    2009-11-09

    that could be mitigated by over expression of the H2O2 metabolizing enzyme, catalase, and/or the mitochondrial form of superoxide dismutase (MnSOD). Furthermore, using radiation-induced genomically unstable cells, it was shown that steady-state levels of H2O2 were significantly elevated for many cell generations following exposure, catalase suppressed the radiation-induced mutator phenotype when added long after radiation exposure, unstable clones showed evidence of mitochondrial dysfunction some of which was characterized by improper assembly of SDH subunits (particularly subunit B), and chemical inhibitors of SDH activity could decrease steady-state levels of H2O2 as well as mutation frequency. These results support the hypotheses that 1) SDH mutations could contribute to transformation by inducing genomic instability and a mutator phenotype via increasing steady-state levels of ROS; 2) metabolic sources of O2•- and H2O2 play a significant role in low dose radiation induced injury and genomic instability; and 3) increased mutation rates in irradiated mammal cells can be suppressed by scavengers of H2O2 (particularly catalase) long after radiation exposure. Overall the results obtained during this period of support provide clear evidence in support of the hypothesis that abnormal oxidative metabolism in mitochondria that result in increases in steady-sate levels of H2O2 and other ROS are capable of significantly contributing to radiation-induced mutator phenotypes in mammalian cells.

  10. WRKY transcription factor genes in wild rice Oryza nivara.

    PubMed

    Xu, Hengjian; Watanabe, Kenneth A; Zhang, Liyuan; Shen, Qingxi J

    2016-08-01

    The WRKY transcription factor family is one of the largest gene families involved in plant development and stress response. Although many WRKY genes have been studied in cultivated rice (Oryza sativa), the WRKY genes in the wild rice species Oryza nivara, the direct progenitor of O. sativa, have not been studied. O. nivara shows abundant genetic diversity and elite drought and disease resistance features. Herein, a total of 97 O. nivara WRKY (OnWRKY) genes were identified. RNA-sequencing demonstrates that OnWRKY genes were generally expressed at higher levels in the roots of 30-day-old plants. Bioinformatic analyses suggest that most of OnWRKY genes could be induced by salicylic acid, abscisic acid, and drought. Abundant potential MAPK phosphorylation sites in OnWRKYs suggest that activities of most OnWRKYs can be regulated by phosphorylation. Phylogenetic analyses of OnWRKYs support a novel hypothesis that ancient group IIc OnWRKYs were the original ancestors of only some group IIc and group III WRKYs. The analyses also offer strong support that group IIc OnWRKYs containing the HVE sequence in their zinc finger motifs were derived from group Ia WRKYs. This study provides a solid foundation for the study of the evolution and functions of WRKY genes in O. nivara.

  11. WRKY transcription factor genes in wild rice Oryza nivara

    PubMed Central

    Xu, Hengjian; Watanabe, Kenneth A.; Zhang, Liyuan; Shen, Qingxi J.

    2016-01-01

    The WRKY transcription factor family is one of the largest gene families involved in plant development and stress response. Although many WRKY genes have been studied in cultivated rice (Oryza sativa), the WRKY genes in the wild rice species Oryza nivara, the direct progenitor of O. sativa, have not been studied. O. nivara shows abundant genetic diversity and elite drought and disease resistance features. Herein, a total of 97 O. nivara WRKY (OnWRKY) genes were identified. RNA-sequencing demonstrates that OnWRKY genes were generally expressed at higher levels in the roots of 30-day-old plants. Bioinformatic analyses suggest that most of OnWRKY genes could be induced by salicylic acid, abscisic acid, and drought. Abundant potential MAPK phosphorylation sites in OnWRKYs suggest that activities of most OnWRKYs can be regulated by phosphorylation. Phylogenetic analyses of OnWRKYs support a novel hypothesis that ancient group IIc OnWRKYs were the original ancestors of only some group IIc and group III WRKYs. The analyses also offer strong support that group IIc OnWRKYs containing the HVE sequence in their zinc finger motifs were derived from group Ia WRKYs. This study provides a solid foundation for the study of the evolution and functions of WRKY genes in O. nivara. PMID:27345721

  12. Non isothermal model free kinetics for pyrolysis of rice straw.

    PubMed

    Mishra, Garima; Bhaskar, Thallada

    2014-10-01

    The kinetics of thermal decomposition of rice straw was studied by thermogravimetry. Non-isothermal thermogravimetric data of rice straw decomposition in nitrogen atmosphere at six different heating rates of 5-40 °C/min was used for evaluating kinetics using several model free kinetic methods. The results showed that the decomposition process exhibited two zones of constant apparent activation energies. The values ranged from 142 to 170 kJ/mol (E(avg) = 155.787 kJ/mol), and 170 to 270 kJ/mol (E(avg) = 236.743 kJ/mol) in the conversion range of 5-60% and 61-90% respectively. These values were used to determine the reaction mechanism of process using master plots and compensation parameters. The results show that the reaction mechanism of whole process can be kinetically characterized by two successive reactions, a diffusion reaction followed by a third order rate equation. The kinetic results were validated using isothermal predictions. The results derived are useful for development and optimization of biomass thermochemical conversion systems.

  13. Development of Ozone Technology Rice Storage Systems (OTRISS) for Quality Improvement of Rice Production

    NASA Astrophysics Data System (ADS)

    Nur, M.; Kusdiyantini, E.; Wuryanti, W.; Winarni, T. A.; Widyanto, S. A.; Muharam, H.

    2015-06-01

    This research has been carried out by using ozone to address the rapidly declining quality of rice in storage. In the first year, research has focused on the rice storage with ozone technology for small capacity (e.g., household) and the medium capacity (e.g., dormitories, hospitals). Ozone was produced by an ozone generator with Dielectric Barrier Discharge Plasma (DBDP). Ozone technology rice storage system (OTRISS) is using ozone charateristic which is a strong oxidizer. Ozone have a short endurance of existence and then decompose, as a result produce oxygen and radicals of oxygen. These characteristics could kill microorganisms and pests, reduce air humidity and enrich oxygen. All components used in SPBTO assembled using raw materials available in the big cities in Indonesia. Provider of high voltage (High Voltage Power Supply, 40-70 kV, 23 KH, AC) is one of components that have been assembled and tested. Ozone generator is assembled with 7 reactors of Dielectric Barrier Discharge Plasma (DBDP). Rice container that have been prepared for OTRISS have adjusted so can be integrated with generator, power supply and blower to blow air. OTRISS with a capacity of 75 kg and 100 kg have been made and tested. The ability of ozone to eliminate bacteria and fungi have been tested and resulted in a decrease of microorganisms at 3 log CFU/g. Testing in food chemistry showed that ozone treatment of rice had not changed the chemical content that still meet the standard of chemical content and nutritional applicable to ISO standard milled rice. The results of this study are very likely to be used as an alternative to rice storage systems in warehouse. Test and scale-up is being carried out in a mini warehouse whose condition is mimicked to rice in National Rice Storage of Indonesia (Bulog) to ensure quality. Next adaptations would be installed in the rice storage system in the Bulog.

