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Sample records for rice mutator-phenotype derived

  1. Molecular characterization of a rice mutator-phenotype derived from an incompatible cross-pollination reveals transgenerational mobilization of multiple transposable elements and extensive epigenetic instability

    PubMed Central

    Wang, Hongyan; Chai, Yang; Chu, Xiucheng; Zhao, Yunyang; Wu, Ying; Zhao, Jihong; Ngezahayo, Frédéric; Xu, Chunming; Liu, Bao

    2009-01-01

    Background Inter-specific hybridization occurs frequently in plants, which may induce genetic and epigenetic instabilities in the resultant hybrids, allopolyploids and introgressants. It remains unclear however whether pollination by alien pollens of an incompatible species may impose a "biological stress" even in the absence of genome-merger or genetic introgression, whereby genetic and/or epigenetic instability of the maternal recipient genome might be provoked. Results We report here the identification of a rice mutator-phenotype from a set of rice plants derived from a crossing experiment involving two remote and apparently incompatible species, Oryza sativa L. and Oenothera biennis L. The mutator-phenotype (named Tong211-LP) showed distinct alteration in several traits, with the most striking being substantially enlarged panicles. Expectably, gel-blotting by total genomic DNA of the pollen-donor showed no evidence for introgression. Characterization of Tong211-LP (S0) and its selfed progenies (S1) ruled out contamination (via seed or pollen) or polyploidy as a cause for its dramatic phenotypic changes, but revealed transgenerational mobilization of several previously characterized transposable elements (TEs), including a MITE (mPing), and three LTR retrotransposons (Osr7, Osr23 and Tos17). AFLP and MSAP fingerprinting revealed extensive, transgenerational alterations in cytosine methylation and to a less extent also genetic variation in Tong211-LP and its immediate progenies. mPing mobility was found to correlate with cytosine methylation alteration detected by MSAP but not with genetic variation detected by AFLP. Assay by q-RT-PCR of the steady-state transcript abundance of a set of genes encoding for the various putative DNA methyltransferases, 5-methylcytosine DNA glycosylases, and small interference RNA (siRNA) pathway-related proteins showed that, relative to the rice parental line, heritable perturbation in expression of 12 out of the 13 genes occurred

  2. Human Cancers Express a Mutator Phenotype: Hypothesis, Origin, and Consequences

    PubMed Central

    Loeb, Lawrence A.

    2016-01-01

    The mutator phenotype hypothesis was postulated more than 40 years ago. It was based on the multiple enzymatic steps required to precisely replicate the 6 billion bases in the human genome each time a normal cell divides. A reduction in this accuracy during tumor progression could be responsible for the striking heterogeneity of malignant cells within a tumor and for the rapidity by which cancers become resistant to therapy. PMID:27197248

  3. Human Cancers Express a Mutator Phenotype: Hypothesis, Origin, and Consequences.

    PubMed

    Loeb, Lawrence A

    2016-04-15

    The mutator phenotype hypothesis was postulated more than 40 years ago. It was based on the multiple enzymatic steps required to precisely replicate the 6 billion bases in the human genome each time a normal cell divides. A reduction in this accuracy during tumor progression could be responsible for the striking heterogeneity of malignant cells within a tumor and for the rapidity by which cancers become resistant to therapy. Cancer Res; 76(8); 2057-9. ©2016 AACRSee related article by Loeb et al. Cancer Res. 1974;34:2311-21.

  4. A strain of Yersinia pestis with a mutator phenotype from the Republic of Georgia.

    PubMed

    Rajanna, Chythanya; Ouellette, Gary; Rashid, Mohammed; Zemla, Adam; Karavis, Mark; Zhou, Carol; Revazishvili, Tamara; Redmond, Brady; McNew, Lauren; Bakanidze, Lela; Imnadze, Paata; Rivers, Bryan; Skowronski, Evan W; O'Connell, Kevin P; Sulakvelidze, Alexander; Gibbons, Henry S

    2013-06-01

    We describe here a strain of Yersinia pestis, G1670A, which exhibits a baseline mutation rate elevated 250-fold over wild-type Y. pestis. The responsible mutation, a C to T substitution in the mutS gene, results in the transition of a highly conserved leucine at position 689 to arginine (mutS(L689R)). When the MutSL 689R protein of G1670A was expressed in a ΔmutS derivative of Y. pestis strain EV76, mutation rates observed were equivalent to those observed in G1670A, consistent with a causal association between the mutS mutation and the mutator phenotype. The observation of a mutator allele in Yersinia pestis has potential implications for the study of evolution of this and other especially dangerous pathogens.

  5. 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

  6. 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

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

    PubMed Central

    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

  8. Yeast mutator phenotype enforced by Arabidopsis PMS1 expression.

    PubMed

    Galles, Celina; Spampinato, Claudia P

    2013-03-01

    The DNA mismatch repair (MMR) system is a major DNA repair pathway whose function is critical for the correction of DNA biosynthetic errors. MMR is initiated by the binding of MutS proteins to mismatches and unpaired nucleotides followed by the recruitment of MutL proteins. The major MutL activity in eukaryotes is performed by MutLα, the heterocomplex of MLH1-PMS1 in yeast and plants and MLH1-PMS2 in humans. We here report the effect the expression of Arabidopsis PMS1 protein exerts on Saccharomyces cerevisiae genomic stability. A strain carrying specific microsatellite instability reporter systems was chosen for the study. The plant protein failed to complement the hypermutator phenotype of a pms1 deficient strain but increased approximately 14-fold and 2,000-fold the mutation rates of his7-2 and lys2::InsE-A 14 loci of MMR proficient strains when compared to wild-type strains, respectively. Overexpressing AtMLH1 in the AtPMS1-overproducing strain generated an increase in mutation rate comparable to that of AtPMS1 expression alone. Deletion of the C-terminal residues implicated in protein-protein interaction and including the putative endonuclease sequence of AtPMS1 completely eliminated the mutator phenotype. Taken together, these results indicate that the plant proteins affect yeast genomic stability, very possibly altering protein-protein interactions that are necessary to complete repair.

  9. Volatility of Mutator Phenotypes at Single Cell Resolution.

    PubMed

    Kennedy, Scott R; Schultz, Eric M; Chappell, Thomas M; Kohrn, Brendan; Knowels, Gary M; Herr, Alan J

    2015-04-01

    Mutator phenotypes accelerate the evolutionary process of neoplastic transformation. Historically, the measurement of mutation rates has relied on scoring the occurrence of rare mutations in target genes in large populations of cells. Averaging mutation rates over large cell populations assumes that new mutations arise at a constant rate during each cell division. If the mutation rate is not constant, an expanding mutator population may contain subclones with widely divergent rates of evolution. Here, we report mutation rate measurements of individual cell divisions of mutator yeast deficient in DNA polymerase ε proofreading and base-base mismatch repair. Our data are best fit by a model in which cells can assume one of two distinct mutator states, with mutation rates that differ by an order of magnitude. In error-prone cell divisions, mutations occurred on the same chromosome more frequently than expected by chance, often in DNA with similar predicted replication timing, consistent with a spatiotemporal dimension to the hypermutator state. Mapping of mutations onto predicted replicons revealed that mutations were enriched in the first half of the replicon as well as near termination zones. Taken together, our findings show that individual genome replication events exhibit an unexpected volatility that may deepen our understanding of the evolution of mutator-driven malignancies.

  10. dNTP pool levels modulate mutator phenotypes of error-prone DNA polymerase ε variants

    PubMed Central

    Williams, Lindsey N.; Marjavaara, Lisette; Knowels, Gary M.; Schultz, Eric M.; Fox, Edward J.; Chabes, Andrei; Herr, Alan J.

    2015-01-01

    Mutator phenotypes create genetic diversity that fuels tumor evolution. DNA polymerase (Pol) ε mediates leading strand DNA replication. Proofreading defects in this enzyme drive a number of human malignancies. Here, using budding yeast, we show that mutator variants of Pol ε depend on damage uninducible (Dun)1, an S-phase checkpoint kinase that maintains dNTP levels during a normal cell cycle and up-regulates dNTP synthesis upon checkpoint activation. Deletion of DUN1 (dun1Δ) suppresses the mutator phenotype of pol2-4 (encoding Pol ε proofreading deficiency) and is synthetically lethal with pol2-M644G (encoding altered Pol ε base selectivity). Although pol2-4 cells cycle normally, pol2-M644G cells progress slowly through S-phase. The pol2-M644G cells tolerate deletions of mediator of the replication checkpoint (MRC) 1 (mrc1Δ) and radiation sensitive (Rad) 9 (rad9Δ), which encode mediators of checkpoint responses to replication stress and DNA damage, respectively. The pol2-M644G mutator phenotype is partially suppressed by mrc1Δ but not rad9Δ; neither deletion suppresses the pol2-4 mutator phenotype. Thus, checkpoint activation augments the Dun1 effect on replication fidelity but is not required for it. Deletions of genes encoding key Dun1 targets that negatively regulate dNTP synthesis, suppress the dun1Δ pol2-M644G synthetic lethality and restore the mutator phenotype of pol2-4 in dun1Δ cells. DUN1 pol2-M644G cells have constitutively high dNTP levels, consistent with checkpoint activation. In contrast, pol2-4 and POL2 cells have similar dNTP levels, which decline in the absence of Dun1 and rise in the absence of the negative regulators of dNTP synthesis. Thus, dNTP pool levels correlate with Pol ε mutator severity, suggesting that treatments targeting dNTP pools could modulate mutator phenotypes for therapy. PMID:25827226

  11. dNTP pool levels modulate mutator phenotypes of error-prone DNA polymerase ε variants.

    PubMed

    Williams, Lindsey N; Marjavaara, Lisette; Knowels, Gary M; Schultz, Eric M; Fox, Edward J; Chabes, Andrei; Herr, Alan J

    2015-05-12

    Mutator phenotypes create genetic diversity that fuels tumor evolution. DNA polymerase (Pol) ε mediates leading strand DNA replication. Proofreading defects in this enzyme drive a number of human malignancies. Here, using budding yeast, we show that mutator variants of Pol ε depend on damage uninducible (Dun)1, an S-phase checkpoint kinase that maintains dNTP levels during a normal cell cycle and up-regulates dNTP synthesis upon checkpoint activation. Deletion of DUN1 (dun1Δ) suppresses the mutator phenotype of pol2-4 (encoding Pol ε proofreading deficiency) and is synthetically lethal with pol2-M644G (encoding altered Pol ε base selectivity). Although pol2-4 cells cycle normally, pol2-M644G cells progress slowly through S-phase. The pol2-M644G cells tolerate deletions of mediator of the replication checkpoint (MRC) 1 (mrc1Δ) and radiation sensitive (Rad) 9 (rad9Δ), which encode mediators of checkpoint responses to replication stress and DNA damage, respectively. The pol2-M644G mutator phenotype is partially suppressed by mrc1Δ but not rad9Δ; neither deletion suppresses the pol2-4 mutator phenotype. Thus, checkpoint activation augments the Dun1 effect on replication fidelity but is not required for it. Deletions of genes encoding key Dun1 targets that negatively regulate dNTP synthesis, suppress the dun1Δ pol2-M644G synthetic lethality and restore the mutator phenotype of pol2-4 in dun1Δ cells. DUN1 pol2-M644G cells have constitutively high dNTP levels, consistent with checkpoint activation. In contrast, pol2-4 and POL2 cells have similar dNTP levels, which decline in the absence of Dun1 and rise in the absence of the negative regulators of dNTP synthesis. Thus, dNTP pool levels correlate with Pol ε mutator severity, suggesting that treatments targeting dNTP pools could modulate mutator phenotypes for therapy.

  12. A single-nucleotide substitution mutator phenotype revealed by exome sequencing of human colon adenomas.

    PubMed

    Nikolaev, Sergey I; Sotiriou, Sotirios K; Pateras, Ioannis S; Santoni, Federico; Sougioultzis, Stavros; Edgren, Henrik; Almusa, Henrikki; Robyr, Daniel; Guipponi, Michel; Saarela, Janna; Gorgoulis, Vassilis G; Antonarakis, Stylianos E; Halazonetis, Thanos D

    2012-12-01

    Oncogene-induced DNA replication stress is thought to drive genomic instability in cancer. In particular, replication stress can explain the high prevalence of focal genomic deletions mapping within very large genes in human tumors. However, the origin of single-nucleotide substitutions (SNS) in nonfamilial cancers is strongly debated. Some argue that cancers have a mutator phenotype, whereas others argue that the normal DNA replication error rates are sufficient to explain the number of observed SNSs. Here, we sequenced the exomes of 24, mostly precancerous, colon polyps. Analysis of the sequences revealed mutations in the APC, CTNNB1, and BRAF genes as the presumptive cancer-initiating events and many passenger SNSs. We used the number of SNSs in the various lesions to calculate mutation rates for normal colon and adenomas and found that colon adenomas exhibit a mutator phenotype. Interestingly, the SNSs in the adenomas mapped more often than expected within very large genes, where focal deletions in response to DNA replication stress also map. We propose that single-stranded DNA generated in response to oncogene-induced replication stress compromises the repair of deaminated cytosines and other damaged bases, leading to the observed SNS mutator phenotype.

  13. 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.

  14. Rapid emergence of resistance to linezolid and mutator phenotypes in Staphylococcus aureus isolates from an adult cystic fibrosis patient.

    PubMed

    Tazi, Asmaa; Chapron, Jeanne; Touak, Gerald; Longo, Magalie; Hubert, Dominique; Collobert, Gislène; Dusser, Daniel; Poyart, Claire; Morand, Philippe C

    2013-10-01

    Linezolid has emerged as an important therapeutic option for the treatment of Staphylococcus aureus in patients with cystic fibrosis. We report the rapid emergence, upon treatment with linezolid, of linezolid-resistant S. aureus clinical isolates through the accumulation of resistance-associated 23S rRNA mutations, together with acquisition of an altered mutator phenotype.

  15. 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

  16. Hepatitis C virus induces a mutator phenotype: enhanced mutations of immunoglobulin and protooncogenes.

    PubMed

    Machida, Keigo; Cheng, Kevin T-N; Sung, Vicky M-H; Shimodaira, Shigetaka; Lindsay, Karen L; Levine, Alexandra M; Lai, Ming-Yang; Lai, Michael M C

    2004-03-23

    Hepatitis C virus (HCV) is a nonretroviral oncogenic RNA virus, which is frequently associated with hepatocellular carcinoma (HCC) and B cell lymphoma. We demonstrated here that acute and chronic HCV infection caused a 5- to 10-fold increase in mutation frequency in Ig heavy chain, BCL-6, p53, and beta-catenin genes of in vitro HCV-infected B cell lines and HCV-associated peripheral blood mononuclear cells, lymphomas, and HCCs. The nucleotide-substitution pattern of p53 and beta-catenin was different from that of Ig heavy chain in HCV-infected cells, suggesting two different mechanisms of mutation. In addition, the mutated protooncogenes were amplified in HCV-associated lymphomas and HCCs, but not in lymphomas of nonviral origin or HBV-associated HCC. HCV induced error-prone DNA polymerase zeta, polymerase iota, and activation-induced cytidine deaminase, which together, contributed to the enhancement of mutation frequency, as demonstrated by the RNA interference experiments. These results indicate that HCV induces a mutator phenotype and may transform cells by a hit-and-run mechanism. This finding provides a mechanism of oncogenesis for an RNA virus.

  17. 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.

  18. 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).

  19. Different bacterial populations associated with the roots and rhizosphere of rice incorporate plant-derived carbon.

    PubMed

    Hernández, Marcela; Dumont, Marc G; Yuan, Quan; Conrad, Ralf

    2015-03-01

    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 (13)CO2 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 (13)C. 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

  20. 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

  1. 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

  2. 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

  3. 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

  4. 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. PMID:27599625

  5. 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. PMID:26657366

  6. A new finely mapped Oryza australiensis-derived QTL in rice confers resistance to brown planthopper.

    PubMed

    Hu, Jie; Xiao, Cong; Cheng, Ming-Xing; Gao, Guan-Jun; Zhang, Qing-Lu; He, Yu-Qing

    2015-04-25

    Brown planthopper (BPH) is the most destructive pest of rice in Asia. The BPH resistance in the introgression line IR65482-17-511-5-7 (IR65482-17) is derived from the wild rice species Oryza australiensis. An F2:3 population from a cross between Zhenshan 97 (ZS97) and IR65482-17 was used to map three quantitative trait loci (QTLs) for seedling resistance and feeding rate to BPH. The loci were distributed on chromosomes 2, 4 and 12. The QTL qBph4.2 on chromosome 4 had the largest effect, and contributed 36-44% of the phenotypic variance with a LOD score of 19-29. To validate the effect of qBph4.2, two near-isogenic lines (NILs) containing the qBph4.2 locus in the backgrounds of ZS97 and 9311 were developed by marker-assisted backcrossing (MABC). BPH bioassays showed that lines homozygous for the IR65482-17 allele (NIL+) of qBph4.2 tented to have significantly higher seedling resistance to BPH than those homozygous for the ZS97 or 9311 alleles (NIL-). Resistance was associated with a lower feeding rate by the insect. qBph4.2 was delimited to a ~300 kb (0.04 cM) region flanked by markers RM261 and S1, and co-segregating with XC4-27. This study will facilitate map-based cloning and marker-assisted selection of the gene, and permits further studies of gene function and resistance mechanisms in rice: BPH interaction.

  7. 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.

  8. 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

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

    PubMed

    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

  10. 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

  11. 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

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

    2012-05-01

    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.

  12. Phage-Like Streptococcus pyogenes Chromosomal Islands (SpyCI) and Mutator Phenotypes: Control by Growth State and Rescue by a SpyCI-Encoded Promoter.

    PubMed

    Scott, Julie; Nguyen, Scott V; King, Catherine J; Hendrickson, Christina; McShan, W Michael

    2012-01-01

    We recently showed that a prophage-like Streptococcus pyogenes chromosomal island (SpyCI) controls DNA mismatch repair and other repair functions in M1 genome strain SF370 by dynamic excision and reintegration into the 5' end of mutL in response to growth, causing the cell to alternate between a wild type and mutator phenotype. Nine of the 16 completed S. pyogenes genomes contain related SpyCI integrated into the identical attachment site in mutL, and in this study we examined a number of these strains to determine whether they also had a mutator phenotype as in SF370. With the exception of M5 genome strain Manfredo, all demonstrated a mutator phenotype as compared to SpyCI-free strain NZ131. The integrase gene (int) in the SpyCIM5 contains a deletion that rendered it inactive, and this deletion predicts that Manfredo would have a pronounced mutator phenotype. Remarkably, this was found not to be the case, but rather a cryptic promoter within the int ORF was identified that ensured constitutive expression of mutL and the downstream genes encoded on the same mRNA, providing a striking example of rescue of gene function following decay of a mobile genetic element. The frequent occurrence of SpyCI in the group A streptococci may facilitate bacterial survival by conferring an inducible mutator phenotype that promotes adaptation in the face of environmental challenges or host immunity.

  13. Genome-wide association mapping focusing on a rice population derived from rice breeding programs in a region.

    PubMed

    Fujino, Kenji; Obara, Mari; Shimizu, Toshiaki; Koyanagi, Kanako O; Ikegaya, Tomohito

    2015-12-01

    Plant breeding programs in local regions may generate genetic variations that are desirable to local populations and shape adaptability during the establishment of local populations. To elucidate genetic bases for this process, we proposed a new approach for identifying the genetic bases for the traits improved during rice breeding programs; association mapping focusing on a local population. In the present study, we performed association mapping focusing on a local rice population, consisting of 63 varieties, in Hokkaido, the northernmost region of Japan and one of the northern limits of rice cultivation worldwide. Six and seventeen QTLs were identified for heading date and low temperature germinability, respectively. Of these, 13 were novel QTLs in this population and 10 corresponded to the QTLs previously reported based on QTL mapping. The identification of QTLs for traits in local populations including elite varieties may lead to a better understanding of the genetic bases of elite traits. This is of direct relevance for plant breeding programs in local regions.

  14. Extent and pattern of DNA methylation alteration in rice lines derived from introgressive hybridization of rice and Zizania latifolia Griseb.

    PubMed

    Dong, Z Y; Wang, Y M; Zhang, Z J; Shen, Y; Lin, X Y; Ou, X F; Han, F P; Liu, B

    2006-07-01

    We have reported previously that introgression by Zizania latifolia resulted in extensive DNA methylation changes in the recipient rice genome, as detected by a set of pre-selected DNA segments. In this study, using the methylation-sensitive amplified polymorphism (MSAP) method, we globally assessed the extent and pattern of cytosine methylation alterations in three typical introgression lines relative to their rice parent at approximately 2,700 unbiased genomic loci each representing a recognition site cleaved by one or both of the isoschizomers, HpaII/MspI. Based on differential digestion by the isoschizomers, it is estimated that 15.9% of CCGG sites are either fully methylated at the internal Cs and/or hemi-methylated at the external Cs in the rice parental cultivar Matsumae. In comparison, a statistically significant increase in the overall level of both methylation types was detected in all three studied introgression lines (19.2, 18.6, 19.6%, respectively). Based on comparisons of MSAP profiles between the isoschizomers within the rice parent and between parent and the introgression lines, four major groups of MSAP banding patterns are recognized, which can be further divided into various subgroups as a result of inheritance of, or variation in, parental methylation patterns. The altered methylation patterns include hyper- and hypomethylation changes, as well as inter-conversion of hemi- to full-methylation, or vice versa, at the relevant CCGG site(s). Most alterations revealed by MSAP in low-copy loci can be validated by DNA gel blot analysis. The changed methylation patterns are uniform among randomly selected individuals for a given introgression line within or among selfed generations. Sequencing on 31 isolated fragments that showed different changing patterns in the introgression line(s) allowed their mapping onto variable regions on one or more of the 12 rice chromosomes. These segments include protein-coding genes, transposon/retrotransposons and

  15. 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.

  16. 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. PMID:25413119

  17. 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.

  18. Immunotoxicity Assessment of Rice-Derived Recombinant Human Serum Albumin Using Human Peripheral Blood Mononuclear Cells

    PubMed Central

    Fu, Kai; Cheng, Qin; Liu, Zhenwei; Chen, Zhen; Wang, Yan; Ruan, Honggang; Zhou, Lu; Xiong, Jie; Xiao, Ruijing; Liu, Shengwu; Zhang, Qiuping; Yang, Daichang

    2014-01-01

    Human serum albumin (HSA) is extensively used in clinics to treat a variety of diseases, such as hypoproteinemia, hemorrhagic shock, serious burn injuries, cirrhotic ascites and fetal erythroblastosis. To address supply shortages and high safety risks from limited human donors, we recently developed recombinant technology to produce HSA from rice endosperm. To assess the risk potential of HSA derived from Oryza sativa (OsrHSA) before a First-in-human (FIH) trial, we compared OsrHSA and plasma-derived HSA (pHSA), evaluating the potential for an immune reaction and toxicity using human peripheral blood mononuclear cells (PBMCs). The results indicated that neither OsrHSA nor pHSA stimulated T cell proliferation at 1x and 5x dosages. We also found no significant differences in the profiles of the CD4+ and CD8+ T cell subsets between OsrHSA- and pHSA-treated cells. Furthermore, the results showed that there were no significant differences between OsrHSA and pHSA in the production of cytokines such as interferon-gamma (IFN-γ), tumor necrosis factor-alpha (TNF-α), interleukin (IL)-10 and IL-4. Our results demonstrated that OsrHSA has equivalent immunotoxicity to pHSA when using the PBMC model. Moreover, this ex vivo system could provide an alternative approach to predict potential risks in novel biopharmaceutical development. PMID:25099245

  19. 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.

  20. 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. PMID:23776591

  1. Characterization of Rice Black-Streaked Dwarf Virus- and Rice Stripe Virus-Derived siRNAs in Singly and Doubly Infected Insect Vector Laodelphax striatellus

    PubMed Central

    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. PMID:23776591

  2. 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. PMID:27022666

  3. 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.

  4. Transpositional reactivation of the Dart transposon family in rice lines derived from introgressive hybridization with Zizania latifolia

    PubMed Central

    2010-01-01

    Background It is widely recognized that interspecific hybridization may induce "genome shock", and lead to genetic and epigenetic instabilities in the resultant hybrids and/or backcrossed introgressants. A prominent component involved in the genome shock is reactivation of cryptic transposable elements (TEs) in the hybrid genome, which is often associated with alteration in the elements' epigenetic modifications like cytosine DNA methylation. We have previously reported that introgressants derived from hybridization between Oryza sativa (rice) and Zizania latifolia manifested substantial methylation re-patterning and rampant mobilization of two TEs, a copia retrotransposon Tos17 and a MITE mPing. It was not known however whether other types of TEs had also been transpositionally reactivated in these introgressants, their relevance to alteration in cytosine methylation, and their impact on expression of adjacent cellular genes. Results We document in this study that the Dart TE family was transpositionally reactivated followed by stabilization in all three studied introgressants (RZ1, RZ2 and RZ35) derived from introgressive hybridization between rice (cv. Matsumae) and Z. latifolia, while the TEs remained quiescent in the recipient rice genome. Transposon-display (TD) and sequencing verified the element's mobility and mapped the excisions and re-insertions to the rice chromosomes. Methylation-sensitive Southern blotting showed that the Dart TEs were heavily methylated along their entire length, and moderate alteration in cytosine methylation patterns occurred in the introgressants relative to their rice parental line. Real-time qRT-PCR quantification on the relative transcript abundance of six single-copy genes flanking the newly excised or inserted Dart-related TE copies indicated that whereas marked difference in the expression of all four genes in both tissues (leaf and root) were detected between the introgressants and their rice parental line under both normal

  5. Point mutation instability (PIN) mutator phenotype as model for true back mutations seen in hereditary tyrosinemia type 1 - a hypothesis.

    PubMed

    van Dyk, Etresia; Pretorius, Pieter J

    2012-05-01

    Hereditary tyrosinemia type 1 (HT1) is an autosomal recessive disorder affecting fumarylacetoacetate hydrolase (FAH), the last enzyme in the tyrosine catabolism pathway. The liver mosaicism observed in HT1 patients is due to the reversion to the wild type of one allele of the original point mutation in fah. It is generally accepted that these reversions are true back mutations; however, the mechanism is still unresolved. Previous reports excluded intragenic recombination, mitotic recombination, or homologous recombination with a pseudogene as possible mechanisms of mutation reversion in HT1. Sequence analysis did not reveal DNA motifs, tandem repeats or other sequence peculiarities that may be involved in mutation reversion. We propose the hypothesis that a point mutation instability mutator (PIN) phenotype brought about by the sustained stress environment created by the accumulating metabolites in the cell is the driver of the true back mutations in HT1. The metabolites accumulating in HT1 create a sustained stress environment by activating the extracellular signal-regulated kinase (ERK) and AKT survival pathways, inducing aberrant mitosis and development of death resistant cells, depleting glutathione, and impairing DNA ligase IV and possibly DNA polymerases δ and ε. This continual production of proliferative and stress-related survival signals in the cellular environment coupled with the mutagenicity of FAA, may instigate a mutator phenotype and could end in tumorigenesis and/or mutation reversion. The establishment of a PIN-mutator phenotype therefore not only seems to be a possible mechanism underlying the true back mutations, but also contributes to explaining the clinical heterogeneity seen in hereditary tyrosinemia type 1.

  6. 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

  7. Assessment of digital camera-derived vegetation indices in quantitative monitoring of seasonal rice growth

    NASA Astrophysics Data System (ADS)

    Sakamoto, Toshihiro; Shibayama, Michio; Kimura, Akihiko; Takada, Eiji

    2011-11-01

    A commercially available digital camera can be used in a low-cost automatic observation system for monitoring crop growth change in open-air fields. We developed a prototype Crop Phenology Recording System (CPRS) for monitoring rice growth, but the ready-made waterproof cases that we used produced shadows on the images. After modifying the waterproof cases, we repeated the fixed-point camera observations to clarify questions regarding digital camera-derived vegetation indices (VIs), namely, the visible atmospherically resistant index (VARI) based on daytime normal color images (RGB image) and the nighttime relative brightness index (NRBI NIR) based on nighttime near infrared (NIR) images. We also took frequent measurements of agronomic data such as plant length, leaf area index (LAI), and aboveground dry matter weight to gain a detailed understanding of the temporal relationship between the VIs and the biophysical parameters of rice. In addition, we conducted another nighttime outdoor experiment to establish the link between NRBI NIR and camera-to-object distance. The study produced the following findings. (1) The customized waterproof cases succeeded in preventing large shadows from being cast, especially on nighttime images, and it was confirmed that the brightness of the nighttime NIR images had spatial heterogeneity when a point light source (flashlight) was used, in contrast to the daytime RGB images. (2) The additional experiment using a forklift showed that both the ISO sensitivity and the calibrated digital number of the NIR (cDN NIR) had significant effects on the sensitivity of NRBI NIR to the camera-to-object distance. (3) Detailed measurements of a reproductive stem were collected to investigate the connection between the morphological feature change caused by the panicle sagging process and the downtrend in NRBI NIR during the reproductive stages. However, these agronomic data were not completely in accord with NRBI NIR in terms of the temporal pattern

  8. 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. PMID:27230579

  9. 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.

  10. 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.

  11. 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

  12. 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. PMID:26488581

  13. Mature seed-derived callus of the model indica rice variety Kasalath is highly competent in Agrobacterium-mediated transformation.

    PubMed

    Saika, Hiroaki; Toki, Seiichi

    2010-12-01

    We previously established an efficient Agrobacterium-mediated transformation system using primary calli derived from mature seeds of the model japonica rice variety Nipponbare. We expected that the shortened tissue culture period would reduce callus browning--a common problem with the indica transformation system during prolonged tissue culture in the undifferentiated state. In this study, we successfully applied our efficient transformation system to Kasalath--a model variety of indica rice. The Luc reporter system is sensitive enough to allow quantitative analysis of the competency of rice callus for Agrobacterium-mediated transformation. We unexpectedly discovered that primary callus of Kasalath exhibits a remarkably high competency for Agrobacterium-mediated transformation compared to Nipponbare. Southern blot analysis and Luc luminescence showed that independent transformation events in primary callus of Kasalath occurred successfully at ca. tenfold higher frequency than in Nipponbare, and single copy T-DNA integration was observed in ~40% of these events. We also compared the competency of secondary callus of Nipponbare and Kasalath and again found superior competency in Kasalath, although the identification and subsequent observation of independent transformation events in secondary callus is difficult due to the vigorous growth of both transformed and non-transformed cells. An efficient transformation system in Kasalath could facilitate the identification of QTL genes, since many QTL genes are analyzed in a Nipponbare × Kasalath genetic background. The higher transformation competency of Kasalath could be a useful trait in the establishment of highly efficient systems involving new transformation technologies such as gene targeting.

  14. 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.