  14. Relationship between disease resistance and rice oxalate oxidases in transgenic rice.

    PubMed

    Zhang, Xian Yong; Nie, Zhuan Hua; Wang, Wen Juan; Leung, David W M; Xu, Da Gao; Chen, Bai Ling; Chen, Zhe; Zeng, Lie Xian; Liu, E E

    2013-01-01

    Differential expression of rice oxalate oxidase genes (OsOxO1-4) in rice leaves (Oryza sativa L.) in response to biotic stress was assayed using RT-PCR. OsOxO4 was induced transiently at 12 h in plants inoculated with the pathogens of bacterial blight and that of the wounding control. Inoculation with the rice blast pathogen induced OsOxO2 expression compared to the mock spray control. Overexpressing OsOxO1 or OsOxO4 in rice resulted in elevated transcript levels of the respective transgene as well as OsOxO3 in leaves compared to that in untransformed wild type (WT). In a line of RNA-i transgenic rice plants (i-12), expression of all four OsOxO genes except that of OsOxO2 was severely inhibited. Oxalate oxidase (OxO, EC 1.2.3.4) activity in plants overexpressing OsOxO1 or OsOxO4 was substantially higher than that in WT and the RNA-i lines. It was found that transgenic rice plants with substantially higher OxO activity were not more resistant to rice blast and bacterial blight than WT. In contrast, some RNA-i lines with less OxO activity seemed to be more resistant to rice blast while some overexpressing lines were more susceptible to rice blast than WT. Therefore, OxO might not be a disease resistance factor in rice.

  15. Integrated rice-duck farming mitigates the global warming potential in rice season.

    PubMed

    Xu, Guochun; Liu, Xin; Wang, Qiangsheng; Yu, Xichen; Hang, Yuhao

    2017-01-01

    Integrated rice-duck farming (IRDF), as a mode of ecological agriculture, is an important way to realize sustainable development of agriculture. A 2-year split-plot field experiment was performed to evaluate the effects of IRDF on methane (CH4) and nitrous oxide (N2O) emissions and its ecological mechanism in rice season. This experiment was conducted with two rice farming systems (FS) of IRDF and conventional farming (CF) under four paddy-upland rotation systems (PUR): rice-fallow (RF), annual straw incorporating in rice-wheat rotation system (RWS), annual straw-based biogas residues incorporating in rice-wheat rotation system (RWB), and rice-green manure (RGM). During the rice growing seasons, IRDF decreased the CH4 emission by 8.80-16.68%, while increased the N2O emission by 4.23-15.20%, when compared to CF. Given that CH4 emission contributed to 85.83-96.22% of global warming potential (GWP), the strong reduction in CH4 emission led to a significantly lower GWP of IRDF as compared to CF. The reason for this trend was because IRDF has significant effect on dissolved oxygen (DO) and soil redox potential (Eh), which were two pivotal factors for CH4 and N2O emissions in this study. The IRDF not only mitigates the GWP, but also increases the rice yield by 0.76-2.43% compared to CF. Moreover, compared to RWS system, RF, RWB and RGM systems significantly reduced CH4 emission by 50.17%, 44.89% and 39.51%, respectively, while increased N2O emission by 10.58%, 14.60% and 23.90%, respectively. And RWS system had the highest GWP. These findings suggest that mitigating GWP and improving rice yield could be simultaneously achieved by the IRDF, and employing suitable PUR would benefit for relieving greenhouse effect.

  16. HapRice, an SNP haplotype database and a web tool for rice.

    PubMed

    Yonemaru, Jun-ichi; Ebana, Kaworu; Yano, Masahiro

    2014-01-01

    Genome-wide single nucleotide polymorphism (SNP) analysis is a promising tool to examine the genetic diversity of rice populations and genetic traits of scientific and economic importance. Next-generation sequencing technology has accelerated the re-sequencing of diverse rice varieties and the discovery of genome-wide SNPs. Notably, validation of these SNPs by a high-throughput genotyping system, such as an SNP array, could provide a manageable and highly accurate SNP set. To enhance the potential utility of genome-wide SNPs for geneticists and breeders, analysis tools need to be developed. Here, we constructed an SNP haplotype database, which allows visualization of the allele frequency of all SNPs in the genome browser. We calculated the allele frequencies of 3,334 SNPs in 76 accessions from the world rice collection and 3,252 SNPs in 177 Japanese rice accessions; all these SNPs have been validated in our previous studies. The SNP haplotypes were defined by the allele frequency in each cultivar group (aus, indica, tropical japonica and temperate japonica) for the world rice accessions, and in non-irrigated and three irrigated groups (three variety registration periods) for Japanese rice accessions. We also developed web tools for finding polymorphic SNPs between any two rice accessions and for the primer design to develop cleaved amplified polymorphic sequence markers at any SNP. The 'HapRice' database and the web tools can be accessed at http://qtaro.abr.affrc.go.jp/index.html. In addition, we established a core SNP set consisting of 768 SNPs uniformly distributed in the rice genome; this set is of a practically appropriate size for use in rice genetic analysis.

  17. Hemoglobin derivatives

    MedlinePlus

    ... this page: //medlineplus.gov/ency/article/003371.htm Hemoglobin derivatives To use the sharing features on this page, please enable JavaScript. Hemoglobin derivatives are altered forms of hemoglobin . Hemoglobin is ...

  18. 'Red Yeast Rice' Statin Alternative Not Harmless Either, Study Says

    MedlinePlus

    ... medlineplus.gov/news/fullstory_163221.html 'Red Yeast Rice' Statin Alternative Not Harmless Either, Study Says The ... A natural cholesterol-lowering supplement called red yeast rice could pose the same health risks to users ...

  19. Developing and delivering biofortified Rice to the consumer

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Biofortified rice varieties include those that have been enhanced for protein, vitamins, minerals, or other nutritional compounds. Delivering biofortified rice varieties carries with it extra challenges as compared to conventional varieties. Nutritional compounds must be present at significantly hig...

  20. Exploitation of heterosis loci for yield and yield components in rice using chromosome segment substitution lines

    PubMed Central

    Tao, Yajun; Zhu, Jinyan; Xu, Jianjun; Wang, Liujun; Gu, Houwen; Zhou, Ronghua; Yang, Zefeng; Zhou, Yong; Liang, Guohua

    2016-01-01

    We constructed 128 chromosome segment substitution lines (CSSLs), derived from a cross between indica rice (Oryza sativa L.) 9311 and japonica rice Nipponbare, to investigate the genetic mechanism of heterosis. Three photo-thermo-sensitive-genic male sterile lines (Guangzhan63-4s, 036s, and Lian99s) were selected to cross with each CSSL to produce testcross populations (TCs). Field experiments were carried out in 2009, 2011, and 2015 to evaluate yield and yield-related traits in the CSSLs and TCs. Four traits (plant height, spikelet per panicle, thousand-grain weight, and grain yield per plant) were significantly related between CSSLs and TCs. In the TCs, plant height, panicle length, seed setting rate, thousand-grain weight, and grain yield per plant showed partial dominance, indicating that dominance largely contributes to heterosis of these five traits. While overdominance may be more important for heterosis of panicles per plant and spikelet per panicle. Based on the bin-maps of CSSLs and TCs, we detected 62 quantitative trait loci (QTLs) and 97 heterotic loci (HLs) using multiple linear regression analyses. Some of these loci were clustered together. The identification of QTLs and HLs for yield and yield-related traits provide useful information for hybrid rice breeding, and help to uncover the genetic basis of rice heterosis. PMID:27833097