  15. Requirement for homologous recombination functions for expression of the mutA mistranslator tRNA-induced mutator phenotype in Escherichia coli.

    PubMed

    Ren, L; Al Mamun, A A; Humayun, M Z

    2000-03-01

    Expression of the Escherichia coli mutA mutator phenotype requires recA, recB, recC, ruvA, and ruvC gene, but not recD, recF, recO, or recR genes. Thus, the recBCD-dependent homologous recombination system is a component of the signal pathway that activates an error-prone DNA polymerase in mutA cells. PMID:10671469

  16. 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

  17. Rice husk-derived graphene with nano-sized domains and clean edges.

    PubMed

    Muramatsu, Hiroyuki; Kim, Yoong Ahm; Yang, Kap-Seung; Cruz-Silva, Rodolfo; Toda, Ikumi; Yamada, Takumi; Terrones, Mauricio; Endo, Morinobu; Hayashi, Takuya; Saitoh, Hidetoshi

    2014-07-23

    A new synthetic method is demonstrated for transforming rice husks into bulk amounts of graphene through its calcination and chemical activation. The bulk sample consists of crystalline nano-sized graphene and corrugated individual graphene sheets; the material generally contains one, two, or a few layers, and corrugated graphene domains are typically observed in monolayers containing topological defects within the hexagonal lattice and edges. Both types of graphenes exhibit atomically smooth surfaces and edges.

  18. 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.

  19. 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. PMID:24388867

  20. 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.

  1. Peptides-Derived from Thai Rice Bran Improves Endothelial Function in 2K-1C Renovascular Hypertensive Rats

    PubMed Central

    Boonla, Orachorn; Kukongviriyapan, Upa; Pakdeechote, Poungrat; Kukongviriyapan, Veerapol; Pannangpetch, Patchareewan; Thawornchinsombut, Supawan

    2015-01-01

    In recent years, a number of studies have investigated complementary medical approaches to the treatment of hypertension using dietary supplements. Rice bran protein hydrolysates extracted from rice is a rich source of bioactive peptides. The present study aimed to investigate the vasorelaxation and antihypertensive effects of peptides-derived from rice bran protein hydrolysates (RBP) in a rat model of two kidney-one clip (2K-1C) renovascular hypertension. 2K-1C hypertension was induced in male Sprague-Dawley rats by placing a silver clip around the left renal artery, whereas sham-operated rats were served as controls. 2K-1C and sham-operated rats were intragastrically administered with RBP (50 mg·kg−1 or 100 mg·kg−1) or distilled water continuously for six weeks. We observed that RBP augmented endothelium-dependent vasorelaxation in all animals. Administration of RBP to 2K-1C rats significantly reduced blood pressure and decreased peripheral vascular resistance compared to the sham operated controls (p < 0.05). Restoration of normal endothelial function and blood pressure was associated with reduced plasma angiotensin converting enzyme (ACE), decreased superoxide formation, reduced plasma malondialdehyde and increased plasma nitrate/nitrite (p < 0.05). Up-regulation of eNOS protein and down-regulation of p47phox protein were found in 2K-1C hypertensive rats-treated with RBP. Our results suggest that RBP possesses antihypertensive properties which are mainly due to the inhibition of ACE, and its vasodilatory and antioxidant activity. PMID:26184305

  2. Root-uptake of (14)C derived from acetic acid and (14)C transfer to rice edible parts.

    PubMed

    Ogiyama, Shinichi; Suzuki, Hiroyuki; Inubushi, Kazuyuki; Takeda, Hiroshi; Uchida, Shigeo

    2010-02-01

    Three types of culture experiments using paddy rice (Oryza sativa L.) were performed to examine root-uptake of (14)C in the form of acetic acid: double pot experiment (hydroponics), wet culture experiment (submerged sand medium), and chamber experiment (hydroponics and submerged sand medium). The (14)C radioactivity in the plant, mediums, and atmospheric carbon dioxide ((14)CO(2)) in the chamber were determined, and the distribution of (14)C in the plant was visualized using autoradiography. In the double pot experiment, the shoot of the plant and the lower root which was soaked in the culture solution had (14)C radioactivity, but the upper root which did not have contact with the solution had none. There were also (14)C radioactivity in the grains and roots in the wet culture experiment. Results of the chamber experiment showed that (14)CO(2) gas was released from the culture solution in both types of cultures. Results indicated that the (14)C-acetic acid absorbed by rice plant through its root would be very small. Most of the (14)C-acetic acid was transformed into gaseous forms either in the culture solution or rhizosphere. A relatively longer time would be needed to assimilate (14)C derived from acetic acid to grain parts after it was once absorbed by the shoot through the root. Availability of (14)C for the plant in sand culture was considered to be decreased compared with that for the plant in the hydroponics experiment. It was suggested that rice plant absorbed and assimilated (14)C through the plant roots not because of uptake of (14)C-acetic acid but because of uptake of (14)C in gaseous forms such as (14)CO(2). PMID:19962904

  3. Transformation, morphology, and dissolution of silicon and carbon in rice straw-derived biochars under different pyrolytic temperatures.

    PubMed

    Xiao, Xin; Chen, Baoliang; Zhu, Lizhong

    2014-03-18

    Biochars are increasingly recognized as environmentally friendly and cheap remediation agents for soil pollution. The roles of silicon in biochars and interactions between silicon and carbon have been neglected in the literature to date, while the transformation, morphology, and dissolution of silicon in Si-rich biochars remain largely unaddressed. In this study, Si-rich biochars derived from rice straw were prepared under 150-700 °C (named RS150-RS700). The transformation and morphology of carbon and silicon in biochar particles were monitored by FTIR, XRD, and SEM-EDX. With increasing pyrolytic temperature, silicon accumulated, and its speciation changed from amorphous to crystalline matter, while the organic matter evolved from aliphatic to aromatic. For rice straw biomass containing amorphous carbon and amorphous silicon, dehydration (<250 °C) made silicic acid polymerize, resulting in a closer integration of carbon and silicon. At medium pyrolysis temperatures (250-350 °C), an intense cracking of carbon components occurred, and, thus, the silicon located in the inside tissue was exposed. At high pyrolysis temperatures (500-700 °C), the biochar became condensed due to the aromatization of carbon and crystallization of silicon. Correspondingly, the carbon release in water significantly decreased, while the silicon release somewhat decreased and then sharply increased with pyrolytic temperature. Along with SEM-EDX images of biochars before and after water washing, we proposed a structural relationship between carbon and silicon in biochars to explain the mutual protection between carbon and silicon under different pyrolysis temperatures, which contribute to the broader understanding of biochar chemistry and structure. The silicon dissolution kinetics suggests that high Si biochars could serve as a novel slow release source of biologically available Si in low Si agricultural soils.

  4. Preparation, characterization and technological evaluation of CMC derived from rice-straw as thickening agents in discharge, discharge-resist and burn-out printing.

    PubMed

    Ragheb, A A; Nassar, S H; Abd El-Thalouth, I; Ibrahim, M A; Shahin, A A

    2012-08-01

    Carboxymethyl cellulose samples of different D.S. values were prepared from rice straw via pulping followed by etherification with monochloroacetic acid under the catalytic action of sodium hydroxide. The prepared derivatives were assessed for D.S., rheological properties as well as suitability as thickening agents in different printing styles. It was found that carboxymethyl cellulose derived from rice straw is characterized by a non-Newtonian pseudoplastic behavior and its apparent viscosity at any specific rate of shear depends on the D.S. All the prepared derivatives could be used successfully as thickening agents in discharge and/or discharge/resist printing of cotton fabrics. Furthermore, they could be used also as thickening agent for burn-out printing style of wool/polyester blended fabrics using sodium hydroxide. Attractive samples could be obtained via using these techniques.

  5. 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. PMID:24412594

  6. 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.

  7. 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.

  8. Removal of chromium (VI) from electroplating wastewater using an anion exchanger derived from rice straw.

    PubMed

    Cao, Wei; Dang, Zhi; Yia, Xiao-Yun; Yang, Chen; Lu, Gui-Ning; Liu, Yun-Feng; Huang, Se-Yan; Zheng, Liu-Chun

    2013-01-01

    An anion exchanger from rice straw was used to remove Cr (VI) from synthetic wastewater and electroplating effluent. The exchanger was characterized using Fourier transform infrared (FTIR) spectrum and scanning electron microscopy (SEM), and it was found that the quaternary amino group and hydroxyl group are the main functional groups on the fibrous surface of the exchanger. The effect of contact time, initial concentration and pH on the removal of Cr (VI), and adsorption isotherms at different temperature, was investigated. The results showed that the removal of Cr (VI) was very rapid and was significantly affected by the initial pH of the solution. Although acidic conditions (pH = 2-6) facilitated Cr (VI) adsorption, the exchanger was effective in neutral solution and even under weak base conditions. The equilibrium data fitted well with Langmuir adsorption model, and the maximum Cr (VI) adsorption capacities at pH 6.4 were 0.35, 0.36 and 0.38 mmol/g for 15, 25 and 35 degrees C, respectively. The exchanger was finally tested with real electroplating wastewater, and at sorbent dosage of 10 g/L, the removal efficiencies for Cr (VI) and total Cr were 99.4% and 97.8%, respectively. In addition, the positive relationship between adsorbed Cr (VI) and desorbed Cl- suggested that Cr (VI) was mainly removed by ion exchange with chlorine. PMID:23530310

  9. 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...

  10. Elimination of Chromosomal Island SpyCIM1 from Streptococcus pyogenes Strain SF370 Reverses the Mutator Phenotype and Alters Global Transcription

    PubMed Central

    Nguyen, Scott V.; Rahman, Maliha; McCullor, Kimberly A.; King, Catherine J.; Fischetti, Vincent A.; McShan, W. Michael

    2015-01-01

    Streptococcus pyogenes chromosomal island M1 (SpyCIM1) integrates by site-specific recombination into the 5’ end of DNA mismatch repair (MMR) gene mutL in strain SF370SmR, blocking transcription of it and the downstream operon genes. During exponential growth, SpyCIM1 excises from the chromosome and replicates as an episome, restoring mutL transcription. This process is reversed in stationary phase with SpyCIM1 re-integrating into mutL, returning the cells to a mutator phenotype. Here we show that elimination of SpyCIM1 relieves this mutator phenotype. The downstream MMR operon genes, multidrug efflux pump lmrP, Holliday junction resolution helicase ruvA, and DNA base excision repair glycosylase tag, are also restored to constitutive expression by elimination of SpyCIM1. The presence of SpyCIM1 alters global transcription patterns in SF370SmR. RNA sequencing (RNA-Seq) demonstrated that loss of SpyCIM1 in the SpyCIM1 deletion mutant, CEM1Δ4, impacted the expression of over 100 genes involved in virulence and metabolism both in early exponential phase, when the SpyCIM1 is episomal, as well as at the onset of stationary phase, when SpyCIM1 has reintegrated into mutL. Among these changes, the up-regulation of the genes for the antiphagocytic M protein (emm1), streptolysin O (slo), capsule operon (hasABC), and streptococcal pyrogenic exotoxin (speB), are particularly notable. The expression pattern of the MMR operon confirmed our earlier observations that these genes are transcribed in early exponential phase but silenced as stationary phase is approached. Thus, the direct role of SpyCIM1 in causing the mutator phenotype is confirmed, and further, its influence upon the biology of S. pyogenes was found to impact multiple genes in addition to the MMR operon, which is a novel function for a mobile genetic element. We suggest that such chromosomal islands are a remarkable evolutionary adaptation to promote the survival of its S. pyogenes host cell in changing

  11. Elimination of Chromosomal Island SpyCIM1 from Streptococcus pyogenes Strain SF370 Reverses the Mutator Phenotype and Alters Global Transcription.

    PubMed

    Hendrickson, Christina; Euler, Chad W; Nguyen, Scott V; Rahman, Maliha; McCullor, Kimberly A; King, Catherine J; Fischetti, Vincent A; McShan, W Michael

    2015-01-01

    Streptococcus pyogenes chromosomal island M1 (SpyCIM1) integrates by site-specific recombination into the 5' end of DNA mismatch repair (MMR) gene mutL in strain SF370SmR, blocking transcription of it and the downstream operon genes. During exponential growth, SpyCIM1 excises from the chromosome and replicates as an episome, restoring mutL transcription. This process is reversed in stationary phase with SpyCIM1 re-integrating into mutL, returning the cells to a mutator phenotype. Here we show that elimination of SpyCIM1 relieves this mutator phenotype. The downstream MMR operon genes, multidrug efflux pump lmrP, Holliday junction resolution helicase ruvA, and DNA base excision repair glycosylase tag, are also restored to constitutive expression by elimination of SpyCIM1. The presence of SpyCIM1 alters global transcription patterns in SF370SmR. RNA sequencing (RNA-Seq) demonstrated that loss of SpyCIM1 in the SpyCIM1 deletion mutant, CEM1Δ4, impacted the expression of over 100 genes involved in virulence and metabolism both in early exponential phase, when the SpyCIM1 is episomal, as well as at the onset of stationary phase, when SpyCIM1 has reintegrated into mutL. Among these changes, the up-regulation of the genes for the antiphagocytic M protein (emm1), streptolysin O (slo), capsule operon (hasABC), and streptococcal pyrogenic exotoxin (speB), are particularly notable. The expression pattern of the MMR operon confirmed our earlier observations that these genes are transcribed in early exponential phase but silenced as stationary phase is approached. Thus, the direct role of SpyCIM1 in causing the mutator phenotype is confirmed, and further, its influence upon the biology of S. pyogenes was found to impact multiple genes in addition to the MMR operon, which is a novel function for a mobile genetic element. We suggest that such chromosomal islands are a remarkable evolutionary adaptation to promote the survival of its S. pyogenes host cell in changing environments.

  12. Survey of arsenic and its speciation in rice products such as breakfast cereals, rice crackers and Japanese rice condiments.

    PubMed

    Sun, Guo-Xin; Williams, Paul N; Zhu, Yong-Guan; Deacon, Claire; Carey, Anne-Marie; Raab, Andrea; Feldmann, Joerg; Meharg, Andrew A

    2009-04-01

    Rice has been demonstrated to be one of the major contributors to arsenic (As) in human diets in addition to drinking water, but little is known about rice products as an additional source of As exposure. Rice products were analyzed for total As and a subset of samples were measured for arsenic speciation using high performance liquid chromatography interfaced with inductively coupled plasma-mass spectrometry (HPLC-ICP-MS). A wide range of rice products had total and inorganic arsenic levels that typified those found in rice grain including, crisped rice, puffed rice, rice crackers, rice noodles and a range of Japanese rice condiments as well as rice products targeted at the macrobiotic, vegan, lactose intolerant and gluten intolerance food market. Most As in rice products are inorganic As (75.2-90.1%). This study provides a wider appreciation of how inorganic arsenic derived from rice products enters the human diet. PMID:18775567

  13. 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

  14. 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

  15. Development and molecular characterization of a doubled haploid population derived from a hybrid between japonica rice and wide compatible indica rice

    PubMed Central

    Nguyen, Hung; Chen, Xiao-Yang; Jiang, Meng; Wang, Qing; Deng, Li; Zhang, Wei-Zhang; Shu, Qing-Yao

    2016-01-01

    Doubled haploid (DH) populations, particularly those from subspecies crosses possessing the wide compatible gene S5n, are important germplasm resources for rice genetic studies and breeding, but their feature and potential have not been fully assessed and explored. In the present study, we produced a DH population from the hybrid of japonica 668B and wide compatible indica T23. Genotyping of the S5 locus with allele-specific markers for ORF3, ORF4 and ORF5 revealed a potential recombination hot spot in the ORF3-ORF4 region. Haplotyping analysis revealed that 21/34 subspecies specific Indel markers segregated in distortion in the DH population, with a few lines having indica alleles either extremely low (1.7%) or high (98.3%), with little effect of the S5 allele. While DH lines with the S5n allele had higher frequency of indica alleles, no effect of the S5n allele was observed on all agronomic traits but flowering time. Taken together, the present study advanced understanding of the genetics of wide crosses in general, and DH production in particular between the two rice subspecies, and the new DH population generated will become a useful resource for rice genetic study and breeding in the future. PMID:27795680

  16. Simultaneous and rapid determination of deoxynivalenol and its acetylate derivatives in wheat flour and rice by ultra high performance liquid chromatography with photo diode array detection.

    PubMed

    Xu, Jiao-Jiao; Zhou, Jian; Huang, Bai-Fen; Cai, Zeng-Xuan; Xu, Xiao-Min; Ren, Yi-Ping

    2016-06-01

    A simple and reliable method of ultra high performance liquid chromatography coupled with photo-diode array detection has been proposed for the simultaneous determination of deoxynivalenol and its acetylated derivatives in wheat flour and rice, especially focusing on the optimization of sample extraction, cleanup, and chromatographic separation conditions. Sample pretreatment consisted of a first step using a quick, easy, cheap, effective, rugged, and safe based extraction procedure and a subsequent cleanup step based on solid-phase extraction. The method was extensively validated in wheat flour and rice, obtaining satisfactory analytical performance with good linearity (R(2) ≥ 0.999), acceptable recoveries (80.0-104.4%), and repeatability (RSDs 1.3-10.7%). The limits of detection (21.7-57.4 μg/kg) and quantitation (72.3-191.4 μg/kg) for deoxynivalenols were lower than those usually permitted by various countries' legislation in these food matrices. The method was applied to 34 wheat and rice samples. The results were further compared with results of ultra high performance liquid chromatography with electrospray ionization tandem mass spectrometry. PMID:27059149

  17. 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.

  18. Simultaneous and rapid determination of deoxynivalenol and its acetylate derivatives in wheat flour and rice by ultra high performance liquid chromatography with photo diode array detection.

    PubMed

    Xu, Jiao-Jiao; Zhou, Jian; Huang, Bai-Fen; Cai, Zeng-Xuan; Xu, Xiao-Min; Ren, Yi-Ping

    2016-06-01

    A simple and reliable method of ultra high performance liquid chromatography coupled with photo-diode array detection has been proposed for the simultaneous determination of deoxynivalenol and its acetylated derivatives in wheat flour and rice, especially focusing on the optimization of sample extraction, cleanup, and chromatographic separation conditions. Sample pretreatment consisted of a first step using a quick, easy, cheap, effective, rugged, and safe based extraction procedure and a subsequent cleanup step based on solid-phase extraction. The method was extensively validated in wheat flour and rice, obtaining satisfactory analytical performance with good linearity (R(2) ≥ 0.999), acceptable recoveries (80.0-104.4%), and repeatability (RSDs 1.3-10.7%). The limits of detection (21.7-57.4 μg/kg) and quantitation (72.3-191.4 μg/kg) for deoxynivalenols were lower than those usually permitted by various countries' legislation in these food matrices. The method was applied to 34 wheat and rice samples. The results were further compared with results of ultra high performance liquid chromatography with electrospray ionization tandem mass spectrometry.

  19. OsHrd3 is necessary for maintaining the quality of endoplasmic reticulum-derived protein bodies in rice endosperm.

    PubMed

    Ohta, Masaru; Takaiwa, Fumio

    2015-08-01

    Large amounts of seed storage proteins (SSPs) are produced in the maturing endosperm of rice seeds. Rice SSPs are synthesized as secretory proteins on the rough endoplasmic reticulum (ER), and are transported and deposited into protein complexes called protein bodies (PB-I and PB-II). Due to the high production of SSPs, unfolded SSPs may be generated during this process. However, it was previously unclear how such unfolded proteins are selected among synthesized products and removed from the ER to maintain protein quality in the endosperm. Since Hrd3/SEL1L recognizes unfolded proteins in yeast and mammalian protein quality control systems, the role of OsHrd3 in protein quality control in rice endosperm was investigated. Co-immunoprecipitation experiments demonstrated that OsHrd3 interacts with components of the Hrd1 ubiquitin ligase complex such as OsOS-9 and OsHrd1 in rice protoplasts. Endosperm-specific suppression of OsHrd3 in transgenic rice reduced the levels of polyubiquitinated proteins and resulted in unfolded protein responses (UPRs) in the endosperm, suggesting that OsHrd3-mediated polyubiquitination plays an important role in ER quality control. It was found that a cysteine-rich 13kDa prolamin, RM1, was polyubiquitinated in wild-type (WT) seeds but not in OsHrd3 knockdown (KD) seeds. RM1 formed aberrant aggregates that were deposited abnormally in OsHrd3 KD seeds, resulting in deformed PB-I. Therefore, the quality of protein bodies is maintained by polyubiquitination of unfolded SSPs through the Hrd1 ubiquitin ligase system in rice endosperm. PMID:25977235

  20. OsHrd3 is necessary for maintaining the quality of endoplasmic reticulum-derived protein bodies in rice endosperm

    PubMed Central

    Ohta, Masaru; Takaiwa, Fumio

    2015-01-01

    Large amounts of seed storage proteins (SSPs) are produced in the maturing endosperm of rice seeds. Rice SSPs are synthesized as secretory proteins on the rough endoplasmic reticulum (ER), and are transported and deposited into protein complexes called protein bodies (PB-I and PB-II). Due to the high production of SSPs, unfolded SSPs may be generated during this process. However, it was previously unclear how such unfolded proteins are selected among synthesized products and removed from the ER to maintain protein quality in the endosperm. Since Hrd3/SEL1L recognizes unfolded proteins in yeast and mammalian protein quality control systems, the role of OsHrd3 in protein quality control in rice endosperm was investigated. Co-immunoprecipitation experiments demonstrated that OsHrd3 interacts with components of the Hrd1 ubiquitin ligase complex such as OsOS-9 and OsHrd1 in rice protoplasts. Endosperm-specific suppression of OsHrd3 in transgenic rice reduced the levels of polyubiquitinated proteins and resulted in unfolded protein responses (UPRs) in the endosperm, suggesting that OsHrd3-mediated polyubiquitination plays an important role in ER quality control. It was found that a cysteine-rich 13kDa prolamin, RM1, was polyubiquitinated in wild-type (WT) seeds but not in OsHrd3 knockdown (KD) seeds. RM1 formed aberrant aggregates that were deposited abnormally in OsHrd3 KD seeds, resulting in deformed PB-I. Therefore, the quality of protein bodies is maintained by polyubiquitination of unfolded SSPs through the Hrd1 ubiquitin ligase system in rice endosperm. PMID:25977235

  1. A common cancer-associated DNA polymerase ε mutation causes an exceptionally strong mutator phenotype, indicating fidelity defects distinct from loss of proofreading.

    PubMed

    Kane, Daniel P; Shcherbakova, Polina V

    2014-04-01

    Exonucleolytic proofreading and DNA mismatch repair (MMR) act in series to maintain high-fidelity DNA replication and to avoid mutagenesis. MMR defects elevate the overall mutation rate and are associated with increased cancer incidence. Hypermutable colorectal and endometrial tumors with functional MMR were recently reported to carry amino acid substitutions in the exonuclease domain of DNA polymerase ε (Polε). This created a notion that loss of the proofreading activity of Polε is an initiating cause of some sporadic human cancers. In this study, we identified a somatic P286R substitution in the conserved ExoI motif of Polε in a collection of 52 sporadic colorectal tumor specimens. This change has been repeatedly observed in colorectal and endometrial tumors in previous studies despite many possible ways to inactivate Polε proofreading. To understand the reasons for the recurrent appearance of the P286R variant, we characterized its functional consequences using the yeast model system. An analogous substitution in the yeast Polε produced an unusually strong mutator phenotype exceeding that of proofreading-deficient mutants by two orders of magnitude. This argues that the P286R mutation acts at some level other than loss of exonuclease to elevate cancer risk. Heterozygosity for the variant allele caused a strong mutator effect comparable with that of complete MMR deficiency, providing an explanation for why loss of heterozygosity is not required for the development of Polε-mutant human tumors.

  2. Mapping Quantitative Trait Loci Associated with Toot Traits Using Sequencing-Based Genotyping Chromosome Segment Substitution Lines Derived from 9311 and Nipponbare in Rice (Oryza sativa L.)

    PubMed Central

    Tao, Yajun; Chen, Chen; Yang, Bin; Wu, Yue; Yang, Zefeng; Liang, Guohua; Wang, Baohe; Wang, Yulong

    2016-01-01

    Identification of quantitative trait loci (QTLs) associated with rice root morphology provides useful information for avoiding drought stress and maintaining yield production under the irrigation condition. In this study, a set of chromosome segment substitution lines derived from 9311 as the recipient and Nipponbare as donor, were used to analysis root morphology. By combining the resequencing-based bin-map with a multiple linear regression analysis, QTL identification was conducted on root number (RN), total root length (TRL), root dry weight (RDW), maximum root length (MRL), root thickness (RTH), total absorption area (TAA) and root vitality (RV), using the CSSL population grown under hydroponic conditions. A total of thirty-eight QTLs were identified: six for TRL, six for RDW, eight for the MRL, four for RTH, seven for RN, two for TAA, and five for RV. Phenotypic effect variance explained by these QTLs ranged from 2.23% to 37.08%, and four single QTLs had more than 10% phenotypic explanations on three root traits. We also detected the correlations between grain yield (GY) and root traits, and found that TRL, RTH and MRL had significantly positive correlations with GY. However, TRL, RDW and MRL had significantly positive correlations with biomass yield (BY). Several QTLs identified in our population were co-localized with some loci for grain yield or biomass. This information may be immediately exploited for improving rice water and fertilizer use efficiency for molecular breeding of root system architectures. PMID:27010823

  3. Concentrated protein body product derived from rice endosperm as an oral tolerogen for allergen-specific immunotherapy--a new mucosal vaccine formulation against Japanese cedar pollen allergy.

    PubMed

    Wakasa, Yuhya; Takagi, Hidenori; Watanabe, Nobumasa; Kitamura, Noriko; Fujiwara, Yoshihiro; Ogo, Yuko; Hayashi, Shimpei; Yang, Lijun; Ohta, Masaru; Thet Tin, Wai Wai; Sekikawa, Kenji; Takano, Makoto; Ozawa, Kenjirou; Hiroi, Takachika; Takaiwa, Fumio

    2015-01-01

    The endoplasmic reticulum-derived type-I protein body (PB-I) from rice endosperm cells is an ideal candidate formulation for the oral delivery of bioencapsulated peptides as tolerogens for allergen-specific immunotherapy. In the present study, PBs containing the deconstructed Japanese cedar pollen allergens Cryptomeria japonica 1 (Cry j 1) and Cry j 2 were concentrated by treatment with thermostable α-amylase at 90°C to remove the starch from milled rice powder, which resulted in a 12.5-fold reduction of dry weight compared to the starting material. The modified Cry j 1 and Cry j 2 antigens in this concentrated PB product were more resistant to enzymatic digestion than those in the milled seed powder despite the absence of intact cell wall and starch, and remained stable for at least 10 months at room temperature without detectable loss or degradation. The high resistance of these allergens could be attributed to changes in protein physicochemical properties induced by the high temperature concentration process, as suggested by the decreased solubility of the antigens and seed proteins in PBs in step-wise-extraction experiments. Confocal microscopy showed that the morphology of antigen-containing PB-Is was preserved in the concentrated PB product. The concentrated PB product induced specific immune tolerance against Cry j 1 and Cry j 2 in mice when orally administered, supporting its potential use as a novel oral tolerogen formulation. PMID:25774686

  4. Concentrated protein body product derived from rice endosperm as an oral tolerogen for allergen-specific immunotherapy--a new mucosal vaccine formulation against Japanese cedar pollen allergy.

    PubMed

    Wakasa, Yuhya; Takagi, Hidenori; Watanabe, Nobumasa; Kitamura, Noriko; Fujiwara, Yoshihiro; Ogo, Yuko; Hayashi, Shimpei; Yang, Lijun; Ohta, Masaru; Thet Tin, Wai Wai; Sekikawa, Kenji; Takano, Makoto; Ozawa, Kenjirou; Hiroi, Takachika; Takaiwa, Fumio

    2015-01-01

    The endoplasmic reticulum-derived type-I protein body (PB-I) from rice endosperm cells is an ideal candidate formulation for the oral delivery of bioencapsulated peptides as tolerogens for allergen-specific immunotherapy. In the present study, PBs containing the deconstructed Japanese cedar pollen allergens Cryptomeria japonica 1 (Cry j 1) and Cry j 2 were concentrated by treatment with thermostable α-amylase at 90°C to remove the starch from milled rice powder, which resulted in a 12.5-fold reduction of dry weight compared to the starting material. The modified Cry j 1 and Cry j 2 antigens in this concentrated PB product were more resistant to enzymatic digestion than those in the milled seed powder despite the absence of intact cell wall and starch, and remained stable for at least 10 months at room temperature without detectable loss or degradation. The high resistance of these allergens could be attributed to changes in protein physicochemical properties induced by the high temperature concentration process, as suggested by the decreased solubility of the antigens and seed proteins in PBs in step-wise-extraction experiments. Confocal microscopy showed that the morphology of antigen-containing PB-Is was preserved in the concentrated PB product. The concentrated PB product induced specific immune tolerance against Cry j 1 and Cry j 2 in mice when orally administered, supporting its potential use as a novel oral tolerogen formulation.

  5. Concentrated Protein Body Product Derived from Rice Endosperm as an Oral Tolerogen for Allergen-Specific Immunotherapy—A New Mucosal Vaccine Formulation against Japanese Cedar Pollen Allergy

    PubMed Central

    Wakasa, Yuhya; Takagi, Hidenori; Watanabe, Nobumasa; Kitamura, Noriko; Fujiwara, Yoshihiro; Ogo, Yuko; Hayashi, Shimpei; Yang, Lijun; Ohta, Masaru; Thet Tin, Wai Wai; Sekikawa, Kenji; Takano, Makoto; Ozawa, Kenjirou; Hiroi, Takachika; Takaiwa, Fumio

    2015-01-01

    The endoplasmic reticulum-derived type-I protein body (PB-I) from rice endosperm cells is an ideal candidate formulation for the oral delivery of bioencapsulated peptides as tolerogens for allergen-specific immunotherapy. In the present study, PBs containing the deconstructed Japanese cedar pollen allergens Cryptomeria japonica 1 (Cry j 1) and Cry j 2 were concentrated by treatment with thermostable α-amylase at 90°C to remove the starch from milled rice powder, which resulted in a 12.5-fold reduction of dry weight compared to the starting material. The modified Cry j 1 and Cry j 2 antigens in this concentrated PB product were more resistant to enzymatic digestion than those in the milled seed powder despite the absence of intact cell wall and starch, and remained stable for at least 10 months at room temperature without detectable loss or degradation. The high resistance of these allergens could be attributed to changes in protein physicochemical properties induced by the high temperature concentration process, as suggested by the decreased solubility of the antigens and seed proteins in PBs in step-wise-extraction experiments. Confocal microscopy showed that the morphology of antigen-containing PB-Is was preserved in the concentrated PB product. The concentrated PB product induced specific immune tolerance against Cry j 1 and Cry j 2 in mice when orally administered, supporting its potential use as a novel oral tolerogen formulation. PMID:25774686

  6. Mapping Quantitative Trait Loci Associated with Toot Traits Using Sequencing-Based Genotyping Chromosome Segment Substitution Lines Derived from 9311 and Nipponbare in Rice (Oryza sativa L.).