  1. A genome-wide survey reveals abundant rice blast R-genes in resistant cultivars

    PubMed Central

    Tan, Shengjun; Zhong, Yan; Wang, Ling; Gu, Longjiang; Chen, Jian-Qun; Pan, Qinghua; Bergelson, Joy; Tian, Dacheng

    2015-01-01

    Summary Plant resistance genes (R-genes) harbor tremendous allelic diversity, constituting a robust immune system effective against microbial pathogens. Nevertheless, few functional R-genes have been identified for even the best-studied pathosystems. Does this limited repertoire reflect specificity, with most R-genes having been defeated by former pests, or do plants harbor a rich diversity of functional R-genes whose composite behavior is yet to be characterized? Here, we survey 332 NBS-LRR genes cloned from 5 resistant rice cultivars for their ability to confer recognition of 12 rice blast isolates when transformed into susceptible cultivars. Our survey reveals that 48.5% of the 132 NBS-LRR loci tested contain functional rice blast R-genes, with most R-genes deriving from multi-copy clades containing especially diversified loci. Each R-gene recognized, on average, 2.42 of the 12 isolates screened. The abundant R-genes identified in resistant genomes provide extraordinary redundancy in the ability of host genotypes to recognize particular isolates. If the same is true for other pathogens, many extant NBS-LRR genes retain functionality. Our success at identifying rice blast R-genes also validates a highly efficient cloning and screening strategy. PMID:26248689

  2. Exploitation of heterosis loci for yield and yield components in rice using chromosome segment substitution lines.

    PubMed

    Tao, Yajun; Zhu, Jinyan; Xu, Jianjun; Wang, Liujun; Gu, Houwen; Zhou, Ronghua; Yang, Zefeng; Zhou, Yong; Liang, Guohua

    2016-11-11

    We constructed 128 chromosome segment substitution lines (CSSLs), derived from a cross between indica rice (Oryza sativa L.) 9311 and japonica rice Nipponbare, to investigate the genetic mechanism of heterosis. Three photo-thermo-sensitive-genic male sterile lines (Guangzhan63-4s, 036s, and Lian99s) were selected to cross with each CSSL to produce testcross populations (TCs). Field experiments were carried out in 2009, 2011, and 2015 to evaluate yield and yield-related traits in the CSSLs and TCs. Four traits (plant height, spikelet per panicle, thousand-grain weight, and grain yield per plant) were significantly related between CSSLs and TCs. In the TCs, plant height, panicle length, seed setting rate, thousand-grain weight, and grain yield per plant showed partial dominance, indicating that dominance largely contributes to heterosis of these five traits. While overdominance may be more important for heterosis of panicles per plant and spikelet per panicle. Based on the bin-maps of CSSLs and TCs, we detected 62 quantitative trait loci (QTLs) and 97 heterotic loci (HLs) using multiple linear regression analyses. Some of these loci were clustered together. The identification of QTLs and HLs for yield and yield-related traits provide useful information for hybrid rice breeding, and help to uncover the genetic basis of rice heterosis.

  3. Genetical and morphological characterization of cold tolerance at fertilization stage in rice

    PubMed Central

    Shinada, Hiroshi; Iwata, Natsuko; Sato, Takashi; Fujino, Kenji

    2013-01-01

    Cold temperature during the reproductive phase leads to seed sterility, which reduces yield and decreases the grain quality of rice. The fertilization stage, ranging from pollen maturation to the completion of fertilization, is sensitive to unsuitable temperature. Improving cold tolerance at the fertilization stage (CTF) is an important objective of rice breeding program in cold temperature areas. In this study, we characterized fertilization behavior under cold temperature to define the phenotype of CTF and identified quantitative trait loci (QTLs) for CTF. A wide variation in CTF levels has been identified among local cultivars in Hokkaido, which is one of the most northern regions for rice cultivation in the world. Clear varietal differences in pollen germination, and pollen tube elongation due to cold temperature have been observed. These differences may confer a degree of CTF among this population. We conducted QTL analysis for CTF using 120 backcrossed inbred lines derived from a cross between Eikei88223 (vigorous CTF) and Suisei (very weak CTF). Three QTLs for CTF were identified. A clear effect by QTL, qCTF7, for increasing the level of CTF was validated using advanced progeny. These results will facilitate marker-assist selection for desirable QTLs for CTF in rice breeding program. PMID:23853514

  4. A genome-wide survey reveals abundant rice blast R genes in resistant cultivars.

    PubMed

    Zhang, Xiaohui; Yang, Sihai; Wang, Jiao; Jia, Yanxiao; Huang, Ju; Tan, Shengjun; Zhong, Yan; Wang, Ling; Gu, Longjiang; Chen, Jian-Qun; Pan, Qinghua; Bergelson, Joy; Tian, Dacheng

    2015-10-01

    Plant resistance genes (R genes) harbor tremendous allelic diversity, constituting a robust immune system effective against microbial pathogens. Nevertheless, few functional R genes have been identified for even the best-studied pathosystems. Does this limited repertoire reflect specificity, with most R genes having been defeated by former pests, or do plants harbor a rich diversity of functional R genes, the composite behavior of which is yet to be characterized? Here, we survey 332 NBS-LRR genes cloned from five resistant Oryza sativa (rice) cultivars for their ability to confer recognition of 12 rice blast isolates when transformed into susceptible cultivars. Our survey reveals that 48.5% of the 132 NBS-LRR loci tested contain functional rice blast R genes, with most R genes deriving from multi-copy clades containing especially diversified loci. Each R gene recognized, on average, 2.42 of the 12 isolates screened. The abundant R genes identified in resistant genomes provide extraordinary redundancy in the ability of host genotypes to recognize particular isolates. If the same is true for other pathogens, many extant NBS-LRR genes retain functionality. Our success at identifying rice blast R genes also validates a highly efficient cloning and screening strategy.

  5. Antioxidant and antidiabetic properties of tartary buckwheat rice flavonoids after in vitro digestion*

    PubMed Central

    Bao, Tao; Wang, Ye; Li, Yu-ting; Gowd, Vemana; Niu, Xin-he; Yang, Hai-ying; Chen, Li-shui; Chen, Wei; Sun, Chong-de

    2016-01-01

    Oxidative stress and diabetes have a tendency to alter protein, lipid, and DNA moieties. One of the strategic methods used to reduce diabetes-associated oxidative stress is to inhibit the carbohydrate-digesting enzymes, thereby decreasing gastrointestinal glucose production. Plant-derived natural antioxidant molecules are considered a therapeutic tool in the treatment of oxidative stress and diabetes. The objective of this study was to identify tartary buckwheat rice flavonoids and evaluate the effect of in vitro digestion on their antioxidant and antidiabetic properties. High performance liquid chromatography (HPLC) analysis indicated the presence of rutin as a major component and quercitrin as a minor component of both digested and non-digested flavonoids. Both extracts showed a significant antioxidant capacity, but digested flavonoids showed reduced activity compared to non-digested. There were some decreases of the antioxidant activities (2,2'-azino-bis-(3-ethylbenzthiazoline-6-sulfonic acid) diammonium salt (ABTS), 2,2-diphenyl-1-picrylhydrazy (DPPH) radical, and ferric reducing antioxidant power (FRAP)) of digested tartary buckwheat rice flavonoids compared with non-digested. Flavonoids from both groups significantly inhibited reactive oxygen species (ROS) production and α-glucosidase activity. Both digested and non-digested flavonoids markedly increased glucose consumption and glycogen content in HepG2 cells. Tartary buckwheat rice flavonoids showed appreciable antioxidant and antidiabetic properties, even after digestion. Tartary buckwheat rice appears to be a promising functional food with potent antioxidant and antidiabetic properties. PMID:27921399

  6. Genetical and morphological characterization of cold tolerance at fertilization stage in rice.

    PubMed

    Shinada, Hiroshi; Iwata, Natsuko; Sato, Takashi; Fujino, Kenji

    2013-06-01

    Cold temperature during the reproductive phase leads to seed sterility, which reduces yield and decreases the grain quality of rice. The fertilization stage, ranging from pollen maturation to the completion of fertilization, is sensitive to unsuitable temperature. Improving cold tolerance at the fertilization stage (CTF) is an important objective of rice breeding program in cold temperature areas. In this study, we characterized fertilization behavior under cold temperature to define the phenotype of CTF and identified quantitative trait loci (QTLs) for CTF. A wide variation in CTF levels has been identified among local cultivars in Hokkaido, which is one of the most northern regions for rice cultivation in the world. Clear varietal differences in pollen germination, and pollen tube elongation due to cold temperature have been observed. These differences may confer a degree of CTF among this population. We conducted QTL analysis for CTF using 120 backcrossed inbred lines derived from a cross between Eikei88223 (vigorous CTF) and Suisei (very weak CTF). Three QTLs for CTF were identified. A clear effect by QTL, qCTF7, for increasing the level of CTF was validated using advanced progeny. These results will facilitate marker-assist selection for desirable QTLs for CTF in rice breeding program.

  7. Isolation of cellulose from rice straw and its conversion into cellulose acetate catalyzed by phosphotungstic acid.

    PubMed

    Fan, Guozhi; Wang, Min; Liao, Chongjing; Fang, Tao; Li, Jianfen; Zhou, Ronghui

    2013-04-15

    Cellulose was isolated from rice straw by pretreatment with dilute alkaline and acid solutions successively, and it was further transferred into cellulose acetate in the presence of acetic anhydride and phosphotungstic acid (H3PW12O40·6H2O). The removal of hemicellulose and lignin was affected by the concentration of KOH and the immersion time in acetic acid solution, and 83wt.% content of cellulose in the treated rice straw was obtained after pretreatment with 4% KOH and immersion in acetic acid for 5h. Phosphotungstic acid was found to be an effective catalyst for the acetylation of the cellulose derived from rice straw. The degree of substitution (DS) values revealed a significant effect for the solubility of cellulose acetate, and the acetone-soluble cellulose acetate with DS values around 2.2 can be obtained by changing the amount of phosphotungstic acid and the time of acetylation. Both the structure of cellulose separated from rice straw and cellulose acetate were confirmed by FTIR and XRD.

  8. Genome wide association study (GWAS) for grain yield in rice cultivated under water deficit.

    PubMed

    Pantalião, Gabriel Feresin; Narciso, Marcelo; Guimarães, Cléber; Castro, Adriano; Colombari, José Manoel; Breseghello, Flavio; Rodrigues, Luana; Vianello, Rosana Pereira; Borba, Tereza Oliveira; Brondani, Claudio

    2016-12-01

    The identification of rice drought tolerant materials is crucial for the development of best performing cultivars for the upland cultivation system. This study aimed to identify markers and candidate genes associated with drought tolerance by Genome Wide Association Study analysis, in order to develop tools for use in rice breeding programs. This analysis was made with 175 upland rice accessions (Oryza sativa), evaluated in experiments with and without water restriction, and 150,325 SNPs. Thirteen SNP markers associated with yield under drought conditions were identified. Through stepwise regression analysis, eight SNP markers were selected and validated in silico, and when tested by PCR, two out of the eight SNP markers were able to identify a group of rice genotypes with higher productivity under drought. These results are encouraging for deriving markers for the routine analysis of marker assisted selection. From the drought experiment, including the genes inherited in linkage blocks, 50 genes were identified, from which 30 were annotated, and 10 were previously related to drought and/or abiotic stress tolerance, such as the transcription factors WRKY and Apetala2, and protein kinases.

  9. Mercury cycling in a flooded rice paddy

    NASA Astrophysics Data System (ADS)

    Rothenberg, Sarah E.; Feng, Xinbin

    2012-09-01

    In 2008 and 2009, mercury (Hg) cycling was investigated in a flooded rice paddy in the Wanshan Hg mining region of eastern Guizhou, China, in the rice-planted (2008 and 2009) and fallow (2009) sections of the same paddy. In the rice-planted section, pore water was more acidic and pore water methylmercury (MeHg) concentrations were higher compared to the fallow section. However, iron (Fe) and sulfur (S) cycling differed in 2008 and 2009, with higher sediment Fe concentrations in 2009, when pore water MeHg and sulfate concentrations were more strongly correlated in the rice-planted section. We explored whether elevated sediment Fe contributed to S cycling and hence, Hg(II)-methylation. Critical pH values for formation of FeS(s) were estimated. Based on pore water pH collected in both sections of the paddy, the fallow section was more often a sink for FeS(s), while FeS(s) did not form in the rice-planted section, although sulfide concentrations were low in both sections in both years (i.e.,<10 μM). We hypothesized Fe(III) oxidized sulfide, and intermediate S species (e.g., polysulfides) were further oxidized to sulfate instead of forming FeS(s), thus prolonging sulfate reduction and promoting Hg(II)-methylation in the rice-planted section in 2009. Results suggested Fe(III) reduction increased electron acceptors for sulfate-reducing bacteria, which indirectly enhanced Hg(II)-methylation. Additionally, highest sediment MeHg concentrations were observed in the fallow section after the paddy was dried and re-wetted, indicating water-saving rice cultivation practices (e.g., alternating wetting and drying), may cause MeHg concentrations in paddy soil to spike, which should be further investigated.

  10. A novel carotenoid, 4-keto-α-carotene, as an unexpected by-product during genetic engineering of carotenogenesis in rice callus.