    PubMed

    Zhou, Yong; Dong, Guichun; Tao, Yajun; Chen, Chen; Yang, Bin; Wu, Yue; Yang, Zefeng; Liang, Guohua; Wang, Baohe; Wang, Yulong

    2016-01-01

    Identification of quantitative trait loci (QTLs) associated with rice root morphology provides useful information for avoiding drought stress and maintaining yield production under the irrigation condition. In this study, a set of chromosome segment substitution lines derived from 9311 as the recipient and Nipponbare as donor, were used to analysis root morphology. By combining the resequencing-based bin-map with a multiple linear regression analysis, QTL identification was conducted on root number (RN), total root length (TRL), root dry weight (RDW), maximum root length (MRL), root thickness (RTH), total absorption area (TAA) and root vitality (RV), using the CSSL population grown under hydroponic conditions. A total of thirty-eight QTLs were identified: six for TRL, six for RDW, eight for the MRL, four for RTH, seven for RN, two for TAA, and five for RV. Phenotypic effect variance explained by these QTLs ranged from 2.23% to 37.08%, and four single QTLs had more than 10% phenotypic explanations on three root traits. We also detected the correlations between grain yield (GY) and root traits, and found that TRL, RTH and MRL had significantly positive correlations with GY. However, TRL, RDW and MRL had significantly positive correlations with biomass yield (BY). Several QTLs identified in our population were co-localized with some loci for grain yield or biomass. This information may be immediately exploited for improving rice water and fertilizer use efficiency for molecular breeding of root system architectures. PMID:27010823

  7. Preparation of porous 45S5 Bioglass-derived glass-ceramic scaffolds by using rice husk as a porogen additive.

    PubMed

    Wu, Shih-Ching; Hsu, Hsueh-Chuan; Hsiao, Sheng-Hung; Ho, Wen-Fu

    2009-06-01

    Bioactive glass is currently regarded as the most biocompatible material in the bone regeneration field because of its bioactivity, osteoconductivity and even osteoinductivity. In the present work porous glass-ceramic scaffolds, which were prepared from the 45S5 Bioglass by foaming with rice husks and sintering at 1050 degrees C for 1 h, have been developed. The produced scaffolds were characterized for their morphology, properties and bioactivity. Micrographs taken using a scanning electron microscope (SEM) were used for analysis of macropores, mesopores and micropores, respectively. The bioactivity of the porous glass-ceramic scaffolds was investigated using simulated body fluid (SBF) and characterized by SEM, energy dispersive spectroscopy (EDS) and X-ray diffraction (XRD). A great potential scaffold that provides sufficient mechanical support temporarily while maintaining bioactivity, and that can biodegrade at later stages is achievable with the developed 45S5 Bioglass-derived scaffolds.

  8. 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

  9. 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.

  10. 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. PMID:24586381

  11. 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

  12. 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.

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

    PubMed Central

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

    2015-01-01

    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. DOI: http://dx.doi.org/10.7554/eLife.03913.001 PMID:25821986

  14. 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.

  15. Immobilization of Pb and Cu in polluted soil by superphosphate, multi-walled carbon nanotube, rice straw and its derived biochar.

    PubMed

    Rizwan, Muhammad Shahid; Imtiaz, Muhammad; Huang, Guoyong; Chhajro, Muhammad Afzal; Liu, Yonghong; Fu, Qingling; Zhu, Jun; Ashraf, Muhammad; Zafar, Mohsin; Bashir, Saqib; Hu, Hongqing

    2016-08-01

    Lead (Pb) and copper (Cu) contamination in croplands pose severe health hazards and environmental concerns throughout soil-food chain transfer. In the present study, BCR, TCLP, CaCl2, and SBET techniques were employed to evaluate the simultaneous effectiveness of rice straw (RS) and its derived biochar (BC), multiwall carbon nanotube (MWCNT), and single superphosphate (SSP) to immobilize the Pb and Cu in co-contaminated soil. The BCR sequential extraction results suggested that with increasing BC and SSP amount, the acid-soluble fractions decreased while oxidizable and residual proportions of Pb and Cu were increased significantly. Compared to SSP, the application of BC amendment substantially modified partitioning of Cu from easily exchangeable phase to less bioavailable residual bound fraction. The immobilized Pb and Cu were mainly transformed to reducible forms. The TCLP and CaCl2-extracted Pb and Cu were reduced significantly by the addition of BC compared to RS and MWCNT, whereas the bio-accessibility of Pb significantly reduced with RS addition. SSP showed better results for Pb immobilization while marginal for Cu in co-contaminated soil. Overall, the addition of BC offered the best results and could be effective in both Pb and Cu immobilization thereby reducing their mobility and bioavailability in the co-contaminated soil. PMID:27121017

  16. Rice brans, rice bran oils, and rice hulls: composition, food and industrial uses, and bioactivities in humans, animals, and cells.

    PubMed

    Friedman, Mendel

    2013-11-13

    Rice plants produce bioactive rice brans and hulls that have been reported to have numerous health-promoting effects in cells, animals, and humans. The main objective of this review is to consolidate and integrate the widely scattered information on the composition and the antioxidative, anti-inflammatory, and immunostimulating effects of rice brans from different rice cultivars, rice bran oils derived from rice brans, rice hulls, liquid rice hull smoke derived from rice hulls, and some of their bioactive compounds. As part of this effort, this paper also presents brief summaries on the preparation of health-promoting foods including bread, corn flakes, frankfurters, ice cream, noodles, pasta, tortillas, and zero-trans-fat shortening as well as industrial products such bioethanol and biodiesel fuels. Also covered are antibiotic, antiallergic, anticarcinogenic, antidiabetic, cardiovascular, allelochemical, and other beneficial effects and the mechanisms of the bioactivities. The results show that food-compatible and safe formulations with desirable nutritional and biological properties can be used to develop new multifunctional foods as well as bioethanol and biodiesel fuel. The overlapping aspects are expected to contribute to a better understanding of the potential impact of the described health-promoting potential of the rice-derived brans, oils, and hulls in food and medicine. Such an understanding will enhance nutrition and health and benefit the agricultural and industrial economies. PMID:24175575

  17. 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

  18. 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.

  19. 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

    2015-01-01

    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

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

    NASA Astrophysics Data System (ADS)

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

    2015-10-01

    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.

  1. Endotoxin-neutralizing activity and mechanism of action of a cationic α-helical antimicrobial octadecapeptide derived from α-amylase of rice.

    PubMed

    Taniguchi, Masayuki; Ochiai, Akihito; Matsushima, Kenta; Tajima, Koji; Kato, Tetsuo; Saitoh, Eiichi; Tanaka, Takaaki

    2016-01-01

    We have previously reported that AmyI-1-18, an octadecapeptide derived from α-amylase (AmyI-1) of rice, is a novel cationic α-helical peptide that exhibited antimicrobial activity against human pathogens, including Porphyromonas gingivalis, Pseudomonas aeruginosa, Propionibacterium acnes, Streptococcus mutans, and Candida albicans. In this study, to further investigate the potential functions of AmyI-1-18, we examined its inhibitory ability against the endotoxic activities of lipopolysaccharides (LPSs, smooth and Rc types) and lipid A from Escherichia coli. AmyI-1-18 inhibited the production of endotoxin-induced nitric oxide (NO), an inflammatory mediator, in mouse macrophages (RAW264) in a concentration-dependent manner. The results of a chromogenic Limulus amebocyte lysate assay illustrated that the ability [50% effective concentration (EC50): 0.17 μM] of AmyI-1-18 to neutralize lipid A was similar to its ability (EC50: 0.26 μM) to neutralize LPS, suggesting that AmyI-1-18 specifically binds to the lipid A moiety of LPS. Surface plasmon resonance analysis of the interaction between AmyI-1-18 and LPS or lipid A also suggested that AmyI-1-18 directly binds to the lipid A moiety of LPS because the dissociation constant (KD) of AmyI-1-18 with lipid A is 5.6×10(-10) M, which is similar to that (4.3×10(-10) M) of AmyI-1-18 with LPS. In addition, AmyI-1-18 could block the binding of LPS-binding protein to LPS, although its ability was less than that of polymyxin B. These results suggest that AmyI-1-18 expressing antimicrobial and endotoxin-neutralizing activities is useful as a safe and potent host defense peptide against pathogenic Gram-negative bacteria in many fields of healthcare. PMID:26643956

  2. Endotoxin-neutralizing activity and mechanism of action of a cationic α-helical antimicrobial octadecapeptide derived from α-amylase of rice.

    PubMed

    Taniguchi, Masayuki; Ochiai, Akihito; Matsushima, Kenta; Tajima, Koji; Kato, Tetsuo; Saitoh, Eiichi; Tanaka, Takaaki

    2016-01-01

    We have previously reported that AmyI-1-18, an octadecapeptide derived from α-amylase (AmyI-1) of rice, is a novel cationic α-helical peptide that exhibited antimicrobial activity against human pathogens, including Porphyromonas gingivalis, Pseudomonas aeruginosa, Propionibacterium acnes, Streptococcus mutans, and Candida albicans. In this study, to further investigate the potential functions of AmyI-1-18, we examined its inhibitory ability against the endotoxic activities of lipopolysaccharides (LPSs, smooth and Rc types) and lipid A from Escherichia coli. AmyI-1-18 inhibited the production of endotoxin-induced nitric oxide (NO), an inflammatory mediator, in mouse macrophages (RAW264) in a concentration-dependent manner. The results of a chromogenic Limulus amebocyte lysate assay illustrated that the ability [50% effective concentration (EC50): 0.17 μM] of AmyI-1-18 to neutralize lipid A was similar to its ability (EC50: 0.26 μM) to neutralize LPS, suggesting that AmyI-1-18 specifically binds to the lipid A moiety of LPS. Surface plasmon resonance analysis of the interaction between AmyI-1-18 and LPS or lipid A also suggested that AmyI-1-18 directly binds to the lipid A moiety of LPS because the dissociation constant (KD) of AmyI-1-18 with lipid A is 5.6×10(-10) M, which is similar to that (4.3×10(-10) M) of AmyI-1-18 with LPS. In addition, AmyI-1-18 could block the binding of LPS-binding protein to LPS, although its ability was less than that of polymyxin B. These results suggest that AmyI-1-18 expressing antimicrobial and endotoxin-neutralizing activities is useful as a safe and potent host defense peptide against pathogenic Gram-negative bacteria in many fields of healthcare.

  3. [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.

  4. Wild rice, hypoallergenic rice--immunologic comparison.

    PubMed

    Yum, Hye-Yung; Lee, Kyung Eun; Choi, Sung Youn; Yang, Hea Sun; Sohn, Myung Hyun; Kim, Kyu-Earn; Lee, Sang-Il

    2006-01-01

    Rice is a cereal that is mainly produced and widely consumed in Asian countries including Korea. Several reports have suggested a role of IgE-mediated hypersensitivity in asthma and eczema associated with ingestion or inhalation of rice. In Japan, hypoallergenic rices are used for a substitute of common rice in some atopic patients. We performed this study to identify major allergens of rice and changed allergenicity in cooked and hypoallergenic rice. We purified crude extracts from a variety of rice and analyzed their protein distributions by sodium dodecyl sulfate polyacrylamide gel electrophoresis (SDS-PAGE). Based on UniCAP test and skin-prick test, we selected sera with high sensitivity and analyzed specific IgE binding to rice by immunoblotting. In addition, the inhibition rate among some rice was determined by enzyme linked immunosorbent assay and CAP test. As the result of this study, rice with various origins and polishing levels had no difference in protein band pattern. After cooking, it was difficult to detect protein bands distributed in raw rice; and, even through IgE immunoblot analysis, it was impossible to differentiate between wild and hypoallergenic rice. In addition, both wild and hypoallergenic rice still had IgE binding activity on their remaining protein bands. In conclusion, almost all proteins of rice were excluded or weakened in the process of boiling and IgE binding activity still remained even in hypoallergenic rice.

  5. Generation mechanism of novel, huge protein bodies containing wild type or hypoallergenic derivatives of birch pollen allergen Bet v 1 in rice endosperm.

    PubMed

    Ogo, Yuko; Takahashi, Hideyuki; Wang, Shuyi; Takaiwa, Fumio

    2014-09-01

    Tree pollen chimera 7 (TPC7), a hypoallergenic Bet v 1 tolerogen against birch pollen allergy, induces the formation of novel, huge protein bodies (referred to as TPC7 bodies) in rice endosperm, and is accumulated in high level. In the present study, we found that native Bet v 1 and TPC9, analog proteins of TPC7, were also deposited into novel protein bodies in rice endosperm. However, the novel protein bodies in Bet v 1 and TPC9 rice were much smaller and less abundant than those in TPC7 rice, reflected in lower amounts of accumulation of Bet v 1 and TPC9 than that of TPC7. A domain swapping experiment between TPC7 and Bet v 1 revealed that the latter half of TPC7 is important for the formation of the TPC7 body. We found that chaperons and folding enzymes such as BiP and protein disulfide isomerase were localized within the TPC7 body. TPC7 protein was extracted from TPC7 seeds as large aggregates with molecular masses greater than 669 kDa, or approximately 75 kDa under native or semi-native conditions. These TPC7 aggregates are thought to be responsible for the induction of TPC7 body formation. TPC7 accumulated to a maximum level of 550 μg/seed, which amounts to 23% of total seed protein, while Bet v 1 and TPC9 accumulated much lower levels. The TPC7 body represents a promising reservoir, which may serve as a fusion partner for high-level production and sequestering storage of recombinant proteins.

  6. 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

  7. Agrobacterium-mediated transformation of leaf base derived callus tissues of popular indica rice (Oryza sativa L. sub sp. indica cv. ADT 43).

    PubMed

    Karthikeyan, Alagarsamy; Pandian, Shunmugiah Karutha; Ramesh, Manikandan

    2011-09-01

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

  8. Genetic analysis of seed-shattering genes in rice using an F₃:₄ population derived from an Oryza sativa x Oryza rufipogon cross.

    PubMed

    Kwon, S-J; Yu, J; Park, Y J; Son, J-H; Kim, N-S; Lee, J K

    2015-02-13

    Seed shattering of wild plant species is thought to be an adaptive trait to facilitate seed dispersal. For rice breeding, seed shatter-ing is an important trait for improving breeding strategies, particularly when developing lines use interspecific hybrids and introgression of genes from wild species. We developed F₃:₄ recombinant inbred lines from an interspecific cross between Oryza sativa cv. Ilpoombyeo and Oryza rufipogon. In this study, we genetically analyzed known shat-tering-related loci using the F₃:₄ population of O. sativa/O. rufipogon. CACTA-AG190 was significantly associated with the shattering trait CACTA-TD according to bulked segregant analysis results, and was found in the qSH-1 region of chromosome 1. Fine genetic mapping of the flanking regions around qSH-1 based on CACTA-AG190 revealed multiple-sequence variations. The highest limit of detection based on quantitative trait locus analysis was observed between shaap-7715 and a 518-bp insertion site. Two other quantitative trait locus analyses of seed-shattering-related loci, qSH-4 and sh-h, were performed using simple sequence repeat and allele-pecific single nucleotide polymor-phism markers. Our results can be applied for rice-breeding research, such as marker-assisted selection between cultivated and wild rice.

  9. 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.

  10. Information Commons for Rice (IC4R).

    PubMed

    Hao, Lili; Zhang, Huiyong; Zhang, Zhang; Hu, Songnian; Xue, Yu

    2016-01-01

    Rice is the most important staple food for a large part of the world's human population and also a key model organism for plant research. Here, we present Information Commons for Rice (IC4R; http://ic4r.org), a rice knowledgebase featuring adoption of an extensible and sustainable architecture that integrates multiple omics data through community-contributed modules. Each module is developed and maintained by different committed groups, deals with data collection, processing and visualization, and delivers data on-demand via web services. In the current version, IC4R incorporates a variety of rice data through multiple committed modules, including genome-wide expression profiles derived entirely from RNA-Seq data, resequencing-based genomic variations obtained from re-sequencing data of thousands of rice varieties, plant homologous genes covering multiple diverse plant species, post-translational modifications, rice-related literatures and gene annotations contributed by the rice research community. Unlike extant related databases, IC4R is designed for scalability and sustainability and thus also features collaborative integration of rice data and low costs for database update and maintenance. Future directions of IC4R include incorporation of other omics data and association of multiple omics data with agronomically important traits, dedicating to build IC4R into a valuable knowledgebase for both basic and translational researches in rice. PMID:26519466

  11. Information Commons for Rice (IC4R)

    PubMed Central

    2016-01-01

    Rice is the most important staple food for a large part of the world's human population and also a key model organism for plant research. Here, we present Information Commons for Rice (IC4R; http://ic4r.org), a rice knowledgebase featuring adoption of an extensible and sustainable architecture that integrates multiple omics data through community-contributed modules. Each module is developed and maintained by different committed groups, deals with data collection, processing and visualization, and delivers data on-demand via web services. In the current version, IC4R incorporates a variety of rice data through multiple committed modules, including genome-wide expression profiles derived entirely from RNA-Seq data, resequencing-based genomic variations obtained from re-sequencing data of thousands of rice varieties, plant homologous genes covering multiple diverse plant species, post-translational modifications, rice-related literatures and gene annotations contributed by the rice research community. Unlike extant related databases, IC4R is designed for scalability and sustainability and thus also features collaborative integration of rice data and low costs for database update and maintenance. Future directions of IC4R include incorporation of other omics data and association of multiple omics data with agronomically important traits, dedicating to build IC4R into a valuable knowledgebase for both basic and translational researches in rice. PMID:26519466

  12. Information Commons for Rice (IC4R).

    PubMed

    Hao, Lili; Zhang, Huiyong; Zhang, Zhang; Hu, Songnian; Xue, Yu

    2016-01-01

    Rice is the most important staple food for a large part of the world's human population and also a key model organism for plant research. Here, we present Information Commons for Rice (IC4R; http://ic4r.org), a rice knowledgebase featuring adoption of an extensible and sustainable architecture that integrates multiple omics data through community-contributed modules. Each module is developed and maintained by different committed groups, deals with data collection, processing and visualization, and delivers data on-demand via web services. In the current version, IC4R incorporates a variety of rice data through multiple committed modules, including genome-wide expression profiles derived entirely from RNA-Seq data, resequencing-based genomic variations obtained from re-sequencing data of thousands of rice varieties, plant homologous genes covering multiple diverse plant species, post-translational modifications, rice-related literatures and gene annotations contributed by the rice research community. Unlike extant related databases, IC4R is designed for scalability and sustainability and thus also features collaborative integration of rice data and low costs for database update and maintenance. Future directions of IC4R include incorporation of other omics data and association of multiple omics data with agronomically important traits, dedicating to build IC4R into a valuable knowledgebase for both basic and translational researches in rice.

  13. 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.

  14. Production of Rice Seed-Based Allergy Vaccines.

    PubMed

    Takagi, Hidenori; Takaiwa, Fumio

    2016-01-01

    Recombinant hypoallergenic derivative is the next generation of tolerogen replacing the natural allergen extract to increase safety and efficacy. Japanese cedar pollinosis is the predominant seasonal allergy disease in Japan. A rice seed-based oral vaccine containing the recombinant hypoallergens derived from these allergens was developed. Efficacy of this rice-based allergy vaccine was evaluated by oral administration in animal models.

  15. Incorporation of plant residue-derived carbon into the microeukaryotic community in a rice field soil revealed by DNA stable-isotope probing.

    PubMed

    Murase, Jun; Shibata, Manami; Lee, Chol Gyu; Watanabe, Takeshi; Asakawa, Susumu; Kimura, Makoto

    2012-02-01

    The microbial decomposition of plant residue is a central part of the carbon cycle in soil ecosystems. Here, we explored the microeukaryotic community responsible for the uptake of plant residue carbon in a rice field soil through DNA-based stable-isotope probing (SIP) using dried rice callus labelled with (13) C as a model substrate. Molecular fingerprinting with PCR-DGGE showed that the total eukaryotic community in soil under drained (upland) conditions distinctly changed within 3 days after the callus was applied and stable thereafter. The predominant group of eukaryotes that incorporated callus carbon were fungi affiliated with the Mucoromycotina (Mortierella), Ascomycota (Galactomyces, Eleutherascus, Gibberella and Fusarium) and Zoopagomycotina (Syncephalis). 'Fungus-like' protists such as Pythium (stramenopiles) and Polymyxa (Cercozoa) were also involved in carbon flow from the callus. Some of these fungi and 'fungus-like' protists took up soil organic matter with time, which suggested a priming effect of the callus on the eukaryotic community. Our results demonstrated the usefulness of SIP not only to trace the carbon flow from fresh organic matter but also to study the effect of fresh organic matter on the utilization of soil organic matter by the microbial community.

  16. 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

  17. 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

  18. 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.

  19. Morphology based field rice density detection from rice transplant stage to rice jointing stage

    NASA Astrophysics Data System (ADS)

    Bai, X. D.; Cao, Z. G.; Wang, Y.; Ye, M. N.; Yu, Z. H.; Li, Y. N.

    2013-10-01

    Rice yield estimation is an important aspect in the agriculture research field. For the rice yield estimation, rice density is one of its useful factors. In this paper, we propose a new method to automatically detect the rice density from the rice transplanting stage to rice jointing stage. It devotes to detect rice planting density by image low-level features of the rice image sequences taken in the fields. Moreover, a rice jointing stage automatic detection method is proposed so as to terminate the rice density detection algorithm. The validities of the proposed rice density detection method and the rice jointing stage automatic detection method are proved in the experiment.

  20. 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.

  1. 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. PMID:25145278

  2. 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.

  3. 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

  4. 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.

  5. Immobilization of Cu(II), Pb(II) and Cd(II) by the addition of rice straw derived biochar to a simulated polluted Ultisol.

    PubMed

    Jiang, Jun; Xu, Ren-kou; Jiang, Tian-yu; Li, Zhuo

    2012-08-30

    To develop new remediation methods for acidic soils polluted by heavy metals, the chemical fractions of Cu(II), Pb(II) and Cd(II) in an Ultisol with and without rice straw biochar were compared and the effect of biochar incorporation on the mobility and bioavailability of these metals was investigated. In light of the decreasing zeta potential and increasing CEC, the incorporation of biochar made the negative soil surface charge more negative. Additionally, the soil pH increased markedly after the addition of biochar. These changes in soil properties were advantageous for heavy metal immobilization in the bulk soil. The acid soluble Cu(II) and Pb(II) decreased by 19.7-100.0% and 18.8-77.0%, respectively, as the amount of biochar added increased. The descending range of acid soluble Cd(II) was 5.6-14.1%, which was much lower than that of Cu(II) and Pb(II). When 5.0 mmol/kg of these heavy metals was added, the reducible Pb(II) for treatments containing 3% and 5% biochar was 2.0 and 3.0 times higher than that of samples without biochar, while the reducible Cu(II) increased by 61.6% and 132.6% for the corresponding treatments, respectively. When 3% and 5% biochar was added, the oxidizable portion of Pb(II) increased by 1.18 and 1.94 times, respectively, while the oxidizable portion of Cu(II) increased by 8.13 and 7.16 times, respectively, primarily due to the high adsorption affinity of functional groups of biochar to Cu(II). The residual heavy metal contents were low and changed little with the incorporation of biochar. PMID:22704774

  6. Rice Production and Marketing.

    ERIC Educational Resources Information Center

    Briers, Gary; Lee, Jasper S.

    This guide contains lesson plans for use in secondary programs of agricultural education in geographical areas in which rice is produced. Six units and 13 problem areas are organized into teaching plans that cover the broad nature of rice production. The six units are: (1) determining the importance and history of rice production; (2) determining…

  7. 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.

  8. 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.

  9. Extraction of light filth from rice flours, extruded rice products, and rice paper: collaborative study.

    PubMed

    Dent, R G

    1982-09-01

    Two new methods were developed for the extraction of rodent hairs and insect fragments from rice products: one for rice flour and one for extruded rice products and rice paper. A 100 g sample of rice flour was extracted with mineral oil-40% isopropanol, followed by a water phase as needed for additional cycles. For extruded rice products and rice paper, a 225 g sample of each was initially extracted as above, followed by a single extraction with mineral oil-20% isopropanol. Both methods used an acid hydrolysis pretreatment followed by wet sieving and a percolator extraction. Average rodent hair recoveries were 77.8% for rice flour and 82.2% for extruded rice products and rice paper. Average insect fragment recoveries were 89.6% for rice flour and 91.9% for extruded rice products and rice paper. Both methods were adopted official first action. PMID:7130079

  10. Origin of seed shattering in rice (Oryza sativa L.).

    PubMed

    Lin, Zhongwei; Griffith, Megan E; Li, Xianran; Zhu, Zuofeng; Tan, Lubing; Fu, Yongcai; Zhang, Wenxu; Wang, Xiangkun; Xie, Daoxin; Sun, Chuanqing

    2007-06-01

    A critical evolutionary step during rice domestication was the elimination of seed shattering. Wild rice disperses seeds freely at maturity to guarantee the propagation, while cultivated rice retains seeds on the straws to make easy harvest and decrease the loss of production. The molecular basis for this key event during rice domestication remains to be elucidated. Here we show that the seed shattering is controlled by a single dominant gene, Shattering1 (SHA1), encoding a member of the trihelix family of plant-specific transcription factors. SHA1 was mapped to a 5.5 kb genomic fragment, which contains a single open reading frame, using a backcrossed population between cultivated rice Teqing and an introgression line IL105 with the seed shattering habit derived from perennial common wild rice, YJCWR. The predicted amino acid sequence of SHA1 in YJCWR and IL105 is distinguished from that in eight domesticated rice cultivars, including Teqing, by only a single amino acid substitution (K79N) caused by a single nucleotide change (g237t). Further sequence verification on the g237t mutation site revealed that the g237t mutation is present in all the domesticated rice cultivars, including 92 indica and 108 japonica cultivars, but not in any of the 24 wild rice accessions examined. Our results demonstrate that the g237t mutation in SHA1 accounts for the elimination of seed shattering, and that all the domesticated rice cultivars harbor the mutant sha1 gene and therefore have lost the ability to shed their seeds at maturity. In addition, our data support the theory that the non-shattering trait selection during rice domestication occurred prior to the indica-japonica differentiation in rice evolutionary history. PMID:17216230

  11. 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

  12. Linkage Mapping of Stem Saccharification Digestibility in Rice.

    PubMed

    Liu, Bohan; Gómez, Leonardo D; 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

  13. Biology and epidemiology of rice viruses.

    PubMed

    Hibino, H

    1996-01-01

    The 15 known viruses that occur in rice are rice black-streaked dwarf, rice bunchy stunt, rice dwarf, rice gall dwarf, rice giallume, rice grassy stunt, rice hoja blanca, rice necrosis mosaic, rice ragged stunt, rice stripe necrosis, rice stripe, rice transitory yellowing, rice tungro bacilliform, rice tungro spherical, and rice yellow mottle viruses. This paper describes their geographical distribution, relation to vectors, infection cycles, field dispersal, and development, and lists recorded outbreaks of the viruses. Many rice viruses have become serious problems since rice cultivation has been intensified. Double-cropping of rice using improved, photo-insensitive cultivars of short growth duration has significantly influenced the incidence of these viruses. PMID:15012543

  14. 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.

  15. Methylated arsenic species in rice: geographical variation, origin, and uptake mechanisms.

    PubMed

    Zhao, Fang-Jie; Zhu, Yong-Guan; Meharg, Andrew A

    2013-05-01

    Rice is a major source of inorganic arsenic (iAs) in the human diet because paddy rice is efficient at accumulating As. Rice As speciation is dominated by iAs and dimethylarsinic acid (DMA). Here we review the global pattern in rice As speciation and the factors causing the variation. Rice produced in Asia shows a strong linear relationship between iAs and total As concentration with a slope of 0.78. Rice produced in Europe and the United States shows a more variable, but generally hyperbolic relationship with DMA being predominant in U.S. rice. Although there is significant genotypic variation in grain As speciation, the regional variations are primarily attributed to environmental factors. Emerging evidence also indicates that methylated As species in rice are derived from the soil, while rice plants lack the As methylation ability. Soil flooding and additions of organic matter increase microbial methylation of As, although the microbial community responsible for methylation is poorly understood. Compared with iAs, methylated As species are taken up by rice roots less efficiently but are transported to the grain much more efficiently, which may be an important factor responsible for the spikelet sterility disorder (straight-head disease) in rice. DMA is a weak carcinogen, but the level of ingestion from rice consumption is much lower than that of concern. Questions that require further investigations are identified. PMID:23521218

  16. 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

  17. 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...

  18. 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...

  19. Genome-Wide Patterns of Nucleotide Polymorphism in Domesticated Rice

    PubMed Central

    Hernandez, Ryan D; Boyko, Adam; Fledel-Alon, Adi; York, Thomas L; Polato, Nicholas R; Olsen, Kenneth M; Nielsen, Rasmus; McCouch, Susan R; Bustamante, Carlos D; Purugganan, Michael D

    2007-01-01

    Domesticated Asian rice (Oryza sativa) is one of the oldest domesticated crop species in the world, having fed more people than any other plant in human history. We report the patterns of DNA sequence variation in rice and its wild ancestor, O. rufipogon, across 111 randomly chosen gene fragments, and use these to infer the evolutionary dynamics that led to the origins of rice. There is a genome-wide excess of high-frequency derived single nucleotide polymorphisms (SNPs) in O. sativa varieties, a pattern that has not been reported for other crop species. We developed several alternative models to explain contemporary patterns of polymorphisms in rice, including a (i) selectively neutral population bottleneck model, (ii) bottleneck plus migration model, (iii) multiple selective sweeps model, and (iv) bottleneck plus selective sweeps model. We find that a simple bottleneck model, which has been the dominant demographic model for domesticated species, cannot explain the derived nucleotide polymorphism site frequency spectrum in rice. Instead, a bottleneck model that incorporates selective sweeps, or a more complex demographic model that includes subdivision and gene flow, are more plausible explanations for patterns of variation in domesticated rice varieties. If selective sweeps are indeed the explanation for the observed nucleotide data of domesticated rice, it suggests that strong selection can leave its imprint on genome-wide polymorphism patterns, contrary to expectations that selection results only in a local signature of variation. PMID:17907810

  20. Pica for Uncooked Basmati Rice in Two Women with Iron Deficiency and a Review of Ryzophagia.

    PubMed

    Barton, James C; Barton, J Clayborn; Bertoli, Luigi F

    2016-01-01

    Reports of pica for uncooked rice (ryzophagia) in adults who reside in European and derivative countries are uncommon. We evaluated and treated two nonpregnant women with pica for uncooked basmati rice. Both women reported fatigue, abdominal discomfort after consuming large quantities of uncooked basmati rice, and hair loss. One woman was from India and the other was from Pakistan. Both women were vegetarians. Basmati was the local rice in their native countries and their usual rice in the USA. Both women had tooth damage due to eating uncooked rice and iron deficiency with microcytic anemia attributed to menorrhagia and multiparity. Ryzophagia and other manifestations (except tooth damage) resolved after iron dextran therapy. We review and discuss other reports of ryzophagia associated with iron deficiency, pregnancy, race/ethnicity, geographic origin, and local traditions. We conclude that adults with ryzophagia in European and derivative countries are likely to be non-Europeans.