    PubMed

    Breitenbach, Jürgen; Bai, Chao; Rivera, Sol M; Canela, Ramon; Capell, Teresa; Christou, Paul; Zhu, Changfu; Sandmann, Gerhard

    2014-02-01

    Rice endosperm is devoid of carotenoids because the initial biosynthetic steps are absent. The early carotenogenesis reactions were constituted through co-transformation of endosperm-derived rice callus with phytoene synthase and phytoene desaturase transgenes. Subsequent steps in the pathway such as cyclization and hydroxylation reactions were catalyzed by endogenous rice enzymes in the endosperm. The carotenoid pathway was extended further by including a bacterial ketolase gene able to form astaxanthin, a high value carotenoid which is not a typical plant carotenoid. In addition to astaxanthin and precursors, a carotenoid accumulated in the transgenic callus which did not fit into the pathway to astaxanthin. This was subsequently identified as 4-keto-α-carotene by HPLC co-chromatography, chemical modification, mass spectrometry and the reconstruction of its biosynthesis pathway in Escherichia coli. We postulate that this keto carotenoid is formed from α-carotene which accumulates by combined reactions of the heterologous gene products and endogenous rice endosperm cyclization reactions.

  11. Positional cloning of rice semidwarfing gene, sd-1: rice "green revolution gene" encodes a mutant enzyme involved in gibberellin synthesis.

    PubMed

    Monna, Lisa; Kitazawa, Noriyuki; Yoshino, Rika; Suzuki, Junko; Masuda, Haruka; Maehara, Yumiko; Tanji, Masao; Sato, Mizuho; Nasu, Shinobu; Minobe, Yuzo

    2002-02-28

    A rice semidwarfing gene, sd-1, known as the "green revolution gene," was isolated by positional cloning and revealed to encode gibberellin 20-oxidase, the key enzyme in the gibberellin biosynthesis pathway. Analysis of 3477 segregants using several PCR-based marker technologies, including cleaved amplified polymorphic sequence, derived-CAPS, and single nucleotide polymorphisms revealed 1 ORF in a 6-kb candidate interval. Normal-type rice cultivars have an identical sequence in this region, consisting of 3 exons (558, 318, and 291 bp) and 2 introns (105 and 1471 bp). Dee-Geo-Woo-Gen-type sd-1 mutants have a 383-bp deletion from the genome (278-bp deletion from the expressed sequence), from the middle of exon 1 to upstream of exon 2, including a 105-bp intron, resulting in a frame-shift that produces a termination codon after the deletion site. The radiation-induced sd-1 mutant Calrose 76 has a 1-bp substitution in exon 2, causing an amino acid substitution (Leu [CTC] to Phe [TTC]). Expression analysis suggests the existence of at least one more locus of gibberellin 20-oxidase which may prevent severe dwarfism from developing in sd-1 mutants.

  12. Changes in carbon stability and microbial activity in size fractions of micro-aggregates in a rice soil chronosequence under long term rice cultivation

    NASA Astrophysics Data System (ADS)

    Pan, Genxing; Liu, Yalong; Wang, Ping; Li, Lianqinfg; Cheng, Kun; Zheng, Jufeng; Zhang, Xuhui; Zheng, Jinwei; Bian, Rongjun; Ding, Yuanjun; Ma, Chong

    2016-04-01

    Recent studies have shown soil carbon sequestration through physical protection of relative labile carbon intra micro-aggregates with formation of large sized macro-aggregates under good management of soil and agricultural systems. While carbon stabilization had been increasingly concerned as ecosystem properties, the mechanisms underspin bioactivity of soil carbon with increased carbon stability has been still poorly understood. In this study, topsoil samples were collected from rice soils derived from salt marsh under different length of rice cultivation up to 700 years from eastern China. Particle size fractions (PSF) of soil aggregates were separated using a low energy dispersion protocol. Carbon fractions in the PSFs were analyzed either with FTIR spectroscopy. Soil microbial community of bacterial, fungal and archaeal were analyzed with molecular fingerprinting using specific gene primers. Soil respiration and carbon gain from amended maize as well as enzyme activities were measured using lab incubation protocols. While the PSFs were dominated by the fine sand (200-20μm) and silt fraction (20-2μm), the mass proportion both of sand (2000-200μm) and clay (<2μm) fraction increased with prolonged rice cultivation, giving rise to an increasing trend of mean weight diameter of soil aggregates (also referred to aggregate stability). Soil organic carbon was found most enriched in coarse sand fraction (40-60g/kg), followed by the clay fraction (20-24.5g/kg), but depleted in the silt fraction (~10g/kg). Phenolic and aromatic carbon as recalcitrant pool were high (33-40% of total SOC) in both coarse sand and clay fractions than in both fine sand and silt fractions (20-29% of total SOC). However, the ratio of LOC/total SOC showed a weak decreasing trend with decreasing size of the aggregate fractions. Total gene content in the size fractions followed a similar trend to that of SOC. Bacterial and archaeal gene abundance was concentrated in both sand and clay fractions

  13. African rice (Oryza glaberrima): History and future potential

    PubMed Central

    Linares, Olga F.

    2002-01-01

    The African species of rice (Oryza glaberrima) was cultivated long before Europeans arrived in the continent. At present, O. glaberrima is being replaced by the introduced Asian species of rice, Oryza sativa. Some West African farmers, including the Jola of southern Senegal, still grow African rice for use in ritual contexts. The two species of rice have recently been crossed, producing a promising hybrid. PMID:12461173

  14. Basmati Rice Fraud under the Magnifying Glass of DNA Analysis.

    PubMed

    Fridez, Françoise

    2016-01-01

    Basmati rice is a perfumed rice of high commercial value which is easily adulterated. A list of rice varieties accepted as true Basmati is the subject of an agreement between Europe, Pakistan and India. Each rice variety can be characterized by DNA profiling, thus offering to the control authorities a powerful tool to detect fraud. Mixtures of authentic Basmati and non-Basmati varieties can be quantified. During the last six years, about one third of the analysed samples proved to be fraudulent.

  15. Environmental abundance of Anopheles (Diptera: Culicidae) larval habitats on land cover change sites in Karima Village, Mwea Rice Scheme, Kenya.

    PubMed

    Jacob, Benjamin G; Muturi, Ephantus; Halbig, Patrick; Mwangangi, Joseph; Wanjogu, R K; Mpanga, Enock; Funes, Jose; Shililu, Josephat; Githure, John; Regens, James L; Novak, Robert J

    2007-01-01

    A study was carried out at Karima Village in the Mwea Rice Irrigation Scheme in Kenya to assess the impact of rice husbandry and associated land cover change for mosquito larval abundance. A multi-temporal, land use land cover (LULC) classification dataset incorporating distributions of Anopheles arabiensis aquatic larval habitats was produced in ERDAS Imagine version 8.7 using combined images from IKONOS at 4m spatial resolution from 2005 and Landsat Thematic Mapper (TM)trade mark classification data at 30-meters spatial resolution from 1988 for Karima. Of 207 larval habitats sampled, most were either canals (53.4%) or paddies (45.9%), and only one habitat was classified as a seep (0.5%). The proportion of habitats that were poorly drained was 55.1% compared with 44.9% for the habitats that were well drained. An LULC base map was generated. A grid incorporating each rice paddy was overlaid over the LULC maps stratifying each cell based on levels of irrigation. Paddies/grid cells were classified as 1) well irrigated and 2) poorly irrigated. Early stages of rice growth showed peak larval production during the early part of the cropping cycle (rainy season). Total LULC change for Karima over 16 years was 59.8%. Of those areas in which change was detected, the LULC change for Karima was 4.30% for rice field to built environment, 8.74% for fallow to built environment, 7.19% for rice field to fallow, 19.03% built to fallow, 5.52% for fallow to rice field, and 8.35% for built environment to rice field. Of 207 aquatic habitats in Karima, 54.1 (n = 112) were located in LULC change sites and 45.9 (n = 95) were located in LULC non-change sites. Rice crop LULC maps derived from IKONOS and TM data in geographic information systems can be used to investigate the relationship between rice cultivation practices and higher anopheline larval habitat distribution.

  16. Effect of germination on the physicochemical and antioxidant characteristics of rice flour from three rice varieties from Nigeria.

    PubMed

    Chinma, Chiemela Enyinnaya; Anuonye, Julian Chukwuemeka; Simon, Omotade Comfort; Ohiare, Raliat Ozavize; Danbaba, Nahemiah

    2015-10-15

    This study determined the effect of germination (48 h) on the physicochemical and antioxidant characteristics of rice flour from three rice varieties from Nigeria. Local rice varieties (Jamila, Jeep and Kwandala) were evaluated and compared to an improved variety (MR 219). Physicochemical and antioxidant properties of flours were determined using standard methods. Protein, magnesium, phosphorus, potassium and antioxidant properties of rice flours increased after germination while phytic acid and total starch contents decreased. Foaming capacity and stability of rice flours increased after germination. Germination resulted to changes in pasting and thermal characteristics of rice flours. Germinated rice flours had better physicochemical and antioxidant properties with reduced phytic acid and starch contents compared to MR 219, which can be utilized as functional ingredients in the preparation of rice-based products.

  17. Rice pseudomolecule-anchored cross-species DNA sequence alignments indicate regional genomic variation in expressed sequence conservation

    PubMed Central

    Armstead, Ian; Huang, Lin; King, Julie; Ougham, Helen; Thomas, Howard; King, Ian

    2007-01-01

    Background Various methods have been developed to explore inter-genomic relationships among plant species. Here, we present a sequence similarity analysis based upon comparison of transcript-assembly and methylation-filtered databases from five plant species and physically anchored rice coding sequences. Results A comparison of the frequency of sequence alignments, determined by MegaBLAST, between rice coding sequences in TIGR pseudomolecules and annotations vs 4.0 and comprehensive transcript-assembly and methylation-filtered databases from Lolium perenne (ryegrass), Zea mays (maize), Hordeum vulgare (barley), Glycine max (soybean) and Arabidopsis thaliana (thale cress) was undertaken. Each rice pseudomolecule was divided into 10 segments, each containing 10% of the functionally annotated, expressed genes. This indicated a correlation between relative segment position in the rice genome and numbers of alignments with all the queried monocot and dicot plant databases. Colour-coded moving windows of 100 functionally annotated, expressed genes along each pseudomolecule were used to generate 'heat-maps'. These revealed consistent intra- and inter-pseudomolecule variation in the relative concentrations of significant alignments with the tested plant databases. Analysis of the annotations and derived putative expression patterns of rice genes from 'hot-spots' and 'cold-spots' within the heat maps indicated possible functional differences. A similar comparison relating to ancestral duplications of the rice genome indicated that duplications were often associated with 'hot-spots'. Conclusion Physical positions of expressed genes in the rice genome are correlated with the degree of conservation of similar sequences in the transcriptomes of other plant species. This relative conservation is associated with the distribution of different sized gene families and segmentally duplicated loci and may have functional and evolutionary implications. PMID:17708759

  18. Metaproteomic Identification of Diazotrophic Methanotrophs and Their Localization in Root Tissues of Field-Grown Rice Plants

    PubMed Central

    Bao, Zhihua; Okubo, Takashi; Kubota, Kengo; Kasahara, Yasuhiro; Tsurumaru, Hirohito; Anda, Mizue; Ikeda, Seishi

    2014-01-01

    In a previous study by our group, CH4 oxidation and N2 fixation were simultaneously activated in the roots of wild-type rice plants in a paddy field with no N input; both processes are likely controlled by a rice gene for microbial symbiosis. The present study examined which microorganisms in rice roots were responsible for CH4 oxidation and N2 fixation under the field conditions. Metaproteomic analysis of root-associated bacteria from field-grown rice (Oryza sativa Nipponbare) revealed that nitrogenase complex-containing nitrogenase reductase (NifH) and the alpha subunit (NifD) and beta subunit (NifK) of dinitrogenase were mainly derived from type II methanotrophic bacteria of the family Methylocystaceae, including Methylosinus spp. Minor nitrogenase proteins such as Methylocella, Bradyrhizobium, Rhodopseudomonas, and Anaeromyxobacter were also detected. Methane monooxygenase proteins (PmoCBA and MmoXYZCBG) were detected in the same bacterial group of the Methylocystaceae. Because these results indicated that Methylocystaceae members mediate both CH4 oxidation and N2 fixation, we examined their localization in rice tissues by using catalyzed reporter deposition-fluorescence in situ hybridization (CARD-FISH). The methanotrophs were localized around the epidermal cells and vascular cylinder in the root tissues of the field-grown rice plants. Our metaproteomics and CARD-FISH results suggest that CH4 oxidation and N2 fixation are performed mainly by type II methanotrophs of the Methylocystaceae, including Methylosinus spp., inhabiting the vascular bundles and epidermal cells of rice roots. PMID:24928870

  19. Assessment of rice leaf chlorophyll content using visible bands at different growth stages at both the leaf and canopy scale

    NASA Astrophysics Data System (ADS)

    Saberioon, M. M.; Amin, M. S. M.; Anuar, A. R.; Gholizadeh, A.; Wayayok, A.; Khairunniza-Bejo, S.

    2014-10-01

    Nitrogen is an important variable for paddy farming management. The objectives of this study were to develop and test a new method to determine the status of nitrogen and chlorophyll content in rice leaf by analysing and considering all visible bands derived from images captured using a conventional digital camera. The images from the 6-pannel leaf colour chart were acquired using Basler Scout scA640-70fc under light-emitting diode lighting, in which principal component analysis was used to retain the lower order principal component to develop a new index. Digital photographs of the upper most collared leaf of rice (Oriza sativa L.), grown over a range of soils with different nitrogen treatments, were processed into 11 indices and IPCA through six growth stages. Also a conventional digital camera mounted to an unmanned aerial vehicle was used to acquire images over the rice canopy for the purpose of verification. The result indicated that the conventional digital camera at the both leaf (r = -0.81) and the canopy (r = 0.78) scale could be used as a sensor to determine the status of chlorophyll content in rice plants through different growth stages. This indicates that conventional low-cost digital cameras can be used for determining chlorophyll content and consequently for monitoring nitrogen content of the growing rice plant, thus offering a potentially inexpensive, fast, accurate and suitable tool for rice growers. Additionally, results confirmed that a low cost LARS system would be well suited for high spatial and temporal resolution images and data analysis for proper assessment of key nutrients in rice farming in a fast, inexpensive and non-destructive way.