  1. Pica for Uncooked Basmati Rice in Two Women with Iron Deficiency and a Review of Ryzophagia

    PubMed Central

    Barton, James C.; Barton, J. Clayborn; Bertoli, Luigi F.

    2016-01-01

    Reports of pica for uncooked rice (ryzophagia) in adults who reside in European and derivative countries are uncommon. We evaluated and treated two nonpregnant women with pica for uncooked basmati rice. Both women reported fatigue, abdominal discomfort after consuming large quantities of uncooked basmati rice, and hair loss. One woman was from India and the other was from Pakistan. Both women were vegetarians. Basmati was the local rice in their native countries and their usual rice in the USA. Both women had tooth damage due to eating uncooked rice and iron deficiency with microcytic anemia attributed to menorrhagia and multiparity. Ryzophagia and other manifestations (except tooth damage) resolved after iron dextran therapy. We review and discuss other reports of ryzophagia associated with iron deficiency, pregnancy, race/ethnicity, geographic origin, and local traditions. We conclude that adults with ryzophagia in European and derivative countries are likely to be non-Europeans. PMID:26880930

  2. 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

  3. 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

  4. 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.

  5. A universal core genetic map for rice.

    PubMed

    Orjuela, Julie; Garavito, Andrea; Bouniol, Matthieu; Arbelaez, Juan David; Moreno, Laura; Kimball, Jennifer; Wilson, Gregory; Rami, Jean-François; Tohme, Joe; McCouch, Susan R; Lorieux, Mathias

    2010-02-01

    To facilitate the creation of easily comparable, low-resolution genetic maps with evenly distributed markers in rice (Oryza sativa L.), we conceived of and developed a Universal Core Genetic Map (UCGM). With this aim, we derived a set of 165 anchors, representing clusters of three microsatellite or simple sequence repeat (SSR) markers arranged into non-recombining groups. Each anchor consists of at least three, closely linked SSRs, located within a distance below the genetic resolution provided by common, segregating populations (<500 individuals). We chose anchors that were evenly distributed across the rice chromosomes, with spacing between 2 and 3.5 Mbp (except in the telomeric regions, where spacing was 1.5 Mbp). Anchor selection was performed using in silico tools and data: the O. sativa cv. Nipponbare rice genome sequence, the CHARM tool, information from the Gramene database and the OrygenesDB database. Sixteen AA-genome accessions of the Oryza genus were used to evaluate polymorphisms for the selected markers, including accessions from O. sativa, O. glaberrima, O. barthii, O. rufipogon, O. glumaepatula and O. meridionalis. High levels of polymorphism were found for the tested O. sativa x O. glaberrima or O. sativa x wild rice combinations. We developed Paddy Map, a simple database that is helpful in selecting optimal sets of polymorphic SSRs for any cross that involves the previously mentioned species. Validation of the UCGM was done by using it to develop three interspecific genetic maps and by comparing genetic SSR locations with their physical positions on the rice pseudomolecules. In this study, we demonstrate that the UCGM is a useful tool for the rice genetics and breeding community, especially in strategies based on interspecific hybridisation.

  6. [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.

  7. [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. PMID:26964338

  8. 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.

  9. 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.

  10. Identification of rice Os4BGlu13 as a β-glucosidase which hydrolyzes gibberellin A4 1-O-β-d-glucosyl ester, in addition to tuberonic acid glucoside and salicylic acid derivative glucosides.

    PubMed

    Hua, Yanling; Ekkhara, Watsamon; Sansenya, Sompong; Srisomsap, Chantragan; Roytrakul, Sittiruk; Saburi, Wataru; Takeda, Ryosuke; Matsuura, Hideyuki; Mori, Haruhide; Ketudat Cairns, James R

    2015-10-01

    Gibberellin 1-O-β-d-glucose ester hydrolysis activity has been detected in rice seedling extracts, but no enzyme responsible for this activity has ever been purified and identified. Therefore, gibberellin A4 glucosyl ester (GA4-GE) β-d-glucosidase activity was purified from ten-day rice seedling stems and leaves. The family 1 glycoside hydrolase Os4BGlu13 was identified in the final purification fraction. The Os4BGlu13 cDNA was amplified from rice seedlings and expressed as an N-terminal thioredoxin-tagged fusion protein in Escherichia coli. The purified recombinant Os4BGlu13 protein (rOs4BGlu13) had an optimum pH of 4.5, for hydrolysis of p-nitrophenyl β-d-glucopyranoside (pNPGlc), which was the best substrate identified, with a kcat/Km of 637 mM(-1) s(-1). rOs4BGlu13 hydrolyzed helicin best among natural glycosides tested (kcat/Km of 74.4 mM(-1) s(-1)). Os4BGlu13 was previously designated tuberonic acid glucoside (TAG) β-glucosidase (TAGG), and here the kcat/Km of rOsBGlu13 for TAG was 6.68 mM(-1) s(-1), while that for GA4-GE was 3.63 mM(-1) s(-1) and for salicylic acid glucoside (SAG) is 0.88 mM(-1) s(-1). rOs4BGlu13 also hydrolyzed oligosaccharides, with preference for short β-(1 → 3)-linked over β-(1 → 4)-linked glucooligosaccharides. The enzymatic data suggests that Os4BGlu13 may contribute to TAG, SAG, oligosaccharide and GA4-GE hydrolysis in the rice plant, although helicin or a similar compound may be its primary target.

  11. 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

  12. 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

  13. Nonhost resistance of rice to rust pathogens.

    PubMed

    Ayliffe, Michael; Devilla, Rosangela; Mago, Rohit; White, Rosemary; Talbot, Mark; Pryor, Anthony; Leung, Hei

    2011-10-01

    Rice is atypical in that it is an agricultural cereal that is immune to fungal rust diseases. This report demonstrates that several cereal rust species (Puccinia graminis f. sp tritici, P. triticina, P. striiformis, and P. hordei) can infect rice and produce all the infection structures necessary for plant colonization, including specialized feeding cells (haustoria). Some rust infection sites are remarkably large and many plant cells are colonized, suggesting that nutrient uptake occurs to support this growth. Rice responds with an active, nonhost resistance (NHR) response that prevents fungal sporulation and that involves callose deposition, production of reactive oxygen species, and, occasionally, cell death. Genetic variation for the efficacy of NHR to wheat stem rust and wheat leaf rust was observed. Unlike cereal rusts, the rust pathogen (Melampsora lini) of the dicotyledenous plant flax (Linum usitatissimum) rarely successfully infects rice due to an apparent inability to recognize host-derived signals. Morphologically abnormal infection structures are produced and appressorial-like structures often don't coincide with stomata. These data suggest that basic compatibility is an important determinate of nonhost infection outcomes of rust diseases on cereals, with cereal rusts being more capable of infecting a cereal nonhost species compared with rust species that are adapted for dicot hosts.

  14. 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.

  15. Rheological properties of rice-blackgram batter while replacing white rice with brown rice.

    PubMed

    Manickavasagan, Annamalai; Al-Marhubi, Insaaf Mohd; Dev, Satyanarayan

    2014-06-01

    Rice-blackgram batter is a raw material for many traditional convenience foods in Asia. Reformulation of traditional convenience food by replacing white rice with whole rice (brown rice) is a novel method to reduce the consumption of refined grain and increase the intake of whole grain in our diet. In this study, rheological properties of rice-blackgram batter was investigated while replacing white rice with brown rice at five levels (T1--0% replacement (control), T2--25% replacement, T3--50% replacement, T4--75% replacement, and T5--100% replacement). The shear stress versus shear rate plot indicates that the rice-blackgram batter exhibited non-Newtonian fluid behavior (shear thinning property) even after 100% replacement of white rice with brown rice. The rheological characteristics of rice-blackgram batters fitted reasonably well in Cassan (r2 = 0.8521-0.9856) and power law (r2 = 0.8042-0.9823) models. Brown rice replacement at all levels did not affect the flow behavior index, yield stress, consistency coefficient, and apparent viscosity of batter at 25 degrees C. However, at higher temperature, the viscosity was greater for T4 and T5 (no difference between them) than T1, T2, and T3 (no difference between them) batters. Further research is required to determine the sensory attributes and acceptability of the cooked products with brown rice-blended batter.

  16. Rheological properties of rice-blackgram batter while replacing white rice with brown rice.

    PubMed

    Manickavasagan, Annamalai; Al-Marhubi, Insaaf Mohd; Dev, Satyanarayan

    2014-06-01

    Rice-blackgram batter is a raw material for many traditional convenience foods in Asia. Reformulation of traditional convenience food by replacing white rice with whole rice (brown rice) is a novel method to reduce the consumption of refined grain and increase the intake of whole grain in our diet. In this study, rheological properties of rice-blackgram batter was investigated while replacing white rice with brown rice at five levels (T1--0% replacement (control), T2--25% replacement, T3--50% replacement, T4--75% replacement, and T5--100% replacement). The shear stress versus shear rate plot indicates that the rice-blackgram batter exhibited non-Newtonian fluid behavior (shear thinning property) even after 100% replacement of white rice with brown rice. The rheological characteristics of rice-blackgram batters fitted reasonably well in Cassan (r2 = 0.8521-0.9856) and power law (r2 = 0.8042-0.9823) models. Brown rice replacement at all levels did not affect the flow behavior index, yield stress, consistency coefficient, and apparent viscosity of batter at 25 degrees C. However, at higher temperature, the viscosity was greater for T4 and T5 (no difference between them) than T1, T2, and T3 (no difference between them) batters. Further research is required to determine the sensory attributes and acceptability of the cooked products with brown rice-blended batter. PMID:23751544

  17. Rice-bran products: phytonutrients with potential applications in preventive and clinical medicine.

    PubMed

    Jariwalla, R J

    2001-01-01

    This paper reviews phytonutrients from rice bran that have shown promising disease-preventing and health-related benefits in experimental research studies. Candidate products studied and under investigation include: inositol and related compounds, inositol hexaphosphate (IP6 or phytate), rice oil, ferulic acid, gamma-oryzanol, plant sterols, tocotrienols and RICEO, a new rice-bran-derived product. Diseases in which preventive and/or nutraceutical effects have been detected include: cancer, hyperlipidemia, fatty liver, hypercalciuria, kidney stones, and heart disease. In addition, rice-bran products may have potential applications as nutritional ingredients in the context of their utility in functional foods.

  18. 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

  19. Divergence between sympatric rice- and soybean-infecting populations of Rhizoctonia solani anastomosis group-1 IA.

    PubMed

    Bernardes de Assis, Joana; Peyer, Patrik; Rush, Milton C; Zala, Marcello; McDonald, Bruce A; Ceresini, Paulo C

    2008-12-01

    Rhizoctonia solani anastomosis group (AG)-1 IA causes soybean foliar blighting (aerial blight) and rice sheath blight diseases. Although taxonomically related within the AG-1 complex, sister populations of R. solani AG-1 IA infecting Poaceae (rice) and Fabaceae (soybean) are genetically distinct based on internal transcribed spacer rDNA. However, there is currently no information available regarding the extent of genetic differentiation and host specialization between rice- and soybean-infecting populations of R. solani AG-1 IA. We used 10 microsatellite loci to compare sympatric R. solani AG-1 IA populations infecting rice and soybeans in Louisiana and one allopatric rice-infecting population from Texas. None of the 154 multilocus genotypes found among the 223 isolates were shared among the three populations. Partitioning of genetic diversity showed significant differentiation among sympatric populations from different host species (Phi(ST) = 0.39 to 0.41). Historical migration patterns between sympatric rice- and soybean-infecting populations from Louisiana were asymmetrical. Rice- and soybean-derived isolates of R. solani AG-1 IA were able to infect both rice and soybean, but were significantly more aggressive on their host of origin, consistent with host specialization. The soybean-infecting population from Louisiana was more clonal than the sympatric rice-infecting population. Most of the loci in the soybean-infecting populations were out of Hardy-Weinberg equilibrium (HWE), but the sympatric rice-infecting population from Louisiana was mainly in HWE. All populations presented evidence for a mixed reproductive system.

  20. Modeling moisture movement in rice

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Rice is one of the leading food crops in the world. At harvest, rice normally has higher moisture content than the moisture content considered safe for its storage, which creates the necessity for a drying process before its storage. In addition to drying, moisture movement within the rice kernels a...

  1. Rice (Oryza sativa L.) containing the bar gene is compositionally equivalent to the nontransgenic counterpart.

    PubMed

    Oberdoerfer, Regina B; Shillito, Raymond D; de Beuckeleer, Marc; Mitten, Donna H

    2005-03-01

    This publication presents an approach to assessing compositional equivalence between grain derived from glufosinate-tolerant rice grain, genetic event LLRICE62, and its nontransgenic counterpart. Rice was grown in the same manner as is common for commercial production, using either conventional weed control practices or glufosinate-ammonium herbicide. A two-season multisite trial design provided a robust data set to evaluate environmental effects between the sites. Statistical comparisons to test for equivalence were made between glufosinate-tolerant rice and a conventional counterpart variety. The key nutrients, carbohydrates, protein, iron, calcium, thiamin, riboflavin, and niacin, for which rice can be the principal dietary source, were investigated. The data demonstrate that rice containing the genetic locus LLRICE62 has the same nutritional value as its nontransgenic counterpart, and most results for nutritional components fall within the range of values reported for rice commodities in commerce. PMID:15740024

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

    PubMed

    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

  3. 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.

  4. 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, ...

  5. 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

  6. Rice disease management under organic production

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Interest in organic rice production has increased because of the increased market demand for organic rice. Texas organic rice acreage has constantly increased over the last decade, reaching 32,000 acres in 2012. Texas is now the leading state in organic rice production in the U.S. Organic rice is p...

  7. 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...

  8. 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

  9. Exploring Japan through Rice.

    ERIC Educational Resources Information Center

    Wojtan, Linda S.

    1998-01-01

    Explores the role of rice in Japanese culture by presenting historical background and teaching activities in a variety of categories, such as language, sociology, history, and contemporary politics. Suggests teachers create cross-cultural comparisons; for example, the role of corn in the United States. Provides a list of teacher resources. (CMK)

  10. Transgenic strategies to confer resistance against viruses in rice plants

    PubMed Central

    Sasaya, Takahide; Nakazono-Nagaoka, Eiko; Saika, Hiroaki; Aoki, Hideyuki; Hiraguri, Akihiro; Netsu, Osamu; Uehara-Ichiki, Tamaki; Onuki, Masatoshi; Toki, Seichi; Saito, Koji; Yatou, Osamu

    2014-01-01

    Rice (Oryza sativa L.) is cultivated in more than 100 countries and supports nearly half of the world’s population. Developing efficient methods to control rice viruses is thus an urgent necessity because viruses cause serious losses in rice yield. Most rice viruses are transmitted by insect vectors, notably planthoppers and leafhoppers. Viruliferous insect vectors can disperse their viruses over relatively long distances, and eradication of the viruses is very difficult once they become widespread. Exploitation of natural genetic sources of resistance is one of the most effective approaches to protect crops from virus infection; however, only a few naturally occurring rice genes confer resistance against rice viruses. Many investigators are using genetic engineering of rice plants as a potential strategy to control viral diseases. Using viral genes to confer pathogen-derived resistance against crops is a well-established procedure, and the expression of various viral gene products has proved to be effective in preventing or reducing infection by various plant viruses since the 1990s. RNA interference (RNAi), also known as RNA silencing, is one of the most efficient methods to confer resistance against plant viruses on their respective crops. In this article, we review the recent progress, mainly conducted by our research group, in transgenic strategies to confer resistance against tenuiviruses and reoviruses in rice plants. Our findings also illustrate that not all RNAi constructs against viral RNAs are equally effective in preventing virus infection and that it is important to identify the viral “Achilles’ heel” gene to target for RNAi attack when engineering plants. PMID:24454308

  11. 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.

  12. 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.

  13. Extensive de Novo genomic variation in rice induced by introgression from wild rice (Zizania latifolia Griseb.).

    PubMed

    Wang, Yong-Ming; Dong, Zhen-Ying; Zhang, Zhong-Juan; Lin, Xiu-Yun; Shen, Ye; Zhou, Daowei; Liu, Bao

    2005-08-01

    To study the possible impact of alien introgression on a recipient plant genome, we examined >6000 unbiased genomic loci of three stable rice recombinant inbred lines (RILs) derived from intergeneric hybridization between rice (cv. Matsumae) and a wild relative (Zizania latifolia Griseb.) followed by successive selfing. Results from amplified fragment length polymorphism (AFLP) analysis showed that, whereas the introgressed Zizania DNA comprised <0.1% of the genome content in the RILs, extensive and genome-wide de novo variations occurred in up to 30% of the analyzed loci for all three lines studied. The AFLP-detected changes were validated by DNA gel-blot hybridization and/or sequence analysis of genomic loci corresponding to a subset of the differentiating AFLP fragments. A BLAST analysis revealed that the genomic variations occurred in diverse sequences, including protein-coding genes, transposable elements, and sequences of unknown functions. Pairwise sequence comparison of selected loci between a RIL and its rice parent showed that the variations represented either base substitutions or small insertion/deletions. Genome variations were detected in all 12 rice chromosomes, although their distribution was uneven both among and within chromosomes. Taken together, our results imply that even cryptic alien introgression can be highly mutagenic to a recipient plant genome. PMID:15937131

  14. Airborne observations of methane emissions from rice cultivation in the Sacramento Valley of California

    NASA Astrophysics Data System (ADS)

    Peischl, J.; Ryerson, T. B.; Holloway, J. S.; Trainer, M.; Andrews, A. E.; Atlas, E. L.; Blake, D. R.; Daube, B. C.; Dlugokencky, E. J.; Fischer, M. L.; Goldstein, A. H.; Guha, A.; Karl, T.; Kofler, J.; Kosciuch, E.; Misztal, P. K.; Perring, A. E.; Pollack, I. B.; Santoni, G. W.; Schwarz, J. P.; Spackman, J. R.; Wofsy, S. C.; Parrish, D. D.

    2012-12-01

    Airborne measurements of methane (CH4) and carbon dioxide (CO2) were taken over the rice growing region of California's Sacramento Valley in the late spring of 2010 and 2011. From these and ancillary measurements, we show that CH4 mixing ratios were higher in the planetary boundary layer above the Sacramento Valley during the rice growing season than they were before it, which we attribute to emissions from rice paddies. We derive daytime emission fluxes of CH4 between 0.6 and 2.0% of the CO2 taken up by photosynthesis on a per carbon, or mole to mole, basis. We also use a mixing model to determine an average CH4/CO2 flux ratio of -0.6% for one day early in the growing season of 2010. We conclude the CH4/CO2 flux ratio estimates from a single rice field in a previous study are representative of rice fields in the Sacramento Valley. If generally true, the California Air Resources Board (CARB) greenhouse gas inventory emission rate of 2.7 × 1010 g CH4/yr is approximately three times lower than the range of probable CH4 emissions (7.8-9.3 × 1010 g CH4/yr) from rice cultivation derived in this study. We attribute this difference to decreased burning of the residual rice crop since 1991, which leads to an increase in CH4 emissions from rice paddies in succeeding years, but which is not accounted for in the CARB inventory.

  15. Efficiency of carcinogenesis: is the mutator phenotype inevitable?

    PubMed

    Beckman, Robert A

    2010-10-01

    Cancer development requires multiple oncogenic mutations. Pathogenic mechanisms which accelerate this process may be favored carcinogenic pathways. Mutator mutations are mutations in genetic stability genes, and increase the mutation rate, speeding up the accumulation of oncogenic mutations. The mutator hypothesis states that mutator mutations play a critical role in carcinogenesis. Alternatively, tumors might arise by mutations occurring at the normal rate followed by selection and expansion of various premalignant lineages on the path to cancer. This alternative pathway is a significant argument against the mutator hypothesis. Mutator mutations may also lead to accumulation of deleterious mutations, which could lead to extinction of premalignant lineages before they become cancerous, another argument against the mutator hypothesis. Finally, the need for acquisition of a mutator mutation imposes an additional step on the carcinogenic process. Accordingly, the mutator hypothesis has been a seminal but controversial idea for several decades despite considerable experimental and theoretical work. To resolve this debate, the concept of efficiency has been introduced as a metric for comparing carcinogenic mechanisms, and a new theoretical approach of focused quantitative modeling has been applied. The results demonstrate that, given what is already known, the predominance of mutator mechanisms is likely inevitable, as they overwhelm less efficient non-mutator pathways to cancer.

  16. Efficiency of carcinogenesis: is the mutator phenotype inevitable?

    PubMed

    Beckman, Robert A

    2010-10-01

    Cancer development requires multiple oncogenic mutations. Pathogenic mechanisms which accelerate this process may be favored carcinogenic pathways. Mutator mutations are mutations in genetic stability genes, and increase the mutation rate, speeding up the accumulation of oncogenic mutations. The mutator hypothesis states that mutator mutations play a critical role in carcinogenesis. Alternatively, tumors might arise by mutations occurring at the normal rate followed by selection and expansion of various premalignant lineages on the path to cancer. This alternative pathway is a significant argument against the mutator hypothesis. Mutator mutations may also lead to accumulation of deleterious mutations, which could lead to extinction of premalignant lineages before they become cancerous, another argument against the mutator hypothesis. Finally, the need for acquisition of a mutator mutation imposes an additional step on the carcinogenic process. Accordingly, the mutator hypothesis has been a seminal but controversial idea for several decades despite considerable experimental and theoretical work. To resolve this debate, the concept of efficiency has been introduced as a metric for comparing carcinogenic mechanisms, and a new theoretical approach of focused quantitative modeling has been applied. The results demonstrate that, given what is already known, the predominance of mutator mechanisms is likely inevitable, as they overwhelm less efficient non-mutator pathways to cancer. PMID:20934514

  17. A modified ferrous oxidation-xylenol orange assay for lipoxygenase activity in rice grains.

    PubMed

    Timabud, Tarinee; Sanitchon, Jirawat; Pongdontri, Paweena

    2013-12-01

    Ferrous oxidation-xylenol orange assay reagent was reformulated by using spectral analysis of ferric-xylenol orange complex to detect low concentrations of lipoxygenase rice grain products. Reducing the levels of ferrous sulphate and xylenol orange in the FOX reagent enabled the detection of low concentrations of hydroperoxy fatty acid derived from lipoxygenase activity in the range of 0.1-1.5 μM. Protein, substrate and time courses of the modified FOX assay were studied to determine lipoxygenase activity in rice grain. The assay was also applicable as a high throughput technique for comparisons of lipoxygenase activity from various rice varieties. This has important implications for rapid screening for low-lipoxygenase containing rice cultivars in rice breeding program and grain quality during storage.

  18. 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.

  19. 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...

  20. 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...) GRAIN INSPECTION, PACKERS AND STOCKYARD ADMINISTRATION (FEDERAL GRAIN INSPECTION SERVICE), DEPARTMENT OF... 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, 2012 CFR

    2012-01-01

    ... Grain Milled Rice, Medium Grain Milled Rice, Short Grain Milled Rice, and Mixed Milled Rice. (See also Â...) GRAIN INSPECTION, PACKERS AND STOCKYARD ADMINISTRATION (FEDERAL GRAIN INSPECTION SERVICE), DEPARTMENT OF... 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, 2013 CFR

    2013-01-01

    ... Grain Milled Rice, Medium Grain Milled Rice, Short Grain Milled Rice, and Mixed Milled Rice. (See also Â...) GRAIN INSPECTION, PACKERS AND STOCKYARD ADMINISTRATION (FEDERAL GRAIN INSPECTION SERVICE), DEPARTMENT OF... classes Long Grain Milled Rice, Medium Grain Milled Rice, Short Grain Milled Rice, and Mixed Milled...

  3. Expressing ScACR3 in rice enhanced arsenite efflux and reduced arsenic accumulation in rice grains.

    PubMed

    Duan, Guilan; Kamiya, Takehiro; Ishikawa, Satoru; Arao, Tomohito; Fujiwara, Toru

    2012-01-01

    Arsenic (As) accumulation in rice grain poses a serious health risk to populations with high rice consumption. Extrusion of arsenite [As(III)] by ScAcr3p is the major arsenic detoxification mechanism in Saccharomyces cerevisiae. However, ScAcr3p homolog is absent in higher plants, including rice. In this study, ScACR3 was introduced into rice and expressed under the control of the Cauliflower mosaic virus (CaMV) 35S promoter. In the transgenic lines, As concentrations in shoots and roots were about 30% lower than in the wild type, while the As translocation factors were similar between transgenic lines and the wild type. The roots of transgenic plants exhibited significantly higher As efflux activities than those of the wild type. Within 24 h exposure to 10 μM arsenate [As(V)], roots of ScACR3-expressing plants extruded 80% of absorbed As(V) to the external solution as As(III), while roots of the wild type extruded 50% of absorbed As(V). Additionally, by exposing the As-containing rice plants to an As-lacking solution for 24 h, about 30% of the total As derived from pre-treatment was extruded to the external solution by ScACR3-expressing plants, while about 15% of As was extruded by wild-type plants. Importantly, ScACR3 expression significantly reduced As accumulation in rice straws and grains. When grown in flooded soil irrigated with As(III)-containing water, the As concentration in husk and brown rice of the transgenic lines was reduced by 30 and 20%, respectively, compared with the wild type. This study reports a potential strategy to reduce As accumulation in the food chain by expressing heterologous genes in crops. PMID:22107880

  4. 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...

  5. Identification of candidate genes related to rice grain weight under high-temperature stress.

    PubMed

    Liao, Jiang-Lin; Zhang, Hong-Yu; Liu, Jun-Bao; Zhong, Ping-An; Huang, Ying-Jin

    2012-11-01

    The rise of global warming presents a problem for all living organisms, including rice and other staple plants. High temperatures impair rice grain weight by inhibiting the filling of the caryopses during the milky stage. The molecular mechanism behind this process, however, is poorly understood. Identifying candidate genes involved in responses to high-temperature stress may provide a basis for the improvement of heat tolerance in rice. Using paired, genetically similar heat-tolerant and heat-sensitive rice lines as plant materials, cDNA-AFLP analysis revealed a total of 54 transcript derived fragments (TDFs), mainly from the heat-tolerant lines. This clearly indicated variations in gene expression between the two rice lines. BLAST results showed that 28 of the 54 TDFs were homologous sequences. These homologous genes were found to encode proteins involved in signal transduction, oxidation, transcriptional regulation, transport, and metabolism. The functions and differential expression patterns of some important genes are further discussed. High temperature stress may trigger a wide range of changes in gene expression in rice caryopses, in turn affecting functions ranging from signal transduction to cellular metabolism. Forty-five of the 54 TDFs were mapped to rice chromosomes. The genes identified in the present study would make good candidates for further study into the molecular mechanisms underlying rice adaptation to high-temperature stress.

  6. 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.

  7. 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.

  8. Polyphyletic origin of cultivated rice: based on the interspersion pattern of SINEs.

    PubMed

    Cheng, Chaoyang; Motohashi, Reiko; Tsuchimoto, Suguru; Fukuta, Yoshimichi; Ohtsubo, Hisako; Ohtsubo, Eiichi

    2003-01-01

    The wild rice species Oryza rufipogon with wide intraspecific variation is thought to be the progenitor of the cultivated rice species Oryza sativa with two ecotypes, japonica and indica. To determine the origin of cultivated rice, subfamily members of the rice retroposon p-SINE1, which show insertion polymorphism in the O. sativa -O. rufipogon population, were identified and used to "bar code" each of 101 cultivated and wild rice strains based on the presence or absence of the p-SINE1 members at the respective loci. A phylogenetic tree constructed based on the bar codes given to the rice strains showed that O. sativa strains were classified into two groups corresponding to japonica and indica, whereas O. rufipogon strains were in four groups, in which annual O. rufipogon strains formed a single group, differing from the perennial O. rufipogon strains of the other three groups. Japonica strains were closely related to the O. rufipogon perennial strains of one group, and the indica strains were closely related to the O. rufipogon annual strains, indicating that O. sativa has been derived polyphyletically from O. rufipogon. The subfamily members of p-SINE1 constitute a powerful tool for studying the classification and relationship of rice strains, even when one has limited knowledge of morphology, taxonomy, physiology, and biochemistry of rice strains. PMID:12519908

  9. Red yeast rice for dysipidemia.

    PubMed

    Shamim, Shariq; Al Badarin, Firas J; DiNicolantonio, James J; Lavie, Carl J; O'Keefe, James H

    2013-01-01

    Red yeast rice is an ancient Chinese food product that contains monacolins, chemical substances that are similar to statins in their mechanisms of action and lipid lowering properties. Several studies have found red yeast rice to be moderately effective at improving the lipid profile, particularly for lowering the low-density lipoprotein cholesterol levels. One large randomized controlled study from China found that red yeast rice significantly improved risk of major adverse cardiovascular events and overall survival in patients following myocardial infarction. Thus, red yeast rice is a potentially useful over-the-counter cholesterol-lowering agent. However, many red yeast rice formulations are non-standardized and unregulated food supplements, and there is a need for further research and regulation of production.

  10. 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

  11. 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

    2016-01-01

    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

  12. 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.

  13. On The Phase Crossing Statistics and Random FM Noise in Generalized Rice Fading Channels

    NASA Astrophysics Data System (ADS)

    Petković, Marko D.; Stefanović, Mihajlo Č.

    2012-01-01

    In this paper we consider phase process second order statistics of generalized Rice (Beckmann) multipath fading channel. Closed-form expression for JPDF of phase and random FM noise is derived. Furthermore expressions for the PDF and CDF of random FM noise are obtained. The level-crossing rate of the phase process is then obtained for any phase crossing level. Obtained expressions reduces to known ones for Hoyt, Rice and Rayleigh fading channels, since these are the special cases of generalized Rice fading channel. Moreover, derived analytical expressions are compared with results obtained by computer simulation where excellent agreement is achieved. Presented results can be applied for analyzing the statistics of FM spikes in the case of data transmission over generalized Rice fading channels.

  14. 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

  15. 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; Holton, Nicolas; Nekrasov, Vladimir; Ruan, Deling; Canlas, Patrick E.; Daudi, Arsalan; Petzold, Christopher J.; Singan, Vasanth R.; et al

    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

  16. 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

  17. 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. PMID:27109244

  18. 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)....

  19. 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). ...

  20. 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.

  1. Rice Reoviruses in Insect Vectors.

    PubMed

    Wei, Taiyun; Li, Yi

    2016-08-01

    Rice reoviruses, transmitted by leafhopper or planthopper vectors in a persistent propagative manner, seriously threaten the stability of rice production in Asia. Understanding the mechanisms that enable viral transmission by insect vectors is a key to controlling these viral diseases. This review describes current understanding of replication cycles of rice reoviruses in vector cell lines, transmission barriers, and molecular determinants of vector competence and persistent infection. Despite recent breakthroughs, such as the discoveries of actin-based tubule motility exploited by viruses to overcome transmission barriers and mutually beneficial relationships between viruses and bacterial symbionts, there are still many gaps in our knowledge of transmission mechanisms. Advances in genome sequencing, reverse genetics systems, and molecular technologies will help to address these problems. Investigating the multiple interaction systems among the virus, insect vector, insect symbiont, and plant during natural infection in the field is a central topic for future research on rice reoviruses. PMID:27296147

  2. 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...

  3. Storage stability of flour-blasted brown rice

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Brown rice was blasted with rice flour rather than sand in a sand blaster to make microscopic nicks and cuts so that water can easily penetrate into the brown rice endosperm and cook the rice in a shorter time. The flour-blasted American Basmati brown rice, long grain brown rice, and parboiled long...

  4. Expansins in deepwater rice internodes

    SciTech Connect

    Cho, Hyung-Taeg; Kende, H.

    1997-04-01

    Cell walls of deepwater rice internodes undergo long-term extension (creep) when placed under tension in acidic buffers. This is indicative of the action of the cell wall-loosening protein expansion. Wall extension had a pH optimum of around 4.0 and was abolished by boiling. Acid-induced extension of boiled cell walls could be reconstituted by addition of salt-extracted rice or cucumber cell wall proteins. Cucumber expansion antibody recognized a single protein band of 24.5-kD apparent molecular mass on immunoblots of rice cell wall proteins. Expansions were partially purified by concanavalin A affinity chromatography and sulfopropyl (SP) cation-exchange chromatography. The latter yielded two peaks with extension activity (SP20 and SP29), and immunoblot analysis showed that both of these active fractions contained expansion of 24.5-kD molecular mass. The N-terminal amino acid sequence of SP20 expansion is identical to that deduced from the rice expansion cDNA Os-EXP1. The N-terminal amino acid sequence of SP29 expansion matches that deduced from the rice expansion cDNA Os-EXP2 in six of eight amino acids. Our results show that two expansions occur in the cell walls of rice internodes and that they may mediate acid-induced wall extension.

  5. 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.'

  6. 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.'

  7. 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...

  8. 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

  9. Natural rice rhizospheric microbes suppress rice blast infections

    PubMed Central

    2014-01-01

    Background The natural interactions between plant roots and their rhizospheric microbiome are vital to plant fitness, modulating both growth promotion and disease suppression. In rice (Oryza sativa), a globally important food crop, as much as 30% of yields are lost due to blast disease caused by fungal pathogen Magnaporthe oryzae. Capitalizing on the abilities of naturally occurring rice soil bacteria to reduce M. oryzae infections could provide a sustainable solution to reduce the amount of crops lost to blast disease. Results Naturally occurring root-associated rhizospheric bacteria were isolated from California field grown rice plants (M-104), eleven of which were taxonomically identified by16S rRNA gene sequencing and fatty acid methyl ester (FAME) analysis. Bacterial isolates were tested for biocontrol activity against the devastating foliar rice fungal pathogen, M. oryzae pathovar 70–15. In vitro, a Pseudomonas isolate, EA105, displayed antibiosis through reducing appressoria formation by nearly 90% as well as directly inhibiting fungal growth by 76%. Although hydrogen cyanide (HCN) is a volatile commonly produced by biocontrol pseudomonads, the activity of EA105 seems to be independent of its HCN production. During in planta experiments, EA105 reduced the number of blast lesions formed by 33% and Pantoea agglomerans isolate, EA106 by 46%. Our data also show both EA105 and EA106 trigger jasmonic acid (JA) and ethylene (ET) dependent induced systemic resistance (ISR) response in rice. Conclusions Out of 11 bacteria isolated from rice soil, pseudomonad EA105 most effectively inhibited the growth and appressoria formation of M. oryzae through a mechanism that is independent of cyanide production. In addition to direct antagonism, EA105 also appears to trigger ISR in rice plants through a mechanism that is dependent on JA and ET signaling, ultimately resulting in fewer blast lesions. The application of native bacteria as biocontrol agents in combination with

  10. 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

  11. 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 ...

  12. Gene limiting cadmium accumulation in rice.

    PubMed

    Ueno, Daisei; Yamaji, Naoki; Kono, Izumi; Huang, Chao Feng; Ando, Tsuyu; Yano, Masahiro; Ma, Jian Feng

    2010-09-21

    Intake of toxic cadmium (Cd) from rice caused Itai-itai disease in the past and it is still a threat for human health. Therefore, control of the accumulation of Cd from soil is an important food-safety issue, but the molecular mechanism for the control is unknown. Herein, we report a gene (OsHMA3) responsible for low Cd accumulation in rice that was isolated from a mapping population derived from a cross between a high and low Cd-accumulating cultivar. The gene encodes a transporter belonging to the P(1B)-type ATPase family, but shares low similarity with other members. Heterologous expression in yeast showed that the transporter from the low-Cd cultivar is functional, but the transporter from the high-Cd cultivar had lost its function, probably because of the single amino acid mutation. The transporter is mainly expressed in the tonoplast of root cells at a similar level in both the low and high Cd-accumulating cultivars. Overexpression of the functional gene from the low Cd-accumulating cultivar selectively decreased accumulation of Cd, but not other micronutrients in the grain. Our results indicated that OsHMA3 from the low Cd-accumulating cultivar limits translocation of Cd from the roots to the above-ground tissues by selectively sequestrating Cd into the root vacuoles.

  13. 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.

  14. [Hyperspectral remote sensing diagnosis models of rice plant nitrogen nutritional status].

    PubMed

    Tan, Chang-Wei; Zhou, Qing-Bo; Qi, La; Zhuang, Heng-Yang

    2008-06-01

    The correlations of rice plant nitrogen content with raw hyperspectral reflectance, first derivative hyperspectral reflectance, and hyperspectral characteristic parameters were analyzed, and the hyperspectral remote sensing diagnosis models of rice plant nitrogen nutritional status with these remote sensing parameters as independent variables were constructed and validated. The results indicated that the nitrogen content in rice plant organs had a variation trend of stem < sheath < spike < leaf. The spectral reflectance at visible light bands was leaf < spike < sheath < stem, but that at near-infrared bands was in adverse. The linear and exponential models with the raw hyperspectral reflectance at 796.7 nm and the first derivative hyperspectral reflectance at 738.4 nm as independent variables could better diagnose rice plant nitrogen nutritional status, with the decisive coefficients (R2) being 0.7996 and 0.8606, respectively; while the model with vegetation index (SDr - SDb) / (SDr + SDb) as independent variable, i. e., y = 365.871 + 639.323 ((SDr - SDb) / (SDr + SDb)), was most fit rice plant nitrogen content, with R2 = 0.8755, RMSE = 0.2372 and relative error = 11.36%, being able to quantitatively diagnose the nitrogen nutritional status of rice.

  15. Transient Gene Expression in Intact and Organized Rice Tissues.

    PubMed Central

    Dekeyser, RA; Claes, B; De Rycke, R; Habets, ME; Van Montagu, MC; Caplan, AB

    1990-01-01

    Regulated gene expression of chimeric genes has been studied extensively in electroporated protoplasts. The applicability of these assays is limited, however, because protoplasts are not always physiologically identical to the cells from which they are derived. We have developed a procedure to electroporate DNA into intact and organized leaf structures of rice. Optimization of the new gene delivery system mainly involved eliminating explant-released nucleases, prolonging the DNA/explant incubation time, and expanding the pulse time. Using a [beta]-glucuronidase gene under the control of constitutive promoters, we demonstrated that all cell types within a leaf base were susceptible to electroporation-mediated DNA uptake. Although the technique was initially developed for leaf bases of young etiolated rice seedlings, we proved that it was equally applicable both to other monocotyledons, including wheat, maize, and barley, and to other explants, such as etiolated and green sheath and lamina tissues from rice. Transient gene expression assays with electroporated leaf bases showed that the promoter from a pea light-harvesting chlorophyll a/b-binding protein gene displayed both light- and chloroplast-dependent expression in rice, and that the promoter from the Arabidopsis S-adenosylmethionine synthetase gene was, as in transgenic Arabidopsis and tobacco, preferentially expressed in cells surrounding the vascular bundles. PMID:12354966

  16. 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. PMID:26466747

  17. 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.

  18. 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

  19. Can the co-cultivation of rice and fish help sustain rice production?

    PubMed

    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

  20. 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.

  1. 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.

  2. 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...

  3. 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 ...

  4. Divergence between sympatric rice- and maize-infecting populations of Rhizoctonia solani AG-1 IA from Latin America.

    PubMed

    González-Vera, A D; Bernardes-de-Assis, J; Zala, M; McDonald, B A; Correa-Victoria, F; Graterol-Matute, E J; Ceresini, P C

    2010-02-01

    ABSTRACT The basidiomycetous fungus Rhizoctonia solani anastomosis group (AG)-1 IA is a major pathogen in Latin America causing sheath blight (SB) of rice. Particularly in Venezuela, the fungus also causes banded leaf and sheath blight (BLSB) on maize, which is considered an emerging disease problem where maize replaced traditional rice-cropping areas or is now planted in adjacent fields. Our goals in this study were to elucidate (i) the effects of host specialization on gene flow between sympatric and allopatric rice and maize-infecting fungal populations and (ii) the reproductive mode of the fungus, looking for evidence of recombination. In total, 375 isolates of R. solani AG1 IA sampled from three sympatric rice and maize fields in Venezuela (Portuguesa State) and two allopatric rice fields from Colombia (Meta State) and Panama (Chiriquí State) were genotyped using 10 microsatellite loci. Allopatric populations from Venezuela, Colombia, and Panama were significantly differentiated (Phi(ST) of 0.16 to 0.34). Partitioning of the genetic diversity indicated differentiation between sympatric populations from different host species, with 17% of the total genetic variation distributed between hosts while only 3 to 6% was distributed geographically among the sympatric Venezuelan fields. We detected symmetrical historical migration between the rice- and the maize-infecting populations from Venezuela. Rice- and maize-derived isolates were able to infect both rice and maize but were more aggressive on their original hosts, consistent with host specialization. Because the maize- and rice-infecting populations are still cross-pathogenic, we postulate that the genetic differentiation was relatively recent and mediated via a host shift. An isolation with migration analysis indicated that the maize-infecting population diverged from the rice-infecting population between 40 and 240 years ago. Our findings also suggest that maize-infecting populations have a mainly recombining

  5. 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. PMID:27176759

  6. 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.

  7. 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.

  8. 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. PMID:24345551

  9. 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.

  10. Combined mass spectrometry-based metabolite profiling of different pigmented rice (Oryza sativa L.) seeds and correlation with antioxidant activities.

    PubMed

    Kim, Ga Ryun; Jung, Eun Sung; Lee, Sarah; Lim, Sun-Hyung; Ha, Sun-Hwa; Lee, Choong Hwan

    2014-09-29

    Nine varieties of pigmented rice (Oryza sativa L.) seeds that were black, red, or white were used to perform metabolite profiling by using ultra-performance liquid chromatography-quadrupole-time-of-flight mass spectrometry (UPLC-Q-TOF-MS) and gas chromatography (GC) TOF-MS, to measure antioxidant activities. Clear grouping patterns determined by the color of the rice seeds were identified in principle component analysis (PCA) derived from UPLC-Q-TOF-MS. Cyanidin-3-glucoside, peonidin-3-glucoside, proanthocyanidin dimer, proanthocyanidin trimer, apigenin-6-C-glugosyl-8-C-arabiboside, tricin-O-rhamnoside-O-hexoside, and lipids were identified as significantly different secondary metabolites. In PCA score plots derived from GC-TOF-MS, Jakwangdo (JKD) and Ilpoom (IP) species were discriminated from the other rice seeds by PC1 and PC2. Valine, phenylalanine, adenosine, pyruvate, nicotinic acid, succinic acid, maleic acid, malonic acid, gluconic acid, xylose, fructose, glucose, maltose, and myo-inositol were significantly different primary metabolites in JKD species, while GABA, asparagine, xylitol, and sucrose were significantly distributed in IP species. Analysis of antioxidant activities revealed that black and red rice seeds had higher activity than white rice seeds. Cyanidin-3-glucoside, peonidin-3-glucoside, proanthocyanidin dimers, proanthocyanidin trimers, and catechin were highly correlated with antioxidant activities, and were more plentiful in black and red rice seeds. These results are expected to provide valuable information that could help improve and develop rice-breeding techniques.

  11. 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.

  12. 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. PMID:26974480

  13. 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.

  14. 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...

  15. 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...

  16. 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.

  17. Illumina-based analysis of core actinobacteriome in roots, stems, and grains of rice.

    PubMed

    Wang, Wenfeng; Zhai, Yanyan; Cao, Lixiang; Tan, Hongming; Zhang, Renduo

    2016-09-01

    Seed-borne microbiota can transmit vertically from generation to generation and be a favour mutualism between the endosymbionts and hosts. The aim of this study was to investigate the rice-associated actinobacterial taxa in roots, stems, and grains and explore vertically transmitted core actinobacteriome of rice plants. Illumina sequencing analyses of samples of rice grains, stems, and roots showed that the roots contained the most diverse actinobacteria among the tissues. The grains contained 78 actinobacterial operational taxonomic units (OTUs), among which 44 were shared with those in the stems, 30 shared with those in the roots. The coexisted OTUs in the three types of samples mainly belong to genera of Pseudonocardia, Dietzia, Nocardioides, Streptomyces, Mycobacterium, Corynebacterium, Citricoccus, Salinibacterium, and Agrococcus, and other unclassified taxa. The dominant actinobacterial genera Pseudonocardia and Dietzia in the stems and roots were still detected in relatively high abundance in the grains. The Streptomyces isolated from surface sterilized grains could improve nitrogen use efficiency of rice seedlings and the resistance to rice blast fungus. The results suggested that the rice grains contained diverse actinobacterial taxa deriving from stems and roots and showed intimate correlation with the host plants.

  18. 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.

  19. Illumina-based analysis of core actinobacteriome in roots, stems, and grains of rice.

    PubMed

    Wang, Wenfeng; Zhai, Yanyan; Cao, Lixiang; Tan, Hongming; Zhang, Renduo

    2016-09-01

    Seed-borne microbiota can transmit vertically from generation to generation and be a favour mutualism between the endosymbionts and hosts. The aim of this study was to investigate the rice-associated actinobacterial taxa in roots, stems, and grains and explore vertically transmitted core actinobacteriome of rice plants. Illumina sequencing analyses of samples of rice grains, stems, and roots showed that the roots contained the most diverse actinobacteria among the tissues. The grains contained 78 actinobacterial operational taxonomic units (OTUs), among which 44 were shared with those in the stems, 30 shared with those in the roots. The coexisted OTUs in the three types of samples mainly belong to genera of Pseudonocardia, Dietzia, Nocardioides, Streptomyces, Mycobacterium, Corynebacterium, Citricoccus, Salinibacterium, and Agrococcus, and other unclassified taxa. The dominant actinobacterial genera Pseudonocardia and Dietzia in the stems and roots were still detected in relatively high abundance in the grains. The Streptomyces isolated from surface sterilized grains could improve nitrogen use efficiency of rice seedlings and the resistance to rice blast fungus. The results suggested that the rice grains contained diverse actinobacterial taxa deriving from stems and roots and showed intimate correlation with the host plants. PMID:27393994

  20. Metabolomic Profiles of Aspergillus oryzae and Bacillus amyloliquefaciens During Rice Koji Fermentation.

    PubMed

    Lee, Da Eun; Lee, Sunmin; Jang, Eun Seok; Shin, Hye Won; Moon, Byoung Seok; Lee, Choong Hwan

    2016-01-01

    Rice koji, used early in the manufacturing process for many fermented foods, produces diverse metabolites and enzymes during fermentation. Using gas chromatography time-of-flight mass spectrometry (GC-TOF-MS), ultrahigh-performance liquid chromatography linear trap quadrupole ion trap tandem mass spectrometry (UHPLC-LTQ-IT-MS/MS), and multivariate analysis we generated the metabolite profiles of rice koji produced by fermentation with Aspergillus oryzae (RK_AO) or Bacillus amyloliquefaciens (RK_BA) for different durations. Two principal components of the metabolomic data distinguished the rice koji samples according to their fermenter species and fermentation time. Several enzymes secreted by the fermenter species, including α-amylase, protease, and β-glucosidase, were assayed to identify differences in expression levels. This approach revealed that carbohydrate metabolism, serine-derived amino acids, and fatty acids were associated with rice koji fermentation by A. oryzae, whereas aromatic and branched chain amino acids, flavonoids, and lysophospholipids were more typical in rice koji fermentation by B. amyloliquefaciens. Antioxidant activity was significantly higher for RK_BA than for RK_AO, as were the abundances of flavonoids, including tricin, tricin glycosides, apigenin glycosides, and chrysoeriol glycosides. In summary, we have used MS-based metabolomics and enzyme activity assays to evaluate the effects of using different microbial species and fermentation times on the nutritional profile of rice koji. PMID:27314317

  1. The impact of herbicide-resistant rice technology on phenotypic diversity and population structure of United States weedy rice

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The use of imazethapyr herbicide-resistant (HR) Clearfield® rice (Oryza sativa L.) to control weedy rice has increased in the past 12 years to comprise about 60% of rice acreage in Arkansas, where 43% of rice in the USA was planted in 2013. To assess the impact of HR cultivated rice on herbicide res...

  2. 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…

  3. 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. PMID:26396286

  4. 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.

  5. Identification and mapping of expressed genes, simple sequence repeats and transposable elements in centromeric regions of rice chromosomes.

    PubMed

    Mizuno, Hiroshi; Ito, Kazue; Wu, Jianzhong; Tanaka, Tsuyoshi; Kanamori, Hiroyuki; Katayose, Yuichi; Sasaki, Takuji; Matsumoto, Takashi

    2006-12-31

    The genomic sequences derived from rice centromeric regions were analyzed to facilitate the comprehensive understanding of the rice genome. A rice centromere-specific satellite sequence, RCS2/TrsD/CentO, was used to screen P1-derived artificial chromosome (PAC) and bacterial artificial chromosome (BAC) genomic libraries derived from Oryza sativa L. ssp. japonica cultivar Nipponbare. Physical maps of the centromeric regions were constructed by DNA fingerprinting methods and the aligned clones were analyzed by end sequencing. BLAST analysis revealed the composition of genes, centromeric satellites and other repetitive elements, such as RIRE7/CRR, RIRE8, Squiq, Anaconda, CACTA and miniature inverted-repeat transposable elements. Fiber-fluorescent in situ hybridization analysis also indicated the presence of distinct clusters of RCS2/TrsD/CentO satellite interspersed with other elements, instead of a long homogeneous region. Several expressed genes, sequences representative of ancestral organellar insertions, relatively long simple sequence repeats (SSRs), and sequences corresponding to 5S and 45S ribosomal RNA genes were also identified. Thirty-one gene sequences showed high-similarity to rice full-length cDNA sequences that had not been matched to the published rice genome sequence in silico. These results suggest the presence of expressed genes within and around the clusters of RCS2/TrsD/CentO satellites in unsequenced centromeric regions of the rice chromosomes.

  6. 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

  7. Genome-wide response to selection and genetic basis of cold tolerance in rice (Oryza sativa L.)

    PubMed Central

    2014-01-01

    Background Cold stress is an important factor limiting rice yield in many areas of high latitude and altitude. Considerable efforts have been taken to genetically dissect cold tolerance (CT) in rice using DNA markers. Because of possible epistasis and gene × environment interactions associated with identified quantitative trait loci, the results of these genetic studies have unfortunately not been directly applicable to marker-assisted selection for improved rice CT. In this study, we demonstrated the utility of a selective introgression strategy for simultaneous improvement and genetic dissection of rice seedling CT. Results A set of japonica introgression lines (ILs) with significantly improved seedling CT were developed from four backcross populations based on two rounds of selection. Genetic characterization of these cold-tolerant ILs revealed two important aspects of genome-wide responses to strong phenotypic selection for rice CT: (1) significant over-introgression of donor alleles at 57 loci in 29 functional genetic units (FGUs) across the rice genome and (2) pronounced non-random associations between or among alleles at many unlinked CT loci. Linkage disequilibrium analyses of the detected CT loci allowed us to construct putative genetic networks (multi-locus structures) underlying the seedling CT of rice. Each network consisted of a single FGU, with high introgression as the putative regulator plus two to three groups of highly associated downstream FGUs. A bioinformatics search of rice genomic regions harboring these putative regulators identified a small set of candidate regulatory genes that are known to be involved in plant stress response. Conclusions Our results suggest that CT in rice is controlled by multiple pathways. Genetic complementarity between parental-derived functional alleles at many loci within a given pathway provides an appropriate explanation for the commonly observed hidden diversity and transgressive segregation of CT and other

  8. 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.

  9. 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

  10. 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.

  11. 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.

  12. [Major domestication traits in Asian rice].

    PubMed

    Ou, Shu-Jun; Wang, Hong-Ru; Chu, Cheng-Cai

    2012-11-01

    Rice (Oryza sativa L.) is an excellent model plant in elucidation of cereal domestication. Loss of seed shattering, weakened dormancy, and changes in plant architecture were thought to be three key events in the rice domestication and creating the high-yield, uniform-germinating, and densely-planting modern rice. Loss of shattering is considered to be the direct morphological evidence for identifying domesticated rice. Two major shattering QTLs, Sh4 and qSH1, have displayed different domestication histories. Weakened seed dormancy is essential for synchronous germination in agricultural production. Genes Sdr4, qSD7-1, and qSD12 impose a global and complementary adaptation strategies in controlling seed dormancy. The prostate growth habit of wild rice is an adaptation to disturbed habitats, while the erect growth habit of rice cultivars meet the needs of compact planting, and such a plant architecture is mainly controlled by PROG1. The outcrossing habit of wild rice promotes propagation of domestication genes among different populations, while the self-pollinating habit of cultivated rice facilitates fixation of domestication genes. Currently, the researches on rice domestication mainly focus on individual genes or multiple neutral markers, and much less attention has been paid to the evolution of network controlling domestication traits. With the progress in functional genomics research, the molecular mechanism of domestication traits is emerging. Rice domestication researches based on network will be more comprehensive and better reflect rice domestica-tion process. Here, we reviewed most progresses in molecular mechanisms of rice domestication traits, in order to provide the new insights for rice domestication and molecular breeding.

  13. Saturated Molecular Map of the Rice Genome Based on an Interspecific Backcross Population

    PubMed Central

    Causse, M. A.; Fulton, T. M.; Cho, Y. G.; Ahn, S. N.; Chunwongse, J.; Wu, K.; Xiao, J.; Yu, Z.; Ronald, P. C.; Harrington, S. E.; Second, G.; McCouch, S. R.; Tanksley, S. D.

    1994-01-01

    A molecular map has been constructed for the rice genome comprised of 726 markers (mainly restriction fragment length polymorphisms; RFLPs). The mapping population was derived from a backcross between cultivated rice, Oryza sativa, and its wild African relative, Oryza longistaminata. The very high level of polymorphism between these species, combined with the use of polymerase chain reaction-amplified cDNA libraries, contributed to mapping efficiency. A subset of the probes used in this study was previously used to construct an RFLP map derived from an inter subspecific cross, providing a basis for comparison of the two maps and of the relative mapping efficiencies in the two crosses. In addition to the previously described PstI genomic rice library, three cDNA libraries from rice (Oryza), oat (Avena) and barley (Hordeum) were used in this mapping project. Levels of polymorphism detected by each and the frequency of identifying heterologous sequences for use in rice mapping are discussed. Though strong reproductive barriers isolate O. sativa from O. longistaminata, the percentage of markers showing distorted segregation in this backcross population was not significantly different than that observed in an intraspecific F(2) population previously used for mapping. The map contains 1491 cM with an average interval size of 4.0 cM on the framework map, and 2.0 cM overall. A total of 238 markers from the previously described PstI genomic rice library, 250 markers from a cDNA library of rice (Oryza), 112 cDNA markers from oat (Avena), and 20 cDNA markers from a barley (Hordeum) library, two genomic clones from maize (Zea), 11 microsatellite markers, three telomere markers, eleven isozymes, 26 cloned genes, six RAPD, and 47 mutant phenotypes were used in this mapping project. Applications of a molecular map for plant improvement are discussed. PMID:7896104

  14. Nitrogen contents of rice panicle and paddy by hyperspectral remote sensing.

    PubMed

    Tang, Yan-Lin; Huang, Jing-Feng; Cai, Shao-Hong; Wang, Ren-Chao

    2007-12-15

    The nitrogen content or crude protein content in rice grains is one of the important indices to evaluate the nutrition and taste quality of rice. Normal determination of their contents by chemical methods is highly expensive and time consuming. The hyperspectral reflectances of the canopy, flag leaf and panicle of 5 rice varieties are measured by a ASD FieldSpec Pro FR in field under 3 nitrogen support levels in maturing process. The nitrogen contents of stems, leaves, flag leaves, panicles and rice paddy and their crude protein contents are determined. The correlation among them is analyzed. The panicles nitrogen contents (%) are very significantly correlate not only to that of stems, leaves and flag leaves and chlorophyll contents (mg g(-1)) of flag leaves at milking and maturing stages, but also to the spectral reflectance rho(lambda), the first derivative spectra D(lambda) and RVI of canopy, flag leaf and panicle itself. The nitrogen contents (%) of rice paddy are very significantly correlative to that of stems and leaves and the spectral reflectance rho(lambda), the first derivative spectra D(lambda) and RVI of canopy at some wave bands at booting, milking and maturing stages. For the squared multiple correlation coefficients (R2) of estimating the nitrogen contents of panicle and paddy by canopies spectra, we find R2 > 0.80 at milking stage, R2 > 0.75 at maturing stage, but for the estimation of panicle by the spectra of flag leaf and panicle itself, we have R2 > 0.65. It indicates that it can be feasible for estimating the contents of nitrogen and crude protein in rice grains by hyperspectral remote sensing. It provide basis for monitoring rice quality by remote sensing. PMID:19093505

  15. 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.

  16. 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.

  17. 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

  18. Mobilization of the active MITE transposons mPing and Pong in rice by introgression from wild rice (Zizania latifolia Griseb.).

    PubMed

    Shan, Xiaohui; Liu, Zhenlan; Dong, Zhenying; Wang, Yongming; Chen, Yu; Lin, Xiuyun; Long, Likun; Han, Fangpu; Dong, Yingshan; Liu, Bao

    2005-04-01

    Hybridization between different species plays an important role in plant genome evolution, as well as is a widely used approach for crop improvement. McClintock has predicted that plant wide hybridization constitutes a "genomic shock" whereby cryptic transposable elements may be activated. However, direct experimental evidence showing a causal relationship between plant wide hybridization and transposon mobilization has not yet been reported. The miniature-Ping (mPing) is a recently isolated active miniature inverted-repeat transposable element transposon from rice, which is mobilized by tissue culture and gamma-ray irradiation. We show herein that mPing, together with its putative transposase-encoding partner, Pong, is mobilized in three homologous recombinant inbred lines (RILs), derived from hybridization between rice (cultivar Matsumae) and wild rice (Zizania latifolia Griseb.), harboring introgressed genomic DNA from wild rice. In contrast, both elements remain immobile in two lines sharing the same parentage to the RILs but possessing no introgressed DNA. Thus, we have presented direct evidence that is consistent with McClintock's insight by demonstrating a causal link between wide hybridization and transposon mobilization in rice. In addition, we report an atypical behavior of mPing/Pong mobilization in these lines, i.e., the exclusive absence of footprints after excision. PMID:15647520

  19. Mapping QTLs for improving grain yield using the USDA rice mini-core collection

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Yield is the most important and complex trait for genetic improvement in crops, and marker-assisted selection enhances the improvement efficiency. The USDA rice mini-core collection derived from over 18,000 accessions of global origins is an ideal panel for association mapping. We phenotyped 203 O. ...

  20. 75 FR 56911 - Request for Public Comment on the United States Standards for Rough Rice, Brown Rice for...

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-09-17

    ..., Brown Rice for Processing, and Milled Rice standards were last revised in 1993 (58 FR 68015) and appear... were last revised, numerous changes have occurred in the breeding and production practices of rice;...

  1. Blackbirds and the southern rice crop

    USGS Publications Warehouse

    Meanley, Brooke

    1971-01-01

    In the 1700's and 1800's, rice was grown in the lowlands of South Carolina, Georgia, and North Carolina - on the major migratory route of the bobolink (Dolichonyx oryzivorus), the historic "ricebird" of that area because of its consumption of ripening rice. By the late 1800's the rice-growing industry had largely shifted to the coastal prairies of Louisiana and Texas, which are bordered by some 5 million acres of marshland-breeding habitat for the redwinged blackbird (Agelaius phoeniceus) and the boat-tailed grackle (Cassidix mexicanus). By 1900, rice was being grown on the Grand Prairie of eastern Arkansas, which bestrides the largest blackbird flyway in the country. In recent decades, rice culture has spread to other sections of Arkansas and thence to contiguous areas in Louisiana, Mississippi, Tennesee, and Missouri. In effect, then, man has taken the rice to the blackbirds.

  2. Rice millers' syndrome: a preliminary report.

    PubMed Central

    Lim, H H; Domala, Z; Joginder, S; Lee, S H; Lim, C S; Abu Bakar, C M

    1984-01-01

    A study was carried out to determine the health effects of rice husk dust in Malaysian rice millers. The study population consisted of 122 male Malay workers from three rice mills, with 42 controls of similar age, sex, ethnic group, and agricultural work background. Interviews using standardised questionnaires, physical examination, total and differential white cell counts, chest radiographs, and lung function tests were performed on each of the millers and the controls. Environmental dust monitoring was also carried out in the three rice mills. Clinical, haematological, and radiological findings suggest that a distinct clinical syndrome seems to be associated with exposure to rice husk dust. The manifestations of this "rice millers' syndrome" include acute and chronic irritant effects affecting the eyes, skin, and upper respiratory tract; allergic responses such as nasal catarrh, tightness of chest, asthma, and eosinophilia; and radiological opacities in the chest, probably representing early silicosis or extrinsic allergic alveolitis. Images PMID:6498108

  3. 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.