  20. Seed-specific silencing of OsMRP5 reduces seed phytic acid and weight in rice.

    PubMed

    Li, Wen-Xu; Zhao, Hai-Jun; Pang, Wei-Qin; Cui, Hai-Rui; Poirier, Yves; Shu, Qing-Yao

    2014-08-01

    Phytic acid (PA) is poorly digested by humans and monogastric animals and negatively affects human/animal nutrition and the environment. Rice mutants with reduced PA content have been developed but are often associated with reduced seed weight and viability, lacking breeding value. In the present study, a new approach was explored to reduce seed PA while attaining competitive yield. The OsMRP5 gene, of which mutations are known to reduce seed PA as well as seed yield and viability, was down-regulated specifically in rice seeds by using an artificial microRNA driven by the rice seed specific promoter Ole18. Seed PA contents were reduced by 35.8-71.9% in brown rice grains of transgenic plants compared to their respective null plants (non-transgenic plants derived from the same event). No consistent significant differences of plant height or number of tillers per plant were observed, but significantly lower seed weights (up to 17.8% reduction) were detected in all transgenic lines compared to null plants, accompanied by reductions of seed germination and seedling emergence. It was observed that the silencing of the OsMRP5 gene increased the inorganic P (Pi) levels (up to 7.5 times) in amounts more than the reduction of PA-P in brown rice. This indicates a reduction in P content in other cellular compounds, such as lipids and nucleic acids, which may affect overall seed development. Put together, the present study demonstrated that seed specific silencing of OsMRP5 could significantly reduce the PA content and increase Pi levels in seeds; however, it also significantly lowers seed weight in rice. Discussions were made regarding future directions towards producing agronomically competitive and nutritionally valuable low PA rice.

  1. Identification of rice blast resistance genes using international monogenic differentials

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Rice blast disease, caused by the fungal pathogen Magnaporthe oryzae, is one of the most devastating diseases of rice that severely affects crop production in Jilin Province, Northeast China, where temperate japonica rice is primarily grown. In the present study, 44 representative local blast isolat...

  2. Investigating the Potential for Rice Production with Sprinkler Irrigation

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Almost all rice (Oryza sativa L.) produced in the US Mid-South is grown in a flooded culture that requires considerably more irrigation water than other crops grown in the region. One approach investigated for reducing the water requirements for rice involved producing rice with sprinkler irrigation...

  3. Thermomechanical property of rice kernels studied by DMA

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The thermomechanical property of the rice kernels was investigated using a dynamic mechanical analyzer (DMA). The length change of rice kernel with a loaded constant force along the major axis direction was detected during temperature scanning. The thermomechanical transition occurred in rice kernel...

  4. 21 CFR 172.890 - Rice bran wax.

    Code of Federal Regulations, 2014 CFR

    2014-04-01

    ... 21 Food and Drugs 3 2014-04-01 2014-04-01 false Rice bran wax. 172.890 Section 172.890 Food and... PERMITTED FOR DIRECT ADDITION TO FOOD FOR HUMAN CONSUMPTION Multipurpose Additives § 172.890 Rice bran wax. Rice bran wax may be safely used in food in accordance with the following conditions: (a) It is...

  5. Rice Production with a Center Pivot Irrigation System

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Quantity of irrigation water needed to maintain flood on rice fields varies by region based on soil properties and weather. Many rice farmers are concerned about water issues of inadequate groundwater recharge, urban competition for water resources, and high energy costs for flood irrigating rice. ...

  6. Developing sustainable management practices for organic rice production

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Demand for organically produced rice has been increasing with up to 50,000 acres now produced in the USA. Although acreage of conventional rice production has decreased in Texas by 36% during the last 15 years, it is now home to some 15,000 acres of organic rice, which has brought new vitality to ot...

  7. Rice growth monitoring using simulated compact polarimetric C band SAR

    NASA Astrophysics Data System (ADS)

    Yang, Zhi; Li, Kun; Liu, Long; Shao, Yun; Brisco, Brian; Li, Weiguo

    2014-12-01

    In this study, a set of nine compact polarimetric (CP) images were simulated from polarimetric RADARSAT-2 data acquired over a test site containing two types of rice field in Jiangsu province, China. The types of rice field in the test site were (1) transplanted hybrid rice fields, and (2) direct-sown japonica rice fields. Both types have different yields and phenological stages. As a first step, the two types of rice field were distinguished with 94% and 86% accuracy respectively through analyzing CP synthetic aperture radar (SAR) observations and their behavior in terms of scattering mechanisms during the rice growth season. The focus was then on phenology retrieval for each type of rice field. A decision tree (DT) algorithm was built to fulfill the precise retrieval of rice phenological stages, in which seven phenological stages were discriminated. The key criterion for each phenological stage was composed of 1-4 CP parameters, some of which were first used for rice phenology retrieval and found to be very sensitive to rice phenological changes. The retrieval results were verified at parcel level for a set of 12 stands of rice and up to nine observation dates per stand. This gave an accuracy of 88-95%. Throughout the phenology retrieval process, only simulated CP data were used, without any auxiliary data. These results demonstrate the potential of CP SAR for rice growth monitoring applications.

  8. Determination of sockage for accurate rough rice quality assessment

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Determination of dockage of freshly harvested rice is crucial for precise development of a universal rice shrinking chart. The objectives of this research were to determine the effect of different factors, including rice variety, farm location, harvest moisture and time, drying, dropping, weather ev...

  9. Effective disinfection of rough rice using infrared radiation heating

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The objective of this study was to investigate the effect of infrared (IR) heating and tempering treatments on disinfection of Aspergillus flavus in freshly harvested rough rice and storage rice. Rice samples with initial moisture contents (IMCs) of 14.1 to 27.0% (wet basis) were infected with A. fl...

  10. Rice methylmercury exposure and mitigation: a comprehensive review.

    PubMed

    Rothenberg, Sarah E; Windham-Myers, Lisamarie; Creswell, Joel E

    2014-08-01

    Rice cultivation practices from field preparation to post-harvest transform rice paddies into hot spots for microbial mercury methylation, converting less-toxic inorganic mercury to more-toxic methylmercury, which is likely translocated to rice grain. This review includes 51 studies reporting rice total mercury and/or methylmercury concentrations, based on rice (Orzya sativa) cultivated or purchased in 15 countries. Not surprisingly, both rice total mercury and methylmercury levels were significantly higher in polluted sites compared to non-polluted sites (Wilcoxon rank sum, p<0.001). However, rice percent methylmercury (of total mercury) did not differ statistically between polluted and non-polluted sites (Wilcoxon rank sum, p=0.35), suggesting comparable mercury methylation rates in paddy soil across these sites and/or similar accumulation of mercury species for these rice cultivars. Studies characterizing the effects of rice cultivation under more aerobic conditions were reviewed to determine the mitigation potential of this practice. Rice management practices utilizing alternating wetting and drying (instead of continuous flooding) caused soil methylmercury levels to spike, resulting in a strong methylmercury pulse after fields were dried and reflooded; however, it is uncertain whether this led to increased translocation of methylmercury from paddy soil to rice grain. Due to the potential health risks, it is advisable to investigate this issue further, and to develop separate water management strategies for mercury polluted and non-polluted sites, in order to minimize methylmercury exposure through rice ingestion.