  4. Total and inorganic arsenic in rice and rice bran purchased in Thailand.

    PubMed

    Ruangwises, Suthep; Saipan, Piyawat; Tengjaroenkul, Bundit; Ruangwises, Nongluck

    2012-04-01

    Concentrations of total and inorganic arsenic were determined in 180 samples of polished and brown rice of three rice types, namely white, jasmine, and sticky, and 44 samples of rice bran from these three rice types purchased in Thailand. Concentrations (expressed in nanograms per gram) of inorganic arsenic in polished white, jasmine, and sticky rice were 68.3 ± 17.6 (with a range of 45.0 to 106), 68.4 ± 15.6 (41.7 to 101), and 75.9 ± 24.8 (43.5 to 156), respectively, while those in the three brown rice samples were 124 ± 34.4 (74.5 to 193), 120 ± 31.6 (73.1 to 174), and 131 ± 35.6 (78.0 to 188), respectively. Inorganic arsenic concentrations (expressed in nanograms per gram) in rice bran produced from the three rice types were 633 ± 182 (375 to 919), 599 ± 112 (447 to 824), and 673 ± 195 (436 to 1,071), respectively. Rice bran contained concentrations of total and inorganic arsenic approximately seven and nine times higher, respectively, than those found in the corresponding polished rice. The levels of inorganic arsenic in the three rice types of both polished and brown rice were within the only published regulatory limit of 200 ng/g.

  5. 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...

  6. 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 ...

  7. Total and inorganic arsenic in rice and rice bran purchased in Thailand.

    PubMed

    Ruangwises, Suthep; Saipan, Piyawat; Tengjaroenkul, Bundit; Ruangwises, Nongluck

    2012-04-01

    Concentrations of total and inorganic arsenic were determined in 180 samples of polished and brown rice of three rice types, namely white, jasmine, and sticky, and 44 samples of rice bran from these three rice types purchased in Thailand. Concentrations (expressed in nanograms per gram) of inorganic arsenic in polished white, jasmine, and sticky rice were 68.3 ± 17.6 (with a range of 45.0 to 106), 68.4 ± 15.6 (41.7 to 101), and 75.9 ± 24.8 (43.5 to 156), respectively, while those in the three brown rice samples were 124 ± 34.4 (74.5 to 193), 120 ± 31.6 (73.1 to 174), and 131 ± 35.6 (78.0 to 188), respectively. Inorganic arsenic concentrations (expressed in nanograms per gram) in rice bran produced from the three rice types were 633 ± 182 (375 to 919), 599 ± 112 (447 to 824), and 673 ± 195 (436 to 1,071), respectively. Rice bran contained concentrations of total and inorganic arsenic approximately seven and nine times higher, respectively, than those found in the corresponding polished rice. The levels of inorganic arsenic in the three rice types of both polished and brown rice were within the only published regulatory limit of 200 ng/g. PMID:22488070

  8. 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.

  9. 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

  10. 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.

  11. 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. PMID:24735399

  12. Bioethanol production from rice straw residues

    PubMed Central

    Belal, Elsayed B.

    2013-01-01

    A rice straw - cellulose utilizing mold was isolated from rotted rice straw residues. The efficient rice straw degrading microorganism was identified as Trichoderma reesei. The results showed that different carbon sources in liquid culture such as rice straw, carboxymethyl cellulose, filter paper, sugar cane bagasse, cotton stalk and banana stalk induced T. reesei cellulase production whereas glucose or Potato Dextrose repressed the synthesis of cellulase. T. reesei cellulase was produced by the solid state culture on rice straw medium. The optimal pH and temperature for T. reesei cellulase production were 6 and 25 °C, respectively. Rice straw exhibited different susceptibilities towards cellulase to their conversion to reducing sugars. The present study showed also that, the general trend of rice straw bioconversion with cellulase was more than the general trend by T. reesei. This enzyme effectively led to enzymatic conversion of acid, alkali and ultrasonic pretreated cellulose from rice straw into glucose, followed by fermentation into ethanol. The combined method of acid pretreatment with ultrasound and subsequent enzyme treatment resulted the highest conversion of lignocellulose in rice straw to sugar and consequently, highest ethanol concentration after 7 days fermentation with S. cerevisae yeast. The ethanol yield in this study was about 10 and 11 g.L−1. PMID:24159309

  13. 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. PMID:8332588

  14. Total arsenic in rice milk.

    PubMed

    Shannon, Ron; Rodriguez, Jose M

    2014-01-01

    Rice milk and its by-products were tested for total arsenic concentration. Total arsenic concentration was determined using graphite-furnace atomic absorption spectrometry. The arsenic concentrations ranged from 2.7 ± 0.3 to 17.9 ± 0.5 µg L(-1). Rice milk and its by-products are not clearly defined as food, water or milk substitute. The US Environmental Protection Agency (EPA), the European Union (EU) and the World Health Organization (WHO) have set a level of 10 µg L(-1) for total arsenic concentrations in drinking water. The EU and the US regulatory agencies do not provide any guidelines on total arsenic concentrations in foods. This study provides us with a starting point to address this issue in the State of Mississippi, USA.

  15. Seamless Genome Editing in Rice via Gene Targeting and Precise Marker Elimination.

    PubMed

    Nishizawa-Yokoi, Ayako; Saika, Hiroaki; Toki, Seiichi

    2016-01-01

    Positive-negative selection using hygromycin phosphotransferase (hpt) and diphtheria toxin A-fragment (DT-A) as positive and negative selection markers, respectively, allows enrichment of cells harboring target genes modified via gene targeting (GT). We have developed a successful GT system employing positive-negative selection and subsequent precise marker excision via the piggyBac transposon derived from the cabbage looper moth to introduce desired modifications into target genes in the rice genome. This approach could be applied to the precision genome editing of almost all endogenous genes throughout the genome, at least in rice. PMID:27557691

  16. [Extraction and purification method of rice DNA from rice powder containing Konjak flour].

    PubMed

    Minematsu, Kazuhiko; Nakamura, Kosuke; Akiyama, Hiroshi; Harikai, Naoki; Nakajima, Osamu; Kitta, Kazumi; Teshima, Reiko; Iizuka, Tayoshi

    2010-01-01

    Rice powder containing Konjak flour made with tuberous roots of Amorphophallus konjac is imported as a rice-processed product from China to Japan. An improved DNA purification method for the polymerase chain reaction (PCR) analysis of rice in such products is necessary, since Konjak flour constituents absorb the DNA purification buffer to form a gel, and cause problems in the subsequent purification steps. Here, we present a simple preparative system for isolation of the rice and a purification method of the rice DNA from the product. The purified DNA was confirmed to be a good template for both PCR and real-time PCR. PMID:21071909

  17. Preferential Association of Endophytic Bradyrhizobia with Different Rice Cultivars and Its Implications for Rice Endophyte Evolution

    PubMed Central

    Piromyou, Pongdet; Greetatorn, Teerana; Teamtisong, Kamonluck; Okubo, Takashi; Shinoda, Ryo; Nuntakij, Achara; Tittabutr, Panlada; Boonkerd, Nantakorn

    2015-01-01

    Plant colonization by bradyrhizobia is found not only in leguminous plants but also in nonleguminous species such as rice. To understand the evolution of the endophytic symbiosis of bradyrhizobia, the effect of the ecosystems of rice plantations on their associations was investigated. Samples were collected from various rice (Oryza sativa) tissues and crop rotational systems. The rice endophytic bradyrhizobia were isolated on the basis of oligotrophic properties, selective medium, and nodulation on siratro (Macroptilium atropurpureum). Six bradyrhizobial strains were obtained exclusively from rice grown in a crop rotational system. The isolates were separated into photosynthetic bradyrhizobia (PB) and nonphotosynthetic bradyrhizobia (non-PB). Thai bradyrhizobial strains promoted rice growth of Thai rice cultivars better than the Japanese bradyrhizobial strains. This implies that the rice cultivars possess characteristics that govern rice-bacterium associations. To examine whether leguminous plants in a rice plantation system support the persistence of rice endophytic bradyrhizobia, isolates were tested for legume nodulation. All PB strains formed symbioses with Aeschynomene indica and Aeschynomene evenia. On the other hand, non-PB strains were able to nodulate Aeschynomene americana, Vigna radiata, and M. atropurpureum but unable to nodulate either A. indica or A. evenia. Interestingly, the nodABC genes of all of these bradyrhizobial strains seem to exhibit low levels of similarity to those of Bradyrhizobium diazoefficiens USDA110 and Bradyrhizobium sp. strain ORS285. From these results, we discuss the evolution of the plant-bradyrhizobium association, including nonlegumes, in terms of photosynthetic lifestyle and nod-independent interactions. PMID:25710371

  18. 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.

  19. Rice genomes recorded ancient pararetrovirus activities: Virus genealogy and multiple origins of endogenization during rice speciation.

    PubMed

    Chen, Sunlu; Liu, Ruifang; Koyanagi, Kanako O; Kishima, Yuji

    2014-12-01

    Viral fossils in rice genomes are a best entity to understand ancient pararetrovirus activities through host plant history because of our advanced knowledge of the genomes and evolutionary history with rice and its related species. Here, we explored organization, geographic origins and genealogy of rice pararetroviruses, which were turned into endogenous rice tungro bacilliform virus-like (eRTBVL) sequences. About 300 eRTBVL sequences from three representative rice genomes were clearly classified into six families. Most of the endogenization events of the eRTBVLs were initiated before differentiation of the rice progenitor (> 160,000 years ago). We successfully followed the genealogy of old relic viruses during rice speciation, and inferred the geographical origins for these viruses. Possible virus genomic sequences were explained mostly by recombinations between different virus families. Interestingly, we discovered that only a few recombination events among the numerous occasions had determined the virus genealogy. PMID:25461539

  20. 7 CFR 1412.49 - Apportionment of long and medium grain rice.

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... 7 Agriculture 10 2011-01-01 2011-01-01 false Apportionment of long and medium grain rice. 1412.49... and Peanuts 2008 through 2012 § 1412.49 Apportionment of long and medium grain rice. (a) Rice base...) Medium grain rice. Medium grain rice includes short grain rice. (c) Owners on a farm will elect rice...

  1. 7 CFR 1412.49 - Apportionment of long and medium grain rice.

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    ... 7 Agriculture 10 2014-01-01 2014-01-01 false Apportionment of long and medium grain rice. 1412.49... and Peanuts 2008 Through 2012 § 1412.49 Apportionment of long and medium grain rice. (a) Rice base...) Medium grain rice. Medium grain rice includes short grain rice. (c) Owners on a farm will elect rice...

  2. 7 CFR 1412.49 - Apportionment of long and medium grain rice.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... 7 Agriculture 10 2013-01-01 2013-01-01 false Apportionment of long and medium grain rice. 1412.49... and Peanuts 2008 Through 2012 § 1412.49 Apportionment of long and medium grain rice. (a) Rice base...) Medium grain rice. Medium grain rice includes short grain rice. (c) Owners on a farm will elect rice...

  3. 7 CFR 1412.49 - Apportionment of long and medium grain rice.

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ... 7 Agriculture 10 2012-01-01 2012-01-01 false Apportionment of long and medium grain rice. 1412.49... and Peanuts 2008 through 2012 § 1412.49 Apportionment of long and medium grain rice. (a) Rice base...) Medium grain rice. Medium grain rice includes short grain rice. (c) Owners on a farm will elect rice...

  4. 7 CFR 1412.49 - Apportionment of long and medium grain rice.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... 7 Agriculture 10 2010-01-01 2010-01-01 false Apportionment of long and medium grain rice. 1412.49... and Peanuts 2008 through 2012 § 1412.49 Apportionment of long and medium grain rice. (a) Rice base...) Medium grain rice. Medium grain rice includes short grain rice. (c) Owners on a farm will elect rice...

  5. Expression and purification of recombinant human serum albumin from selectively terminable transgenic rice*

    PubMed Central

    Zhang, Qing; Yu, Hui; Zhang, Feng-zhen; Shen, Zhi-cheng

    2013-01-01

    Human serum albumin (HSA) is widely utilized for medical purposes and biochemical research. Transgenic rice has proved to be an attractive bioreactor for mass production of recombinant HSA (rHSA). However, transgene spread is a major environmental and food safety concern for transgenic rice expressing proteins of medical value. This study aimed to develop a selectively terminable transgenic rice line expressing HSA in rice seeds, and a simple process for recovery and purification of rHSA for economical manufacture. An HSA expression cassette was inserted into a T-DNA vector encoding an RNA interference (RNAi) cassette suppressing the CYP81A6 gene. This gene detoxifies the herbicide bentazon and is linked to the 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS) cassette which confers glyphosate tolerance. ANX Sepharose Fast Flow (ANX FF) anion exchange chromatography coupled with Butyl Sepharose High Performance (Butyl HP) hydrophobic interaction chromatography was used to purify rHSA. A transgenic rice line, HSA-84, was obtained with stable expression of rHSA of up to 0.72% of the total dry weight of the dehusked rice seeds. This line also demonstrated high sensitivity to bentazon, and thus could be killed selectively by a spray of bentazon. A two-step chromatography purification scheme was established to purify the rHSA from rice seeds to a purity of 99% with a recovery of 62.4%. Results from mass spectrometry and N-terminus sequencing suggested that the purified rHSA was identical to natural plasma-derived HSA. This study provides an alternative strategy for large-scale production of HSA with a built-in transgene safety control mechanism. PMID:24101203

  6. Expression and purification of recombinant human serum albumin from selectively terminable transgenic rice.

    PubMed

    Zhang, Qing; Yu, Hui; Zhang, Feng-zhen; Shen, Zhi-cheng

    2013-10-01

    Human serum albumin (HSA) is widely utilized for medical purposes and biochemical research. Transgenic rice has proved to be an attractive bioreactor for mass production of recombinant HSA (rHSA). However, transgene spread is a major environmental and food safety concern for transgenic rice expressing proteins of medical value. This study aimed to develop a selectively terminable transgenic rice line expressing HSA in rice seeds, and a simple process for recovery and purification of rHSA for economical manufacture. An HSA expression cassette was inserted into a T-DNA vector encoding an RNA interference (RNAi) cassette suppressing the CYP81A6 gene. This gene detoxifies the herbicide bentazon and is linked to the 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS) cassette which confers glyphosate tolerance. ANX Sepharose Fast Flow (ANX FF) anion exchange chromatography coupled with Butyl Sepharose High Performance (Butyl HP) hydrophobic interaction chromatography was used to purify rHSA. A transgenic rice line, HSA-84, was obtained with stable expression of rHSA of up to 0.72% of the total dry weight of the dehusked rice seeds. This line also demonstrated high sensitivity to bentazon, and thus could be killed selectively by a spray of bentazon. A two-step chromatography purification scheme was established to purify the rHSA from rice seeds to a purity of 99% with a recovery of 62.4%. Results from mass spectrometry and N-terminus sequencing suggested that the purified rHSA was identical to natural plasma-derived HSA. This study provides an alternative strategy for large-scale production of HSA with a built-in transgene safety control mechanism.

  7. 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.

  8. Characterization of rice starch and protein obtained by a fast alkaline extraction method.

    PubMed

    Souza, Daiana de; Sbardelotto, Arthur Francisco; Ziegler, Denize Righetto; Marczak, Ligia Damasceno Ferreira; Tessaro, Isabel Cristina

    2016-01-15

    This study evaluated the characteristics of rice starch and protein obtained by a fast alkaline extraction method on rice flour (RF) derived from broken rice. The extraction was conducted using 0.18% NaOH at 30°C for 30min followed by centrifugation to separate the starch rich and the protein rich fractions. This fast extraction method allowed to obtain an isoelectric precipitation protein concentrate (IPPC) with 79% protein and a starchy product with low protein content. The amino acid content of IPPC was practically unchanged compared to the protein in RF. The proteins of the IPPC underwent denaturation during extraction and some of the starch suffered the cold gelatinization phenomenon, due to the alkaline treatment. With some modifications, the fast method can be interesting in a technological point of view as it enables process cost reduction and useful ingredients obtention to the food and chemical industries. PMID:26258699

  9. 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.

  10. 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.

  11. 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.

  12. 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...

  13. 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,...

  14. 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,...

  15. 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,...

  16. 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,...

  17. 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,...

  18. 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...

  19. 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 imported…

  20. 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…

  1. 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...

  2. 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...

  3. 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...

  4. 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...

  5. RICE BREAD FOR PEOPLE WITH CELIAC DISEASE

    Technology Transfer Automated Retrieval System (TEKTRAN)

    This technical bulletin was written to describe new process to make whole rice bread (WRB) for Celiacs, a disease caused by proteins found in wheat, barley and rye. The rice is free of these proteins and hence an ideal grain to develop foods for Celiacs. Absence of these proteins, however make it ...

  6. Conformational landscapes of DNA polymerase I and mutator derivatives establish fidelity checkpoints for nucleotide insertion.

    PubMed

    Hohlbein, Johannes; Aigrain, Louise; Craggs, Timothy D; Bermek, Oya; Potapova, Olga; Shoolizadeh, Pouya; Grindley, Nigel D F; Joyce, Catherine M; Kapanidis, Achillefs N

    2013-01-01

    The fidelity of DNA polymerases depends on conformational changes that promote the rejection of incorrect nucleotides before phosphoryl transfer. Here, we combine single-molecule FRET with the use of DNA polymerase I and various fidelity mutants to highlight mechanisms by which active-site side chains influence the conformational transitions and free-energy landscape that underlie fidelity decisions in DNA synthesis. Ternary complexes of high fidelity derivatives with complementary dNTPs adopt mainly a fully closed conformation, whereas a conformation with a FRET value between those of open and closed is sparsely populated. This intermediate-FRET state, which we attribute to a partially closed conformation, is also predominant in ternary complexes with incorrect nucleotides and, strikingly, in most ternary complexes of low-fidelity derivatives for both correct and incorrect nucleotides. The mutator phenotype of the low-fidelity derivatives correlates well with reduced affinity for complementary dNTPs and highlights the partially closed conformation as a primary checkpoint for nucleotide selection.

  7. 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.

  8. The non-homologous end-joining pathway is involved in stable transformation in rice

    PubMed Central

    Saika, Hiroaki; Nishizawa-Yokoi, Ayako; Toki, Seiichi

    2014-01-01

    Stable transformation with T-DNA needs the coordinated activities of many proteins derived from both host plant cells and Agrobacterium. In dicot plants, including Arabidopsis, it has been suggested that non-homologous end-joining (NHEJ)—one of the main DNA double-strand break repair pathways—is involved in the T-DNA integration step that is crucial to stable transformation. However, how this pathway is involved remains unclear as results with NHEJ mutants in Arabidopsis have given inconsistent results. Recently, a system for visualization of stable expression of genes located on T-DNA has been established in rice callus. Stable expression was shown to be reduced significantly in NHEJ knock-down rice calli, suggesting strongly that NHEJ is involved in Agrobacterium-mediated stable transformation in rice. Since rice transformation is now efficient and reproducible, rice is a good model plant in which to elucidate the molecular mechanisms of T-DNA integration. PMID:25368624

  9. 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

    2016-01-01

    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. PMID:27525873

  10. Discovery of cis-elements between sorghum and rice using co-expression and evolutionary conservation

    PubMed Central

    Wang, Xi; Haberer, Georg; Mayer, Klaus FX

    2009-01-01

    Background The spatiotemporal regulation of gene expression largely depends on the presence and absence of cis-regulatory sites in the promoter. In the economically highly important grass family, our knowledge of transcription factor binding sites and transcriptional networks is still very limited. With the completion of the sorghum genome and the available rice genome sequence, comparative promoter analyses now allow genome-scale detection of conserved cis-elements. Results In this study, we identified thousands of phylogenetic footprints conserved between orthologous rice and sorghum upstream regions that are supported by co-expression information derived from three different rice expression data sets. In a complementary approach, cis-motifs were discovered by their highly conserved co-occurrence in syntenic promoter pairs. Sequence conservation and matches to known plant motifs support our findings. Expression similarities of gene pairs positively correlate with the number of motifs that are shared by gene pairs and corroborate the importance of similar promoter architectures for concerted regulation. This strongly suggests that these motifs function in the regulation of transcript levels in rice and, presumably also in sorghum. Conclusion Our work provides the first large-scale collection of cis-elements for rice and sorghum and can serve as a paradigm for cis-element analysis through comparative genomics in grasses in general. PMID:19558665

  11. 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. PMID:26336124

  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. 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.

  14. 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.

  15. Understanding of evolutionary genomics of invasive species of rice

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Red rice is an aggressive, weedy form of cultivated rice (Oryza sativa) that infests crop fields and is a primary factor limiting rice productivity in the U.S. and worldwide. As the weedy relative of a genomic model species, red rice is a model for understanding the genetic and evolutionary mechani...

  16. 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...

  17. The origin of weediness in U.S. red rice

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Weedy or red rice, a congeneric weed of cultivated rice (Oryza sativa L.), is a significant problem throughout the world. Despite belonging to the same species complex as domesticated rice and its wild relatives, the evolutionary origins of weedy rice remain unclear. We have used genome-wide and can...

  18. 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...

  19. 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...

  20. 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...

  1. 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...

  2. 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...

  3. 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...

  4. 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...

  5. 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...

  6. 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...

  7. 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...

  8. 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...

  9. 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...

  10. 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...

  11. 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...

  12. 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...

  13. 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...

  14. 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...

  15. 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...

  16. 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...

  17. Identifying novel resistance genes in rice wild relatives

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Rice blast and sheath blight are major fungal diseases of cultivated rice (Oryza sativa L. ) that limit Arkansas rough rice yields and market potential. Resistance to these diseases has been found in rice wild relatives (Oryza spp.) A collection of these wild relatives originating from outside the U...

  18. Agronomic potential of southern rice cultivars under organic management

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Organic rice production is expanding in the United States as a result of increasing market demand. Although acreage of conventional produced rice has declined in Texas over the last twenty years, organic rice production has increased to almost ten percent of the Texas rice acreage. Organic growers ...

  19. 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.

  20. 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...

  1. The roots of future rice harvests.

    PubMed

    Ahmadi, Nourollah; Audebert, Alain; Bennett, Malcolm J; Bishopp, Anthony; de Oliveira, Antonio Costa; Courtois, Brigitte; Diedhiou, Abdala; Diévart, Anne; Gantet, Pascal; Ghesquière, Alain; Guiderdoni, Emmanuel; Henry, Amelia; Inukai, Yoshiaki; Kochian, Leon; Laplaze, Laurent; Lucas, Mikael; Luu, Doan Trung; Manneh, Baboucarr; Mo, Xiaorong; Muthurajan, Raveendran; Périn, Christophe; Price, Adam; Robin, Sabariappan; Sentenac, Hervé; Sine, Bassirou; Uga, Yusaku; Véry, Anne Aliénor; Wissuwa, Matthias; Wu, Ping; Xu, Jian

    2014-12-01

    Rice production faces the challenge to be enhanced by 50% by year 2030 to meet the growth of the population in rice-eating countries. Whereas yield of cereal crops tend to reach plateaus and a yield is likely to be deeply affected by climate instability and resource scarcity in the coming decades, building rice cultivars harboring root systems that can maintain performance by capturing water and nutrient resources unevenly distributed is a major breeding target. Taking advantage of gathering a community of rice root biologists in a Global Rice Science Partnership workshop held in Montpellier, France, we present here the recent progresses accomplished in this area and focal points where an international network of laboratories should direct their efforts. PMID:26224558

  2. SSR MARKER CONFIRMATION OF RECIPROCAL OUTCROSSING RATES BETWEEN RICE AND RED RICE LINES IN ARKANSAS OVER A FIVE-YEAR PERIOD

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Outcrossing between rice and red rice can negatively impact the rice industry, especially when herbicide-resistant rice cultivars are grown. Previous research has indicated that outcrossing between rice and red rice in Arkansas farm fields can occur with either plant type serving as the pollen dono...

  3. 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.

  4. 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. PMID:25199055

  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. RiceWiki: a wiki-based database for community curation of rice genes.

    PubMed

    Zhang, Zhang; Sang, Jian; Ma, Lina; Wu, Gang; Wu, Hao; Huang, Dawei; Zou, Dong; Liu, Siqi; Li, Ang; Hao, Lili; Tian, Ming; Xu, Chao; Wang, Xumin; Wu, Jiayan; Xiao, Jingfa; Dai, Lin; Chen, Ling-Ling; Hu, Songnian; Yu, Jun

    2014-01-01

    Rice is the most important staple food for a large part of the world's human population and also a key model organism for biological studies of crops as well as other related plants. Here we present RiceWiki (http://ricewiki.big.ac.cn), a wiki-based, publicly editable and open-content platform for community curation of rice genes. Most existing related biological databases are based on expert curation; with the exponentially exploding volume of rice knowledge and other relevant data, however, expert curation becomes increasingly laborious and time-consuming to keep knowledge up-to-date, accurate and comprehensive, struggling with the flood of data and requiring a large number of people getting involved in rice knowledge curation. Unlike extant relevant databases, RiceWiki features harnessing collective intelligence in community curation of rice genes, quantifying users' contributions in each curated gene and providing explicit authorship for each contributor in any given gene, with the aim to exploit the full potential of the scientific community for rice knowledge curation. Based on community curation, RiceWiki bears the potential to make it possible to build a rice encyclopedia by and for the scientific community that harnesses community intelligence for collaborative knowledge curation, covers all aspects of biological knowledge and keeps evolving with novel knowledge. PMID:24136999

  8. Rice Domestication Revealed by Reduced Shattering of Archaeological rice from the Lower Yangtze valley.

    PubMed

    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

  9. A whole-genome SNP array (RICE6K) for genomic breeding in rice.

    PubMed

    Yu, Huihui; Xie, Weibo; Li, Jing; Zhou, Fasong; Zhang, Qifa

    2014-01-01

    The advances in genotyping technology provide an opportunity to use genomic tools in crop breeding. As compared to field selections performed in conventional breeding programmes, genomics-based genotype screen can potentially reduce number of breeding cycles and more precisely integrate target genes for particular traits into an ideal genetic background. We developed a whole-genome single nucleotide polymorphism (SNP) array, RICE6K, based on Infinium technology, using representative SNPs selected from more than four million SNPs identified from resequencing data of more than 500 rice landraces. RICE6K contains 5102 SNP and insertion-deletion (InDel) markers, about 4500 of which were of high quality in the tested rice lines producing highly repeatable results. Forty-five functional markers that are located inside 28 characterized genes of important traits can be detected using RICE6K. The SNP markers are evenly distributed on the 12 chromosomes of rice with the average density of 12 SNPs per 1 Mb and can provide information for polymorphisms between indica and japonica subspecies as well as varieties within indica and japonica groups. Application tests of RICE6K showed that the array is suitable for rice germplasm fingerprinting, genotyping bulked segregating pools, seed authenticity check and genetic background selection. These results suggest that RICE6K provides an efficient and reliable genotyping tool for rice genomic breeding.

  10. 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

  11. 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...

  12. 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...

  13. 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...

  14. 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...

  15. 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...

  16. 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...

  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. [Safety of rice grains and mycotoxins - a historical review of yellow rice mycotoxicoses].

    PubMed

    Udagawa, Shun-ichi; Tatsuno, Takashi

    2004-01-01

    Aflatoxins, the most powerful mycotoxins, were brought to the attention fo the people in the early 1960s with the outbreak of the turkey "X" disease in England. However, the history of mycotoxin research in Japan began 100 years ago. In 1891, Sakaki demonstrated that moldy, unpolished rice was fatal to experimental animals, with symptoms indicating paralysis of the central nervous system (Shoshin-kakke). In 1920, Prof. I. Miyake and Dr. Takada first reported that Penicillium commune, which was known as a causal agent of "Mossy diseased rice" was found to be toxic to experimental animals by feeding the moldy rice to rabbits and rats.With such a historical background, taking the idea of "rice, fungus and toxin" as a working hypothesis, Miyake and his co-workers discovered the first sample of yellow rice grains from Taiwanese and domestic rice, from which was isolated a species of Penicillium and later identified it with P. citreonigrum (=P. toxicarium). The fungus produced a highly toxic metabolite, citreoviridin. Unfortunately because this study was published during wartime, it failed to alert the world to the potential or actual dangers of the toxicity of common molds. After World War II, Japanese people suffered for some years from a shortage in domestic rice production and depended on foreign countries to supply rice, which led to the toxicological screening on fungal isolates from polluted rice grains by Dr. Tsunoda and his co-workers. AMong the isolates from imported rice, there were two species of Penicillium which were particularly associated with high toxicity; P. islandicum responsible for brownish discolored rice, and P. citrinum responsible for yellowish rice. P. islandicum produces two hepatotoxic metabolites: luteoskyrin and cyclochlorotine, while a nephrotoxic of P. citrinum is citrinin. These toxicological characters, including the induction of cancer and chemical structures, were studied by Profs. uraguchi, Saito, Shibata, Tatsuno and their co

  19. Improvement of Rice Biomass Yield through QTL-Based Selection.

    PubMed

    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.

  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. Identification of Thai Hom Mali rice using a refractometer

    NASA Astrophysics Data System (ADS)

    Sumriddetchkajorn, Sarun; Suwansukho, Kajpanya; Buranasiri, Prathan

    2009-05-01

    Because Thai Hom Mali, also known as Thai Dawk Mali (KDML105), rice is very popular and its price is high compared to other Thai rice varieties, there is an increase in mixing KDML105 milled and unmilled rice grains with other rice varieties, leading to unqualified KDML105 milled rice products for export and unqualified KDML105 unmilled rice seeds for next plants. Instead of using traditional time- and energy- consuming procedures such as alkaline spreading value and pasting property tests, this paper proposes a fast refractometry-based method to analyze ground milled rice grains dissolved in an alkaline solution. Our idea comes from the fact that due to differences in the amount of amylose content in each rice variety, the refractive index of the milled rice powder dissolved in an alkaline solution can be used to distinguish the desired KDML105 rice from others. In our approach, only 0.1 grams of milled rice powder is ground, it is then dissolved in a 10% potassium hydroxide, and its refractive index is investigated. Our experiment using a temperature-controlled optical refractometer and four Thai rice varieties (KDML105, Pathumthani1, Chainat1, and a Thai sticky rice) shows that the milled KDML105 rice can be distinguished from the remaining three rice varieties with a total false error rate of 6.7% and the required measurement time of < 20 seconds. Key advantages include simplicity, moderate accuracy, and less waste produced.

  2. 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

  3. An update on the use of co-products from the milling of rice in value added food products

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Because of the huge quantity of rice produced annually, milled-rice co-products; such as, rice bran, rice oil, rice wax, rice flour, and rice hull are plentiful and readily available. These co-products could be valuable sources of food ingredients, but they have been vastly under-utilized. Rice bra...

  4. Monitoring arsenic contamination in agricultural soils with reflectance spectroscopy of rice plants.

    PubMed

    Shi, Tiezhu; Liu, Huizeng; Wang, Junjie; Chen, Yiyun; Fei, Teng; Wu, Guofeng

    2014-06-01

    The objective of this study was to explore the feasibility and to investigate the mechanism for rapidly monitoring arsenic (As) contamination in agricultural soils with the reflectance spectra of rice plants. Several data pretreatment methods were applied to improve the prediction accuracy. The prediction of soil As contents was achieved by partial least-squares regression (PLSR) using laboratory and field spectra of rice plants, as well as linear regression employing normalized difference spectral index (NDSI) calculated from fild spectra. For laboratory spectra, the optimal PLSR model for predicting soil As contents was achieved using Savitzky-Golay smoothing (SG), first derivative and mean center (MC) (root-mean-square error of prediction (RMSEP)=14.7 mg kg(-1); r=0.64; residual predictive deviation (RPD)=1.31). For field spectra, the optimal PLSR model was also achieved using SG, first derivative and MC (RMSEP=13.7 mg kg(-1); r=0.71; RPD=1.43). In addition, the NDSI with 812 and 782 nm obtained a prediction accuracy with r=0.68, RMSEP=13.7 mg kg(-1), and RPD=1.36. These results indicated that it was feasible to monitor the As contamination in agricultural soils using the reflectance spectra of rice plants. The prediction mechanism might be the relationship between the As contents in soils and the chlorophyll-a/-b contents and cell structure in leaves or canopies of rice plants. PMID:24804926

  5. 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.

  6. 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. PMID:27211665

  7. Response of aerobic rice to Piriformospora indica.

    PubMed

    Das, Joy; Ramesh, K V; Maithri, U; Mutangana, D; Suresh, C K

    2014-03-01

    Rice cultivation under aerobic condition not only saves water but also opens up a splendid scope for effective application of beneficial root symbionts in rice crop unlike conventional puddled rice cultivation where water logged condition acts as constraint for easy proliferation of various beneficial soil microorganisms like arbuscular mycorrhizal (AM) fungi. Keeping these in view, an in silico investigation were carried out to explore the interaction of hydrogen phosphate with phosphate transporter protein (PTP) from P. indica. This was followed by greenhouse investigation to study the response of aerobic rice to Glomusfasciculatum, a conventional P biofertilizer and P. indica, an alternative to AM fungi. Computational studies using ClustalW tool revealed several conserved motifs between the phosphate transporters from Piriformospora indica and 8 other Glomus species. The 3D model of PTP from P. indica resembling "Mayan temple" was successfully docked onto hydrogen phosphate, indicating the affinity of this protein for inorganic phosphorus. Greenhouse studies revealed inoculation of aerobic rice either with P. indica, G. fasciculatum or both significantly enhanced the plant growth, biomass and yield with higher NPK, chlorophyll and sugar compared to uninoculated ones, P. indica inoculated plants being superior. A significantly enhanced activity of acid phosphatase and alkaline phosphatase were noticed in the rhizosphere soil of rice plants inoculated either with P. indica, G. fasciculatum or both, contributing to higher P uptake. Further, inoculation of aerobic rice plants with P. indica proved to be a better choice as a potential biofertilizer over mycorrhiza. PMID:24669667

  8. 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

  9. 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).

  10. 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

  11. 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.

  12. qRT9, a quantitative trait locus controlling root thickness and root length in upland rice.

    PubMed

    Li, Junzhou; Han, Yingchun; Liu, Lei; Chen, Yipeng; Du, Yanxiu; Zhang, Jing; Sun, Hongzheng; Zhao, Quanzhi

    2015-05-01

    Breeding for strong root systems is an important strategy for improving drought avoidance in rice. To clone genes responsible for strong root traits, an upland rice introgression line IL392 with thicker and longer roots than the background parent lowland rice Yuefu was selected. A quantitative trait locus (QTL), qRT9, controlling root thickness and root length was detected under hydroponic culture using 203 F(2:3) populations derived from a cross between Yuefu and IL392. The qRT9 locus explained 32.5% and 28.1% of the variance for root thickness and root length, respectively. Using 3185 F2 plants, qRT9 was ultimately narrowed down to an 11.5 kb region by substitution mapping. One putative basic helix-loop-helix (bHLH) transcription factor gene, LOC_Os09g28210 (named OsbHLH120), is annotated in this region. Sequences of OsbHLH120 in 11 upland rice and 13 lowland rice indicated that a single nucleotide polymorphism (SNP) at position 82 and an insertion/deletion (Indel) at position 628-642 cause amino acid changes and are conserved between upland rice and lowland rice. Phenotypic analysis indicated that the two polymorphisms were significantly associated with root thickness and root length under hydroponic culture. Quantitative real-time PCR showed that OsbHLH120 was strongly induced by polyethylene glycol (PEG), salt, and abscisic acid, but higher expression was present in IL392 roots than in Yuefu under PEG and salt stress. The successfully isolated locus, qRT9, enriches our knowledge of the genetic basis for drought avoidance and provides an opportunity for breeding drought avoidance varieties by utilizing valuable genes in the upland rice germplasm. PMID:25769309

  13. 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....

  14. 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....

  15. 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....

  16. 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....

  17. 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....

  18. Rice hull energy uses in the Philippines

    SciTech Connect

    Waddle, D.B.

    1985-01-01

    As a rice producing country, the Philippines produces a tremendous amount of rice hulls which when converted to energy could displace a substantial amount of imported energy. Realizing this possibility needs a thorough evaluation of both resources and demand characteristics of particular industry where immediate applicability of technical option awaits. This document presents the Philippines' past activities in fuelizing rice hulls and future action plans where its economic relevance could be enhanced. Descriptions of four power plants are included with the author's analysis of their probable market impact and projections of future applications.

  19. 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.

  20. Creation of transgenic rice plants producing small interfering RNA of Rice tungro spherical virus

    PubMed Central

    Le, Dung Tien; Chu, Ha Duc; Sasaya, Takahide

    2015-01-01

    ABSTRACT 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. PMID:25984767

  1. 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.

  2. 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

  3. Wavelet filtering of time-series moderate resolution imaging spectroradiometer data for rice crop mapping using support vector machines and maximum likelihood classifier

    NASA Astrophysics Data System (ADS)

    Chen, Chi-Farn; Son, Nguyen-Thanh; Chen, Cheng-Ru; Chang, Ly-Yu

    2011-01-01

    Rice is the most important economic crop in Vietnam's Mekong Delta (MD). It is the main source of employment and income for rural people in this region. Yearly estimates of rice growing areas and delineation of spatial distribution of rice crops are needed to devise agricultural economic plans and to ensure security of the food supply. The main objective of this study is to map rice cropping systems with respect to monitoring agricultural practices in the MD using time-series moderate resolution imaging spectroradiometer (MODIS) normalized difference vegetation index (NDVI) 250-m data. These time-series NDVI data were derived from the 8-day MODIS 250-m data acquired in 2008. Various spatial and nonspatial data were also used for accuracy verification. The method used in this study consists of the following three main steps: 1. filtering noise from the time-series NDVI data using wavelet transformation (Coiflet 4); 2. classification of rice cropping systems using parametric and nonparametric classification algorithms: the maximum likelihood classifier (MLC) and support vector machines (SVMs); and 3. verification of classification results using ground truth data and government rice statistics. Good results can be found using wavelet transformation for cleaning rice signatures. The results of classification accuracy assessment showed that the SVMs outperformed the MLC. The overall accuracy and Kappa coefficient achieved by the SVMs were 89.7% and 0.86, respectively, while those achieved by the MLC were 76.2% and 0.68, respectively. Comparison of the MODIS-derived areas obtained by the SVMs with the government rice statistics at the provincial level also demonstrated that the results achieved by the SVMs (R2 = 0.95) were better than the MLC (R2 = 0.91). This study demonstrates the effectiveness of using a nonparametric classification algorithm (SVMs) and time-series MODIS NVDI data for rice crop mapping in the Vietnamese MD.

  4. Expression, purification, and characterization of recombinant human transferrin from rice (Oryza sativa L.)

    PubMed Central

    Zhang, Deshui; Nandi, Somen; Bryan, Paula; Pettit, Steve; Nguyen, Diane; Santos, Mary Ann; Huang, Ning

    2010-01-01

    Transferrin is an essential ingredient used in cell culture media due to its crucial role in regulating cellular iron uptake, transport, and utilization. It is also a promising drug carrier used to increase a drug’s therapeutic index via the unique transferrin receptor-mediated endocytosis pathway. Due to the high risk of contamination with blood-borne pathogens from the use of human- or animal plasma-derived transferrin, recombinant transferrin is preferred for use as a replacement for native transferrin. We expressed recombinant human transferrin in rice (Oryza sativa L.) at a high level of 1% seed dry weight (10 g/kg). The recombinant human transferrin was able to be extracted with saline buffers and then purified by a one step anion exchange chromatographic process to greater than 95% purity. The rice-derived recombinant human transferrin was shown to be not only structurally similar to the native human transferrin, but also functionally the same as native transferrin in terms of reversible iron binding and promoting cell growth and productivity. These results indicate that rice-derived recombinant human transferrin should be a safe and low cost alternative to human or animal plasma-derived transferrin for use in cell culture-based biopharmaceutical production of protein therapeutics and vaccines. PMID:20447458

  5. Effects of aleurone layer on rice cooking: A histological investigation.

    PubMed

    Wu, Jianyong; Chen, Jun; Liu, Wei; Liu, Chengmei; Zhong, Yejun; Luo, Dawen; Li, Zhongqiang; Guo, Xiaojuan

    2016-01-15

    Understanding how aleurone layer (AL) affects rice cooking behaviour is important for rice processing. Individual effects of AL on rice cooking behaviour were evaluated and histological characters of AL before and after cooking were investigated. AL slightly affected rice cooking quality (optimum cooking time, water absorption, volume expansion ratio and total solids loss) while remarkably affected rice texture (hardness and adhesiveness) and peak viscosity. Histological investigation showed that channels were formed in AL during cooking. The channels facilitated the penetration of water, which could explain why AL exhibited slight effects on rice cooking quality. In addition, thick cell walls and thermally stable aleurone grains were widely distributed in AL. Leached components accumulated on them and formed a reinforced coated film on rice surface during cooking, which may be a possible mechanism accounting for the remarkable effect of AL on rice texture. Histological characters of AL are closely related with rice cooking behaviour.

  6. Effects of aleurone layer on rice cooking: A histological investigation.

    PubMed

    Wu, Jianyong; Chen, Jun; Liu, Wei; Liu, Chengmei; Zhong, Yejun; Luo, Dawen; Li, Zhongqiang; Guo, Xiaojuan

    2016-01-15

    Understanding how aleurone layer (AL) affects rice cooking behaviour is important for rice processing. Individual effects of AL on rice cooking behaviour were evaluated and histological characters of AL before and after cooking were investigated. AL slightly affected rice cooking quality (optimum cooking time, water absorption, volume expansion ratio and total solids loss) while remarkably affected rice texture (hardness and adhesiveness) and peak viscosity. Histological investigation showed that channels were formed in AL during cooking. The channels facilitated the penetration of water, which could explain why AL exhibited slight effects on rice cooking quality. In addition, thick cell walls and thermally stable aleurone grains were widely distributed in AL. Leached components accumulated on them and formed a reinforced coated film on rice surface during cooking, which may be a possible mechanism accounting for the remarkable effect of AL on rice texture. Histological characters of AL are closely related with rice cooking behaviour. PMID:26258698

  7. Efficient Production of a Bioactive Bevacizumab Monoclonal Antibody Using the 2A Self-cleavage Peptide in Transgenic Rice Callus.

    PubMed

    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

  8. 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

  9. 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

  10. 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.

  11. 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.

  12. 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. PMID:25536328

  13. 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...

  14. An update on the use of rice in value-added food products.

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Because of the huge quantity of rice produced annually, milled-rice co-products; such as, rice flour, rice bran, rice wax, and rice hull are plentiful and readily available. These co-products could be valuable sources of food ingredients, but they have been vastly under-utilized. This is a report ...

  15. 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...

  16. Proteomics of rice in response to heat stress and advances in genetic engineering for heat tolerance in rice.

    PubMed

    Zou, Jie; Liu, Cuifang; Chen, Xinbo

    2011-12-01

    Rice is the most important food crop worldwide. Global warming inevitably affects the grain yields of rice. Recent proteomics studies in rice have provided evidence for better understanding the mechanisms of thermal adaptation. Heat stress response in rice is complicated, involving up- or down-regulation of numerous proteins related to different metabolic pathways. The heat-responsive proteins mainly include protection proteins, proteins involved in protein biosynthesis, protein degradation, energy and carbohydrate metabolism, and redox homeostasis. In addition, increased thermotolerance in transgenic rice was obtained by overexpression of rice genes and genes from other plants. On the other hand, heterologous expression of some rice proteins led to enhanced thermotolerance in bacteria and other easily transformed plants. In this paper, we review the proteomic characterization of rice in response to high temperature and achievements of genetic engineering for heat tolerance in rice.

  17. 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...

  18. Impact of six transgenic Bacillus thuringiensis rice lines on four nontarget thrips species attacking rice panicles in the paddy field.

    PubMed

    Akhtar, Z R; Tian, J C; Chen, Y; Fang, Q; Hu, C; Peng, Y F; Ye, G Y

    2013-02-01

    As a key component of ecological risk assessments, nontarget effects of Bacillus thuringiensis (Bt) rice have been tested under laboratory and field conditions for various organisms. A 2-yr field experiment was conducted to observe the nontarget effects of six transgenic rice lines (expressing the Cry1Ab or fused protein of Cry1Ab and Cry1Ac) on four nontarget thrips species including Frankliniella intonsa (Trybom), F. tenuicornis (Uzel), Haplothrips aculeatus (F.), and H. tritici (Kurd), as compared with their rice parental control lines. Two sampling methods including the beat plate and plastic bag method were used to monitor the population densities of the four thrips species for 2 yr. The results showed that the seasonal average densities of four tested thrips species in Bt rice plots were significantly lower than or very similar to those in the non-Bt rice plots depending on rice genotypes, sampling methods, and years. Among all six tested Bt rice lines, transgenic B1 and KMD2 lines suppressed the population of these tested thrips species the most. Our results indicate that the tested Bt rice lines are unlikely to result in high population pressure of thrips species in comparison with non-Bt rice. In some cases, Bt rice lines could significantly suppress thrips populations in the rice ecosystem. In addition, compatibility of Bt rice, with rice host plant resistance to nontarget sucking pests is also discussed within an overall integrated pest management program for rice.

  19. Mycotoxin production on rice, pulses and oilseeds.

    PubMed

    Begum, F; Samajpati, N

    2000-06-01

    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 (333-10,416 micrograms/kg) was produced by Aspergillus spp. in rice, pulses and oilseeds.

  20. 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.

  1. Effect of gamma irradiation on rice and its food products

    NASA Astrophysics Data System (ADS)

    Sung, Wen-Chieh

    2005-07-01

    Two milled indica rice varieties were exposed to gamma radiation with doses ranging from 0 to 1.0 kGy. The effects of gamma irradiation on rice flour pasting properties and the qualities of its food product, rice curd, were compared to the effects of storage. A dose of 1 kGy can decrease the flour paste viscosity and tenderize the texture of the rice curd to similar levels as those obtained after 12 months of storage. It was thus shown that gamma irradiation could shorten the indica rice aging time and improve the processing stability and quality of rice products.

  2. Ectopic Expression of Hrf1 Enhances Bacterial Resistance via Regulation of Diterpene Phytoalexins, Silicon and Reactive Oxygen Species Burst in Rice

    PubMed Central

    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 harpinXoo 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 (H2O2) 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, H2O2, 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. PMID:22970151

  3. The impact of volunteer rice infestation on rice yield and grain quality

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Volunteer rice (Oryza sativa L.) is a crop stand which emerges from shattered seeds of the previous crop. When present at sufficiently high levels, it can potentially affect the commercial market value of cultivated rice products, especially if it produces kernels with quality, uniformity, or size ...

  4. 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 ...

  5. RiceCAP: Mapping rice milling yield QTL in a U.S. long grain cross

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Whole grain milling yield is a major determinant of rice crop value. Because this trait is under quantitative inheritance and is sensitive to variation due to the production environment and post-harvest handling, it is difficult to improve. This study was conducted as part of the USDA NRI RiceCAP pr...

  6. Transporters of arsenite in rice and their role in arsenic accumulation in rice grain.

    PubMed

    Ma, Jian Feng; Yamaji, Naoki; Mitani, Namiki; Xu, Xiao-Yan; Su, Yu-Hong; McGrath, Steve P; Zhao, Fang-Jie

    2008-07-22

    Arsenic poisoning affects millions of people worldwide. Human arsenic intake from rice consumption can be substantial because rice is particularly efficient in assimilating arsenic from paddy soils, although the mechanism has not been elucidated. Here we report that two different types of transporters mediate transport of arsenite, the predominant form of arsenic in paddy soil, from the external medium to the xylem. Transporters belonging to the NIP subfamily of aquaporins in rice are permeable to arsenite but not to arsenate. Mutation in OsNIP2;1 (Lsi1, a silicon influx transporter) significantly decreases arsenite uptake. Furthermore, in the rice mutants defective in the silicon efflux transporter Lsi2, arsenite transport to the xylem and accumulation in shoots and grain decreased greatly. Mutation in Lsi2 had a much greater impact on arsenic accumulation in shoots and grain in field-grown rice than Lsi1. Arsenite transport in rice roots therefore shares the same highly efficient pathway as silicon, which explains why rice is efficient in arsenic accumulation. Our results provide insight into the uptake mechanism of arsenite in rice and strategies for reducing arsenic accumulation in grain for enhanced food safety.

  7. Functional properties as affected by laboratory-scale parboiling of rough rice and brown rice.

    PubMed

    Patindol, J; Newton, J; Wang, Y-J

    2008-10-01

    Rough rice (RR) is the conventional feedstock for parboiling. The use of brown rice (BR) instead of RR is gaining interest because it results in shorter processing time and lower energy requirement. This study compared the functional properties of milled parboiled rice under different parboiling conditions from RR and BR. Presoaked RR and BR from cultivars Bolivar, Cheniere, Dixiebelle, and Wells were parboiled under mild (20 min, 100 degrees C, 0 kPa) and severe (20 min, 120 degrees C, 98 kPa) laboratory-scale conditions. Head rice yield improved on the RR and BR samples subjected to severe parboiling and was comparable to that of a commercially parboiled sample. Mild parboiling of BR resulted in lower head rice yields. Parboiling generally resulted in decreased head rice whiteness, decreased apparent amylose, increased total lipid, and sparingly changed protein content. Under the same parboiling conditions, the extent of starch gelatinization was higher for BR compared to RR as manifested by some distinct differences in pasting and thermal properties. The cooking characteristics (water uptake ratio, leached materials, and volumetric expansion) and cooked rice texture (hardness and stickiness) of RR and BR subjected to severe parboiling were fairly comparable. Differences in parboiled rice functional properties due to cultivar effect were evident. PMID:19019108

  8. 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: ...

  9. Microbial degradation of clomazone under simulated California rice field conditions.

    PubMed

    Tomco, Patrick L; Holstege, Dirk M; Zou, Wei; Tjeerdema, Ronald S

    2010-03-24

    Clomazone (trade names Cerano and Command) is a popular herbicide used on California rice fields to control aquatic weeds. Its physicochemical characteristics indicate that it will persist primarily in the water column, where microbial degradation may drive its environmental fate. The objectives were to determine microbial degradation rates and compare the metabolic products under aerobic and anaerobic conditions similar to those in California rice fields during the summer. Time-series samples were extracted and analyzed by LC/MS/MS. Metabolic profiling revealed the following clomazone-derived transitions: m/z 240 --> 125 (clomazone), m/z 242 --> 125 (ring-open clomazone), m/z 256 --> 125 (5-hydroxyclomazone), m/z 256 --> 141 (aromatic hydroxyclomazone), m/z 268 --> 125 (unknown metabolite), and m/z 272 --> 141 (4'5-dihydroxyclomazone). Results indicate an anaerobic half-life of 7.9 days, with ring-open clomazone reaching 67.4% of application at 38 days. Aerobically, clomazone degraded more slowly (t(1/2) = 47.3 days), forming mostly soil-bound residues. Thus, under summer conditions, clomazone is likely to dissipate rapidly from fields via anaerobic degradation.

  10. 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

  11. 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. PMID:25105267

  12. Cytokinin Activity of cis-Zeatin and Phenotypic Alterations Induced by Overexpression of Putative cis-Zeatin-O-glucosyltransferase in Rice1[C][W][OA

    PubMed Central

    Kudo, Toru; Makita, Nobue; Kojima, Mikiko; Tokunaga, Hiroki; Sakakibara, Hitoshi

    2012-01-01

    cis-Zeatin (cZ) is generally regarded as a cytokinin with little or no activity, compared with the highly active trans-zeatin (tZ). Although recent studies suggested possible roles for cZ, its physiological significance remains unclear. In our studies with rice (Oryza sativa), cZ inhibited seminal root elongation and up-regulated cytokinin-inducible genes, and its activities were comparable to those of tZ. Tracer experiments showed that exogenously supplied cZ-riboside was mainly converted into cZ derivatives but scarcely into tZ derivatives, indicating that isomerizations of cZ derivatives into tZ derivatives are a minor pathway in rice cytokinin metabolism. We identified three putative cZ-O-glucosyltransferases (cZOGT1, cZOGT2, and cZOGT3) in rice. The cZOGTs preferentially catalyzed O-glucosylation of cZ and cZ-riboside rather than tZ and tZ-riboside in vitro. Transgenic rice lines ectopically overexpressing the cZOGT1 and cZOGT2 genes exhibited short-shoot phenotypes, delay of leaf senescence, and decrease in crown root number, while cZOGT3 overexpressor lines did not show shortened shoots. These results propose that cZ activity has a physiological impact on the growth and development of rice. PMID:22811434

  13. Identification of chromosome regions associated with seedling vigor in rice.

    PubMed

    Huang, Zheng; Yu, Ting; Su, Li; Yu, Si-Bin; Zhang, Zhi-Hong; Zhu, Ying-Guo

    2004-06-01

    Seedling vigor is important for optimum stand establishment in rice cropping. In this paper,a set of 264 F12 recombinant inbred lines (RILs) derived by single seed descent from a cross between Lemont (japonica) and Teqing (indica) was phenotyped for three seedling vigor related traits, including seed germination rate (GR), seedling shoot length and dry weight by the rolled paper towel tests. The phenotype data and a linkage map consisting of 198 DNA markers were combined to map quantitative trait loci (QTL) for seedling vigor by using a computer program QTLMapper1.0. A total of 13 putative main-effect QTL were detected. All of these QTL had much smaller effects on the traits with a mean R2 of 6.2%, ranging from 2.9% to 12.7%. As for digenic interaction, 18 pairs of epistatic loci with R2 > or = 5% were resolved with a mean R2 of 6.9% ,ranging from 5.1% to 11.8%, which was slightly larger than that of the main-effect QTL identified for the traits. The majority of the main-effect and epistatic loci detected for seedling vigor related traits were clustered in a few chromosome regions. Together, seven such chromosome regions (CRs), each with three or more seedling vigor main-effect and epistatic loci, were found to be highly associated with seedling vigor. These CRs can be classified into three types, i.e. M-CRs, E-CRs and ME-CRs. For some CRs just like CR(SV-6), the QTL within one CR were found to interact simultaneously with QTL within more than one other CRs to affect different seedling vigor related traits. The above results revealed that seedling vigor in rice is controlled by many loci, most of which have relatively small effects. Comparatively, epistasis as a genetic factor would be more important than main-effects of QTL for seedling vigor in rice. Nevertheless, the effects of the QTL are still large enough to be detected and in fact several chromosome regions were found to be highly associated with seedling vigor in very different populations as compared with

  14. 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.

  15. 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.

  16. Energy consumption and performance models of small Philippine-built rice mills

    SciTech Connect

    Paras, A.S. Jr.

    1984-01-01

    Two simulation models were developed for small rice mills of the conventional disc-cone and rubber-roll equipped designs that range from 0.3 to 1.8 tons-per-hour capacity. These sizes comprise a large proportion of the rice mills in the Philippines. The first, a computer model, evaluated these two types of mills with regard to energy consumption, total and head grain recovery, and processing time. Field and laboratory data taken by research workers and direct measurements by the author were compiled and employed in the development of equations and distribution functions for the variables that make up the subroutines for the models. The results indicated that the energy consumption of small rice mills in the Philippines could be reduced by 5 to 19%, depending on size, without loss of quality in good-performance mills by using one bigger huller and an adjustable separator, and that the output quality of poor performance mills could be improved with just 4% increase in energy consumption by adding a second stage whitener. The second model estimated the cost of milled rice by utilizing Kirchoff's current and voltage laws and energy conservation principles to derive a cost equation involving the material energy and processing cost.

  17. Predicting As, Cd and Pb uptake by rice and vegetables using field data from China.

    PubMed

    Zhang, Hongzhen; Luo, Yongming; Song, Jing; Zhang, Haibo; Xia, Jiaqi; Zhao, Qiguo

    2011-01-01

    Plant uptake factor (PUF), single-variable regression of natural log-transformed concentrations in rice grain/vegetables versus natural log-transformed concentrations in soil and multiple-variable regression with soil concentrations and pH, was derived, validated and compared based on the paired crop and soil data collected from studies regarding As, Cd and Pb contaminated croplands in China. Results showed that the median value of PUF did not present deterministic prediction. But after natural logarithm transformation, the PUF followed Gaussian distribution which could be useful in risk assessment. The single-variable regression models were significant for As, Cd and Pb uptake both by rice and vegetables; however, the standard errors of all the regressions were comparatively large. Soil pH as a variable was generally significant but it only contributed positively to model fit for Cd uptake. After model comparison and selection, the upper 95% prediction limits of the multiple regression model for Cd uptake by rice was recommended to calculate screening value of Cd for paddy soil based on the limit for Cd concentration in rice grain. PMID:21476343

  18. 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.

  19. 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

  20. Dual mode ratiometric recognition of zinc acetate: nanomolar detection with in vitro tracking of endophytic bacteria in rice root tissue.

    PubMed

    Ghosh, Abhijit; Ta, Sabyasachi; Ghosh, Milan; Karmakar, Subhajit; Banik, Avishek; Dangar, Tushar Kanti; Mukhopadhyay, Subhra Kanti; Das, Debasis

    2016-01-14

    Several naphthalene-based aldazine derivatives were developed as efficient colorimetric and fluorescence probes for selective ratiometric recognition of traces of zinc acetate. The derivative structures were characterized by single-crystal X-ray diffraction. The probes were used for in vitro tracking of zinc acetate in endophytic bacteria within rice root tissue and to image zinc acetate in human breast cancer cells (MCF7) by normal and fluorescence microscopy. Density functional theoretical studies were in close agreement with the experimental findings.

  1. THE BENTHIC COMMUNITIES COMPARISON BETWEEN ORGANIC AND CONVENTIONAL RICE FIELDS.

    PubMed

    Kasamesiri, P; Thaimuangphol, W

    2015-01-01

    Rice fields are temporary wetlands prone to contamination from agricultural chemicals which affect their ecotoxicology and benthic community composition. The diversity of benthic fauna in both organic and conventional rice fields in Kalasin Province, Thailand was investigated. Benthos samples were collected by grab sampling from 20 stations in organic and conventional rice fields during one successive crop in August 2014. The number of benthic organisms found at each sampling station ranged from 16-518 and 24-137 individuals for organic and conventional rice fields, respectively. The benthic fauna in organic rice fields were dominated by crustaceans 41%, insects 31%, annelids 26%, and gastropods 2%. The conventional rice fields benthic fauna was composed of insects 51%, annelids 41%, and gastropods 8%. The abundance and composition of the benthic fauna demonstrated that organic rice farming practices are beneficial to sustaining the biodiversity in rice field ecosystems.

  2. 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...

  3. 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.

  4. Transformation of rice mediated by Agrobacterium tumefaciens.

    PubMed

    Hiei, Y; Komari, T; Kubo, T

    1997-09-01

    Agrobacterium tumefaciens has been routinely utilized in gene transfer to dicotyledonous plants, but monocotyledonous plants including important cereals were thought to be recalcitrant to this technology as they were outside the host range of crown gall. Various challenges to infect monocotyledons including rice with Agrobacterium had been made in many laboratories, but the results were not conclusive until recently. Efficient transformation protocols mediated by Agrobacterium were reported for rice in 1994 and 1996. A key point in the protocols was the fact that tissues consisting of actively dividing, embryonic cells, such as immature embryos and calli induced from scutella, were co-cultivated with Agrobacterium in the presence of acetosyringonc, which is a potent inducer of the virulence genes. It is now clear that Agrobacterium is capable of transferring DNA to monocotyledons if tissues containing 'competent' cells are infected. The studies of transformation of rice suggested that numerous factors including genotype of plants, types and ages of tissues inoculated, kind of vectors, strains of Agrobacterium, selection marker genes and selective agents, and various conditions of tissue culture, are of critical importance. Advantages of the Agrobacterium-mediated transformation in rice, like on dicotyledons, include the transfer of pieces of DNA with defined ends with minimal rearrangements, the transfer of relatively large segments of DNA, the integration of small numbers of copies of genes into plant chromosomes, and high quality and fertility of transgenic plants. Delivery of foreign DNA to rice plants via A. tumefaciens is a routine technique in a growing number of laboratories. This technique will allow the genetic improvement of diverse varieties of rice, as well as studies of many aspects of the molecular biology of rice. PMID:9291974

  5. 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

  6. 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.

  7. Effects of changing rice cultural practices on C-band synthetic aperture radar backscatter using Envisat advanced synthetic aperture radar data in the Mekong River Delta

    NASA Astrophysics Data System (ADS)

    Lam-Dao, Nguyen; Le Toan, Thuy; Apan, Armando; Bouvet, Alexandre; Young, Frank; Le-van, Trung

    2009-11-01

    Changes in rice cultivation systems have been observed in the Mekong River Delta, Vietnam. Among the changes in cultural practices, the change from transplanting to direct sowing, the use of water-saving technology, and the use of high production method could have impacts on radar remote sensing methods previously developed for rice monitoring. Using Envisat (Environmental Satellite) ASAR (Advanced Synthetic Aperture Radar) data over the province of An Giang, this study showed that the radar backscattering behaviour is much different from that of the reported traditional rice. At the early stage of the season, direct sowing on fields with rough and wet soil surface provides very high backscatter values for HH (Horizontal transmit - Horizontal receive polarisation) and VV (Vertical transmit - Vertical receive polarisation) data, as a contrast compared to the very low backscatter of fields covered with water before emergence. The temporal increase of the backscatter is therefore not observed clearly over direct sowing fields. Hence, the use of the intensity temporal change as a rice classifier proposed previously may not apply. Due to the drainage that occurs during the season, HH, VV and HH/VV are not strongly related to biomass, in contrast with past results. However, HH/VV ratio could be used to derive the rice/non-rice classification algorithm for all conditions of rice fields in the test province. The mapping results using the HH/VV polarization ratio at a single date in the middle period of the rice season were assessed using statistical data at different districts in the province, where very high accuracy was found. The method can be applied to other regions, provided that the synthetic aperture radar data are acquired during the peak period of the rice season, and that few training fields provide adjusted threshold values used in the method.