  11. Moisture diffusivity of rough rice under infrared radiation drying

    Technology Transfer Automated Retrieval System (TEKTRAN)

    To design efficient infrared (IR) dryers for rough rice, it is important to understand the drying behavior of rough rice under IR heating. The objective of this study was to determine the moisture diffusivity of rough rice under IR heating followed by cooling. The effects of initial moisture content...

  12. Water absorption properties of ultrasonic treated brown rice

    Technology Transfer Automated Retrieval System (TEKTRAN)

    To understand the effect of ultrasonic treated on brown rice, it is important to research the water absorption processing of brown rice before and after ultrasonic treatment. The objective of this study was investigate and modeling water absorption characteristics of brown rice using Peleg’s equatio...

  13. Rice methylmercury exposure and mitigation: a comprehensive review

    USGS Publications Warehouse

    Rothenberg, Sarah E.; Windham-Myers, Lisamarie; Creswell, Joel E.

    2014-01-01

    Rice cultivation practices from field preparation to post-harvest transform rice paddies into hot spots for microbial mercury methylation, converting less-toxic inorganic mercury to more-toxic methylmercury, which is likely translocated to rice grain. This review includes 51 studies reporting rice total mercury and/or methylmercury concentrations, based on rice (Orzya sativa) cultivated or purchased in 15 countries. Not surprisingly, both rice total mercury and methylmercury levels were significantly higher in polluted sites compared to non-polluted sites (Wilcoxon rank sum, p<0.001). However, rice percent methylmercury (of total mercury) did not differ statistically between polluted and non-polluted sites (Wilcoxon rank sum, p=0.35), suggesting comparable mercury methylation rates in paddy soil across these sites and/or similar accumulation of mercury species for these rice cultivars. Studies characterizing the effects of rice cultivation under more aerobic conditions were reviewed to determine the mitigation potential of this practice. Rice management practices utilizing alternating wetting and drying (instead of continuous flooding) caused soil methylmercury levels to spike, resulting in a strong methylmercury pulse after fields were dried and reflooded; however, it is uncertain whether this led to increased translocation of methylmercury from paddy soil to rice grain. Due to the potential health risks, it is advisable to investigate this issue further, and to develop separate water management strategies for mercury polluted and non-polluted sites, in order to minimize methylmercury exposure through rice ingestion.

  14. Draft Genome Sequence of Rice Isolate Pseudomonas chlororaphis EA105

    PubMed Central

    McCully, Lucy M.; Bitzer, Adam S.; Spence, Carla A.; Bais, Harsh P.

    2014-01-01

    Pseudomonas chlororaphis EA105, a strain isolated from rice rhizosphere, has shown antagonistic activities against a rice fungal pathogen, and could be important in defense against rice blast. We report the draft genome sequence of EA105, which is an estimated size of 6.6 Mb. PMID:25540352

  15. Processing and functionality of rice bran protein and peptides

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Rice bran comprises approximately 10% of the rough rice kernel. Its germ is a rich source of oil; while defatted bran consists of proteins, minerals, vitamins and fibers, or the indigestible carbohydrates. About 61% of the minerals are located in the bran. The rice bran proteins have shown great pot...

  16. Organic rice production systems and their impact on grain quality

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Interest in organic production of rice has been increasing in the US as a result of expanding demand by consumers and interest by growers in capturing this value-added market. Currently, about 35,000 acres in the US are dedicated to organic rice production with about 10% of the Texas rice acreage un...

  17. Rice Methylmercury Exposure and Mitigation: A Comprehensive Review

    PubMed Central

    Rothenberg, Sarah E.; Windham-Myers, Lisamarie; Creswell, Joel E.

    2014-01-01

    Rice cultivation practices from field preparation to post-harvest transform rice paddies into hot spots for microbial mercury methylation, converting less-toxic inorganic mercury to more-toxic methylmercury, which is likely translocated to rice grain. This review includes 51 studies reporting rice total mercury and/or methylmercury concentrations, based on rice cultivated or purchased in 15 countries. Not surprisingly, both rice total mercury and methylmercury levels were significantly higher in polluted sites compared to non-polluted sites (Wilcoxon rank sum, p<0.001). However, rice percent methylmercury (of total mercury) did not differ statistically between polluted and non-polluted sites (Wilcoxon rank sum, p=0.35), suggesting comparable mercury methylation rates in paddy soil across these sites and/or similar accumulation of mercury species for these rice cultivars. Studies characterizing the effect of rice cultivation under more aerobic conditions were reviewed to determine the mitigation potential of this practice. Rice management practices utilizing alternating wetting and drying (instead of continuous flooding) caused soil methylmercury levels to spike, resulting in a strong methylmercury pulse after fields were dried and reflooded; however, it is uncertain whether this led to increased translocation of methylmercury from paddy soil to rice grain. Due to the potential health risks, it is advisable to investigate this issue further, and to develop separate water management strategies for mercury polluted and non-polluted sites, which minimize methylmercury exposure through rice ingestion. PMID:24972509

  18. Evapotranspiration measurement and modeling in Mid-South irrigated rice

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Nearly 75% of US rice is grown in the humid mid-South. Rice requires more water to produce than other crops (corn, soybean, and cotton). The identification of rice evapotranspiration and irrigation demand is paramount to understand regional water use and water allocation. Drill-seeded, commercial si...

  19. Phytochemical profiles and iron chelating capability of rice varieties

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Whole-grain rice, especially the dark color bran rice, contains high phenolic content and antioxidant capacity, which have potential in disease prevention. However, little information is available regarding the differences in phytochemical profiles of rice of different bran color. Studies indicated ...

  20. An overview of global rice production, supply, trade, and consumption.

    PubMed

    Muthayya, Sumithra; Sugimoto, Jonathan D; Montgomery, Scott; Maberly, Glen F

    2014-09-01

    Rice is the staple food for over half the world's population. Approximately 480 million metric tons of milled rice is produced annually. China and India alone account for ∼50% of the rice grown and consumed. Rice provides up to 50% of the dietary caloric supply for millions living in poverty in Asia and is, therefore, critical for food security. It is becoming an important food staple in both Latin America and Africa. Record increases in rice production have been observed since the start of the Green Revolution. However, rice remains one of the most protected food commodities in world trade. Rice is a poor source of vitamins and minerals, and losses occur during the milling process. Populations that subsist on rice are at high risk of vitamin and mineral deficiency. Improved technologies to fortify rice have the potential to address these deficiencies and their associated adverse health effects. With the rice industry consolidating in many countries, there are opportunities to fortify a significant share of rice for distribution or for use in government safety net programs that target those most in need, especially women and children. Multisectoral approaches are needed for the promotion and implementation of rice fortification in countries.