  8. 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

  9. A Genome-Wide Survey of Imprinted Genes in Rice Seeds Reveals Imprinting Primarily Occurs in the Endosperm

    PubMed Central

    Luo, Ming; Taylor, Jennifer M.; Spriggs, Andrew; Zhang, Hongyu; Wu, Xianjun; Russell, Scott; Singh, Mohan; Koltunow, Anna

    2011-01-01

    Genomic imprinting causes the expression of an allele depending on its parental origin. In plants, most imprinted genes have been identified in Arabidopsis endosperm, a transient structure consumed by the embryo during seed formation. We identified imprinted genes in rice seed where both the endosperm and embryo are present at seed maturity. RNA was extracted from embryos and endosperm of seeds obtained from reciprocal crosses between two subspecies Nipponbare (Japonica rice) and 93-11 (Indica rice). Sequenced reads from cDNA libraries were aligned to their respective parental genomes using single-nucleotide polymorphisms (SNPs). Reads across SNPs enabled derivation of parental expression bias ratios. A continuum of parental expression bias states was observed. Statistical analyses indicated 262 candidate imprinted loci in the endosperm and three in the embryo (168 genic and 97 non-genic). Fifty-six of the 67 loci investigated were confirmed to be imprinted in the seed. Imprinted loci are not clustered in the rice genome as found in mammals. All of these imprinted loci were expressed in the endosperm, and one of these was also imprinted in the embryo, confirming that in both rice and Arabidopsis imprinted expression is primarily confined to the endosperm. Some rice imprinted genes were also expressed in vegetative tissues, indicating that they have additional roles in plant growth. Comparison of candidate imprinted genes found in rice with imprinted candidate loci obtained from genome-wide surveys of imprinted genes in Arabidopsis to date shows a low degree of conservation, suggesting that imprinting has evolved independently in eudicots and monocots. PMID:21731498

  10. Effect of waxy rice flour and cassava starch on freeze-thaw stability of rice starch gels.

    PubMed

    Charoenrein, Sanguansri; Preechathammawong, Nutsuda

    2012-10-01

    Repeatedly frozen and thawed rice starch gel affects quality. This study investigated how incorporating waxy rice flour (WF) and cassava starch (CS) in rice starch gel affects factors used to measure quality. When rice starch gels containing 0-2% WF and CS were subjected to 5 freeze-thaw cycles, both WF and CS reduced the syneresis in first few cycles. However CS was more effective in reducing syneresis than WF. The different composite arrangement of rice starch with WF or CS caused different mechanisms associated with the rice starch gel retardation of retrogradation, reduced the spongy structure and lowered syneresis. Both swollen granules of rice starch and CS caused an increase in the hardness of the unfrozen and freeze-thawed starch gel while highly swollen WF granules caused softer gels. These results suggested that WF and CS were effective in preserving quality in frozen rice starch based products.

  11. 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.

  12. Registration of 'RU9101001'/'Katy' recombinant inbred lines of rice

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The cross of RU9101001/'Katy' rice (Oryza sativa L.) was used to develop a mapping population consisting of 238 F9 generation recombinant inbred lines of rice (Oryza sativa L.) (GSOR100361 to GSOR100600). This population has been used to map major genes that provide resistance to the rice blast pat...

  13. 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...

  14. 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.

  15. Investigating irrigation scheduling for rice using variable rate irrigation

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Because almost all US rice is produced with continuous flood irrigation, little information addresses irrigation scheduling for rice; however, successful production of rice without a continuous flood will require scheduling, or timely irrigation. A field study conducted at the University of Missouri...

  16. 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...

  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. Adding Value to Rice From Grain to Product

    Technology Transfer Automated Retrieval System (TEKTRAN)

    A shrinking export market, due to one time importers now being exporters of high quality rice, and declining worldwide per-capita consumption resulting from diet diversification, have hit the rice industry in the United States with challenges and opportunities to develop new markets for rice. Value...

  19. 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...

  20. 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...

  1. Arsenic burden of cooked rice: Traditional and modern methods.

    PubMed

    Sengupta, M K; Hossain, M A; Mukherjee, A; Ahamed, S; Das, B; Nayak, B; Pal, A; Chakraborti, D

    2006-11-01

    Arsenic contamination of rice by irrigation with contaminated groundwater and secondarily increased soil arsenic compounds the arsenic burden of populations dependent on subsistence rice-diets. The arsenic concentration of cooked rice is known to increase with the arsenic concentration of the cooking water but the effects of cooking methods have not been defined. We tested the three major rice cooking procedures followed globally. Using low-arsenic water (As < 3 microg/L), the traditional method of the Indian subcontinent (wash until clear; cook with rice: water::1:6; discard excess water) removed up to 57% of the arsenic from rice containing arsenic 203-540 microg/kg. Approximately half of the arsenic was lost in the wash water, half in the discard water. A simple inexpensive rice cooker based on this method has been designed and used for this purpose. Despite the use of low-arsenic water, the contemporary method of cooking unwashed rice at rice:water::1:1.5-2.0 until no discard water remains did not modify the arsenic content. Preliminary washing until clear did remove 28% of the rice arsenic. The results were not influenced by water source (tubewell, dug well, pond or rain); cooking vessel (aluminium, steel, glass or earthenware); or the absolute weight of rice or volume of water. The use of low-As water in the traditional preparation of arsenic contaminated rice can reduce the ingested burden of arsenic.

  2. 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

  3. 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. PMID:24972509

  4. 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. ...

  5. 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...

  6. Taste of Super-Dwarf Rice Cultured in Space

    NASA Astrophysics Data System (ADS)

    Hirai, Hiroaki; Kitaya, Yoshiaki

    2016-07-01

    The interest of food production for lunar base and manned Mars mission has increased recently. So far, plants cultured long duration in space were leafy vegetables, arabidopsis, wheat, barley and so on. Although rice is a staple food for most of the world, research on rice cultivation in space has not been done much. Rice grains are nutrient-rich with carbohydrate, protein and dietary fiber. Moreover, rice is a high yield crop and harvested grains have a long shelf life. Rice symbolizes the rice-eating culture of Japan, is extremely useful as a specific cultured plant candidate of Japan in space. In the previous report, 'Kozo-no-sumika' found from seedlings in raising of seedling was introduced as a super-dwarf rice to culture in space. Considering this rice as food in space, we investigate the taste characteristics of this rice. At present, waxy 'Kozo-no-sumika' and nonwaxy 'Hosetsu dwarf' of super-dwarf rice and 'Nipponbare' of previous standard rice for sensory test are cultured in paddy field. Hereafter, we will harvest rice, investigate yield, evaluate taste.

  7. Arsenic burden of cooked rice: Traditional and modern methods.

    PubMed

    Sengupta, M K; Hossain, M A; Mukherjee, A; Ahamed, S; Das, B; Nayak, B; Pal, A; Chakraborti, D

    2006-11-01

    Arsenic contamination of rice by irrigation with contaminated groundwater and secondarily increased soil arsenic compounds the arsenic burden of populations dependent on subsistence rice-diets. The arsenic concentration of cooked rice is known to increase with the arsenic concentration of the cooking water but the effects of cooking methods have not been defined. We tested the three major rice cooking procedures followed globally. Using low-arsenic water (As < 3 microg/L), the traditional method of the Indian subcontinent (wash until clear; cook with rice: water::1:6; discard excess water) removed up to 57% of the arsenic from rice containing arsenic 203-540 microg/kg. Approximately half of the arsenic was lost in the wash water, half in the discard water. A simple inexpensive rice cooker based on this method has been designed and used for this purpose. Despite the use of low-arsenic water, the contemporary method of cooking unwashed rice at rice:water::1:1.5-2.0 until no discard water remains did not modify the arsenic content. Preliminary washing until clear did remove 28% of the rice arsenic. The results were not influenced by water source (tubewell, dug well, pond or rain); cooking vessel (aluminium, steel, glass or earthenware); or the absolute weight of rice or volume of water. The use of low-As water in the traditional preparation of arsenic contaminated rice can reduce the ingested burden of arsenic. PMID:16876928

  8. RNA-sequencing reveals previously unannotated protein- and microRNA-coding genes expressed in aleurone cells of rice seeds.

    PubMed

    Watanabe, Kenneth A; Ringler, Patricia; Gu, Lingkun; Shen, Qingxi J

    2014-01-01

    The rice genome annotation has been greatly improved in recent years, largely due to the availability of full length cDNA sequences derived from many tissues. Among those yet to be studied is the aleurone layer, which produces hydrolases for mobilization of seed storage reserves during seed germination and post germination growth. Herein, we report transcriptomes of aleurone cells treated with the hormones abscisic acid, gibberellic acid, or both. Using a comprehensive approach, we identified hundreds of novel genes. To minimize the number of false positives, only transcripts that did not overlap with existing annotations, had a high level of expression, and showed a high level of uniqueness within the rice genome were considered to be novel genes. This approach led to the identification of 553 novel genes that encode proteins and/or microRNAs. The transcriptome data reported here will help to further improve the annotation of the rice genome.

  9. Capped nonviral sequences at the 5' end of the mRNAs of rice hoja blanca virus RNA4.

    PubMed

    Ramirez, B C; Garcin, D; Calvert, L A; Kolakofsky, D; Haenni, A L

    1995-03-01

    Subgenomic RNAs of both polarities corresponding to rice hoja blanca virus (RHBV) ambisense RNA4 were detected in RHBV-infected rice tissues. Total RNA extracted from RHBV-infected and noninfected rice tissues and RNA4 purified from RHBV ribonucleoprotein particles were used as templates for primer extension studies. The RNAs extracted from RHBV-infected tissues contain a population of RNA molecules with 10 to 17 nonviral nucleotides at their 5' end. The RNA-cDNA hybrids resulting from primer extension of such RNA molecules were specifically immunoselected with anti-cap antibodies, indicating that the subgenomic RNAs are capped and probably serve as mRNAs and that the additional nucleotides at their 5' end possibly derive from host mRNAs via a cap-snatching mechanism. PMID:7853540

  10. Plant Gene and Alternatively Spliced Variant Annotator. A plant genome annotation pipeline for rice gene and alternatively spliced variant identification with cross-species expressed sequence tag conservation from seven plant species.

    PubMed

    Chen, Feng-Chi; Wang, Sheng-Shun; Chaw, Shu-Miaw; Huang, Yao-Ting; Chuang, Trees-Juen

    2007-03-01

    The completion of the rice (Oryza sativa) genome draft has brought unprecedented opportunities for genomic studies of the world's most important food crop. Previous rice gene annotations have relied mainly on ab initio methods, which usually yield a high rate of false-positive predictions and give only limited information regarding alternative splicing in rice genes. Comparative approaches based on expressed sequence tags (ESTs) can compensate for the drawbacks of ab initio methods because they can simultaneously identify experimental data-supported genes and alternatively spliced transcripts. Furthermore, cross-species EST information can be used to not only offset the insufficiency of same-species ESTs but also derive evolutionary implications. In this study, we used ESTs from seven plant species, rice, wheat (Triticum aestivum), maize (Zea mays), barley (Hordeum vulgare), sorghum (Sorghum bicolor), soybean (Glycine max), and Arabidopsis (Arabidopsis thaliana), to annotate the rice genome. We developed a plant genome annotation pipeline, Plant Gene and Alternatively Spliced Variant Annotator (PGAA). Using this approach, we identified 852 genes (931 isoforms) not annotated in other widely used databases (i.e. the Institute for Genomic Research, National Center for Biotechnology Information, and Rice Annotation Project) and found 87% of them supported by both rice and nonrice EST evidence. PGAA also identified more than 44,000 alternatively spliced events, of which approximately 20% are not observed in the other three annotations. These novel annotations represent rich opportunities for rice genome research, because the functions of most of our annotated genes are currently unknown. Also, in the PGAA annotation, the isoforms with non-rice-EST-supported exons are significantly enriched in transporter activity but significantly underrepresented in transcription regulator activity. We have also identified potential lineage-specific and conserved isoforms, which are

  11. Arsenic in rice and diets of children.

    PubMed

    Tinggi, Ujang; Schoendorfer, Niikee; Scheelings, Pieter; Yang, Xiaohong; Jurd, Sharon; Robinson, Amanda; Smith, Katrina; Piispanen, John

    2015-01-01

    Levels of arsenic in Australian and imported rice (n = 36) were evaluated using inductively coupled plasma mass spectrometry (ICP-MS) for total arsenic and a hyphenated high-performance liquid chromatography ICP-MS system for arsenic species. The study also assessed the daily intake of total As from diets of healthy children (n = 15), collected over three consecutive days. A wide variation of total As levels (range: <0.05-0.42 mg/kg) in Australian and imported rice was found. The mean level of total As (0.24 ± 0.09 mg/kg, n = 10) in the Australian rice was relatively higher than imported rice from other countries (0.09 ± 0.04 mg/kg, n = 26). The mean level (0.25 ± 0.08 mg/kg, n = 7) of dimethylarsenic acid was considerably higher than that of inorganic As (III) (0.07 ± 0.03 mg/kg, n = 7) in the Australian rice. Children's daily intakes of total As varied widely, ranging from 1.7 to 31.2 (11.5 ± 8.9 µg/day), which was comparable to other countries. PMID:26125528

  12. Arsenic biotransformation and volatilization in transgenic rice.

    PubMed

    Meng, Xiang-Yan; Qin, Jie; Wang, Li-Hong; Duan, Gui-Lan; Sun, Guo-Xin; Wu, Hui-Lan; Chu, Cheng-Cai; Ling, Hong-Qing; Rosen, Barry P; Zhu, Yong-Guan

    2011-07-01

    • Biotransformation of arsenic includes oxidation, reduction, methylation, and conversion to more complex organic arsenicals. Members of the class of arsenite (As(III)) S-adenosylmethyltransferase enzymes catalyze As(III) methylation to a variety of mono-, di-, and trimethylated species, some of which are less toxic than As(III) itself. However, no methyltransferase gene has been identified in plants. • Here, an arsM gene from the soil bacterium Rhodopseudomonas palustris was expressed in Japonica rice (Oryza sativa) cv Nipponbare, and the transgenic rice produced methylated arsenic species, which were measured by inductively coupled plasma mass spectrometry (ICP-MS) and high-performance liquid chromatography-inductively coupled plasma mass spectrometry (HPLC-ICP-MS). • Both monomethylarsenate (MAs(V)) and dimethylarsenate (DMAs(V)) were detected in the roots and shoots of transgenic rice. After 12 d exposure to As(III), the transgenic rice gave off 10-fold greater volatile arsenicals. • The present study demonstrates that expression of an arsM gene in rice induces arsenic methylation and volatilization, theoretically providing a potential stratagem for phytoremediation. PMID:21517874

  13. Factors affecting methane emission from rice fields

    NASA Astrophysics Data System (ADS)

    Neue, H. U.; Wassmann, R.; Lantin, R. S.; Alberto, Ma C. R.; Aduna, J. B.; Javellana, A. M.

    Emission of CH 4 from ricefields is the result of anoxic bacterial methane production. Global estimates of annual CH 4 emission from ricefields is 100 Tg. CH 4 emission data from limited sites are tentative. It is essential that uncertainty in individual sources is reduced in order to develop feasible and effective mitigation options which do not negate gains in rice production and productivity. Field studies at the International Rice Research Institute show that soil and added organic matter are the sources for initial methane production. Addition of rice straw enhances methane production. Roots and root exudates of wetland rice plants appear to be the major carbon sources at ripening stage. The production and transport of CH 4 to the atmosphere depend on properties of the rice plant. Under the same spacing and fertilization, the traditional variety Dular emitted more CH 4 per day than did the new plant type IR65597. Upon flooding for land preparation anaerobic conditions result in significant amount of methane being formed. Drying the field at midtillering significantly reduced total CH 4 emissions. Large amounts of entrapped CH 4 escape to the atmosphere when floodwater recedes upon drying at harvest. Cultural practices may account for 20% of the overall seasonal CH 4 emissions.

  14. [Effect of ridge & terraced ecological rice farming on rice photosynthetic characteristics and yield].

    PubMed

    Zheng, Hua-Bin; Liu, Jian-Xia; Yao, Lin; He, Hui; Huang, Huang

    2014-09-01

    Taking super hybrid rice Y-liangyou 1, and hybrid rice Xianyou 63 and conventional rice Huanghuazhan as test materials, a field experiment was conducted in Changsha City of Hunan Province in 2011 and 2012 to investigate the effects of ridge & terraced ecological rice farming (RT) and bed ecological rice farming (B) on rice grain yield and photosynthetic characteristics. Compared with conventional rice farming (CK) , yield of Y-liangyou 1 in the RT was increased significantly by 28.7%, the effective panicles per unit area and spikelets per panicle were increased by 16.1% and 6.8%, respectively. Yields of Xianyou 63 and Huanghuazhan in the RT and B were 24.3% and 19.7%, 12.0% and 16.2% higher than those of CK, respectively. Leaf area index, dry matter accumulation before and after full-heading, total dry matter accumulation of Y-liangyou 1 in the RT was higher than that of CK. Number of spikelets/leaf area, number of filled grains/leaf area, grain mass/leaf area of Y-liangyou 1 in the RT were 8.1%, 14.8% and 15.8% higher than those of CK, respectively, the photosynthetic potential was increased by 32.2% while the net assimilation rate was declined by 9.3%.

  15. Production of a saccharifying rice malt for brewing using different rice varieties and malting parameters.

    PubMed

    Mayer, Heidi; Marconi, Ombretta; Regnicoli, Gian Franco; Perretti, Giuseppe; Fantozzi, Paolo

    2014-06-11

    This study was conducted to produce rice malt suitable for beer brewing. An all-rice beer would be particularly appealing to individuals with celiac disease because rice does not contain gluten proteins. Furthermore, rice malt could also contribute to new beer flavors and brands. A screening of 10 rice varieties was conducted. The varieties Balilla and Centauro were found to be suitable for the production of an all-rice malt beer without the need of exogenous enzymes. They were characterized by a low diastatic power but nevertheless they saccharified well, likely due to other endogenous amylolytic enzymes such as limit dextrinase and α-glucosidase. The addition of CaCl2 and lactic acid during mashing lowered the pH value and increased saccharification. However, the Balilla variety saccharified without the need of these additives. We also show that the soluble nitrogen and free amino nitrogen content of rice malt wort can be increased by the incorporation of the acrospires and rootlets during mashing.

  16. Multi-year monitoring of paddy rice planting area in Northeast China using MODIS time series data*

    PubMed Central

    Shi, Jing-jing; Huang, Jing-feng; Zhang, Feng

    2013-01-01

    The objective of this study was to investigate the tempo-spatial distribution of paddy rice in Northeast China using moderate resolution imaging spectroradiometer (MODIS) data. We developed an algorithm for detection and estimation of the transplanting and flooding periods of paddy rice with a combination of enhanced vegetation index (EVI) and land surface water index with a central wavelength at 2 130 nm (LSWI2130). In two intensive sites in Northeast China, fine resolution satellite imagery was used to validate the performance of the algorithm at pixel and 3×3 pixel window levels, respectively. The commission and omission errors in both of the intensive sites were approximately less than 20%. Based on the algorithm, annual distribution of paddy rice in Northeast China from 2001 to 2009 was mapped and analyzed. The results demonstrated that the MODIS-derived area was highly correlated with published agricultural statistical data with a coefficient of determination (R 2) value of 0.847. It also revealed a sharp decline in 2003, especially in the Sanjiang Plain located in the northeast of Heilongjiang Province, due to the oversupply and price decline of rice in 2002. These results suggest that the approaches are available for accurate and reliable monitoring of rice cultivated areas and variation on a large scale. PMID:24101210

  17. 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. PMID:24737077

  18. The rare sugar d-allose acts as a triggering molecule of rice defence via ROS generation

    PubMed Central

    Akimitsu, Kazuya

    2013-01-01

    Only d-allose, among various rare monosaccharides tested, induced resistance to Xanthomonas oryzae pv. oryzae in susceptible rice leaves with defence responses: reactive oxygen species, lesion mimic formation, and PR-protein gene expression. These responses were suppressed by ascorbic acid or diphenylene iodonium. Transgenic rice plants overexpressing OsrbohC, encoding NADPH oxidase, were enhanced in sensitivity to d-allose. d-Allose-mediated defence responses were suppressed by the presence of a hexokinase inhibitor. 6-Deoxy-d-allose, a structural derivative of d-allose unable to be phosphorylated, did not confer resistance. Transgenic rice plants expressing Escherichia coli AlsK encoding d-allose kinase to increase d-allose 6-phosphate synthesis were more sensitive to d-allose, but E. coli AlsI encoding d-allose 6-phosphate isomerase expression to decrease d-allose 6-phosphate reduced sensitivity. A d-glucose 6-phosphate dehydrogenase-defective mutant was also less sensitive, and OsG6PDH1 complementation restored full sensitivity. These results reveal that a monosaccharide, d-allose, induces rice resistance to X. oryzae pv. oryzae by activating NADPH oxidase through the activity of d-glucose 6-phosphate dehydrogenase, initiated by hexokinase-mediated conversion of d-allose to d-allose 6-phosphate, and treatment with d-allose might prove to be useful for reducing disease development in rice. PMID:24014866

  19. Loop Nucleotide Polymorphism in a Putative miRNA Precursor Associated with Seed Length in Rice (Oryza sativa L.)

    PubMed Central

    Wang, Chunming; Ye, Jian; Tang, Weijie; Liu, Zhiyi; Zhu, Chengsong; Wang, Maoqing; Wan, Jianmin

    2013-01-01

    The terminal loop region of primary miRNA transcripts is an important determinant controlling miRNA function in human, animals and plants. However, the effects of polymorphisms in loop region of miRNA precusors on phenotypic variation have not been reported, especially on agronomic traits in rice. From rice japonica variety Koshihikari and indica Guichao2, we isolated a precursor of putative miRNA osa-MIR2923a. We detected a GG/AA polymorphism in the loop structure from japonica and indica rice varieties, which was corresponding to japonica/indica rice differentiation. By using high-resolution melting (HRM) analysis, we measured the polymorphisms in a RIL (recombinant inbred lines) population derived from japonica variety Koshihikari and indica Guichao2. We found that the GG/AA polymorphism in the osa-MIR2923a loop was correlated to grain length and length-width ratio. We further found the significant association between seed length and GG/AA polymorphism in a population consisting of 72 rice landraces. Three targets were predicted, whose expressions showed significant differences between the two varieties. Our results suggested that the putative miRNA precursor and the three target genes could play functional roles for indica/japonica seed differentiation. PMID:23847440

  20. Evolutionary and social consequences of introgression of nontransgenic herbicide resistance from rice to weedy rice in Brazil.

    PubMed

    Merotto, Aldo; Goulart, Ives C G R; Nunes, Anderson L; Kalsing, Augusto; Markus, Catarine; Menezes, Valmir G; Wander, Alcido E

    2016-08-01

    Several studies have expressed concerns about the effects of gene flow from transgenic herbicide-resistant crops to their wild relatives, but no major problems have been observed. This review describes a case study in which what has been feared in transgenics regarding gene flow has actually changed biodiversity and people's lives. Nontransgenic imidazolinone-resistant rice (IMI-rice) cultivars increased the rice grain yield by 50% in southern Brazil. This increase was beneficial for life quality of the farmers and also improved the regional economy. However, weedy rice resistant to imidazolinone herbicides started to evolve three years after the first use of IMI-rice cultivars. Population genetic studies indicate that the herbicide-resistant weedy rice was mainly originated from gene flow from resistant cultivars and distributed by seed migration. The problems related with herbicide-resistant weedy rice increased the production costs of rice that forced farmers to sell or rent their land. Gene flow from cultivated rice to weedy rice has proven to be a large agricultural, economic, and social constraint in the use of herbicide-resistant technologies in rice. This problem must be taken into account for the development of new transgenic or nontransgenic rice technologies.

  1. Analysis of an SFP marker in the rice fgr/BAD2 gene and fragrance in US rice germplasm

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The fgr gene on rice chromosome 8 has been identified to control the presence of grain fragrance/aroma in rice. An eight base in the fgr gene was found by Bradbury et. al (2005) in aromatic rice accessions, with this recessive mutation causing a loss in function of the betaine aldehyde dehydrogenase...

  2. Analysis of an SFP marker in the Rice fgr/BAD2 gene and fragrance in US rice germplasm

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The fgr gene on rice chromosome 8 has been identified to control the presence of grain fragrance/aroma in rice. An eight base pair deletion in the fgr gene was found by Bradbury et al. (2005) in aromatic rice accessions, with this recessive mutation causing a loss in function of the betaine aldehyde...

  3. Evolutionary and social consequences of introgression of nontransgenic herbicide resistance from rice to weedy rice in Brazil.

    PubMed

    Merotto, Aldo; Goulart, Ives C G R; Nunes, Anderson L; Kalsing, Augusto; Markus, Catarine; Menezes, Valmir G; Wander, Alcido E

    2016-08-01

    Several studies have expressed concerns about the effects of gene flow from transgenic herbicide-resistant crops to their wild relatives, but no major problems have been observed. This review describes a case study in which what has been feared in transgenics regarding gene flow has actually changed biodiversity and people's lives. Nontransgenic imidazolinone-resistant rice (IMI-rice) cultivars increased the rice grain yield by 50% in southern Brazil. This increase was beneficial for life quality of the farmers and also improved the regional economy. However, weedy rice resistant to imidazolinone herbicides started to evolve three years after the first use of IMI-rice cultivars. Population genetic studies indicate that the herbicide-resistant weedy rice was mainly originated from gene flow from resistant cultivars and distributed by seed migration. The problems related with herbicide-resistant weedy rice increased the production costs of rice that forced farmers to sell or rent their land. Gene flow from cultivated rice to weedy rice has proven to be a large agricultural, economic, and social constraint in the use of herbicide-resistant technologies in rice. This problem must be taken into account for the development of new transgenic or nontransgenic rice technologies. PMID:27468302

  4. The politics of Golden Rice.

    PubMed

    Dubock, Adrian

    2014-07-01

    Genetic knowledge applicable to crop improvement has erupted over the past 60 years, and the techniques of introducing genes from one organism to another have enabled new varieties of crops not achievable by previously available methodologies of crop breeding. Research and particularly development of these GMO-crops to a point where they are useful for growers and consumers in most countries is subject to complex national and international rules arising out of the UN's Cartagena Protocol on Biosafety to the Convention on Biological Diversity, with 167 country signatories. (The USA and Canada are not signatories.) The Protocol was developed based on concerns initially expressed in the 1970's that such technology presented unusual risks to man and the environment. Those ideas have comprehensively and authoritatively been proven to be wrong. The Protocol has nevertheless spawned significant regulatory obstacles to the development of GMO-crop technology at great cost to global society and in conflict with many other UN objectives. The suspicion induced by the Protocol is also widely used, overtly or covertly, for political purposes. These points are illustrated by reference to the not-for-profit Golden Rice project. PMID:25437240

  5. The politics of Golden Rice

    PubMed Central

    Dubock, Adrian

    2014-01-01

    Genetic knowledge applicable to crop improvement has erupted over the past 60 years, and the techniques of introducing genes from one organism to another have enabled new varieties of crops not achievable by previously available methodologies of crop breeding. Research and particularly development of these GMO-crops to a point where they are useful for growers and consumers in most countries is subject to complex national and international rules arising out of the UN's Cartagena Protocol on Biosafety to the Convention on Biological Diversity, with 167 country signatories. (The USA and Canada are not signatories.) The Protocol was developed based on concerns initially expressed in the 1970's that such technology presented unusual risks to man and the environment. Those ideas have comprehensively and authoritatively been proven to be wrong. The Protocol has nevertheless spawned significant regulatory obstacles to the development of GMO-crop technology at great cost to global society and in conflict with many other UN objectives. The suspicion induced by the Protocol is also widely used, overtly or covertly, for political purposes. These points are illustrated by reference to the not-for-profit Golden Rice project. PMID:25437240

  6. The politics of Golden Rice.

    PubMed

    Dubock, Adrian

    2014-07-01

    Genetic knowledge applicable to crop improvement has erupted over the past 60 years, and the techniques of introducing genes from one organism to another have enabled new varieties of crops not achievable by previously available methodologies of crop breeding. Research and particularly development of these GMO-crops to a point where they are useful for growers and consumers in most countries is subject to complex national and international rules arising out of the UN's Cartagena Protocol on Biosafety to the Convention on Biological Diversity, with 167 country signatories. (The USA and Canada are not signatories.) The Protocol was developed based on concerns initially expressed in the 1970's that such technology presented unusual risks to man and the environment. Those ideas have comprehensively and authoritatively been proven to be wrong. The Protocol has nevertheless spawned significant regulatory obstacles to the development of GMO-crop technology at great cost to global society and in conflict with many other UN objectives. The suspicion induced by the Protocol is also widely used, overtly or covertly, for political purposes. These points are illustrated by reference to the not-for-profit Golden Rice project.

  7. Phosphorus losses to water from lowland rice fields under rice-wheat double cropping system in the Tai Lake region.

    PubMed

    Cao, Z H; Zhang, H C

    2004-01-01

    To assess P losses to surface water by runoff during the rice season and by drainage flow during the winter wheat season, serial field trials were conducted in different types of paddy soils in the Tai Lake Region (TLR) during 2000 and 2001. Four P application rates were set as 0 (CK), 30, 150, and 300 kg P/hm2 for flooded rice trials and 0 (CK), 20, 80, 160 kg P/hm2 for winter wheat trials respectively. Field experiments were done in two locations with a plot size of 30 m2 and four replications in a randomized complete block design. A simplified lysimeter was installed for each plot to collect all the runoff or drainage flow from each event. Total P (TP) losses to surface water during rice season by runoff flow from four treatments were 150 (CK), 220 (T30), 395 (T150), 670 (T300) g P/ hm2 in year 2000, and 298, 440, 1828, 3744 g P/hm2 in year 2001 respectively in Wuxi station, here the soil is permeable paddy soil derived from loam clay deposit. While the losses were 102, 140, 210, 270 in year 2000, and 128, 165, 359, 589 g P/hm2 in year 2001 respectively in Changshu station, here the soil is waterlogged paddy soil derived from silt loam deposit. During the winter wheat season, total P lost from the fields by drainage flow in the four treatments were 253 (CK), 382 (T20), 580 (T89), 818 (T160) g P/hm2 in year 2000--2001, and 573.3, 709.4, 1123.2, 1552.4 g P/hm2 in year 2001--2002 at the Wuxi station. While these were 395.6, 539.1, 1356.8, 1972.1 g P/hm2 in year 2000--2001, and 811.5, 1184.6, 3001.2, 5333.1 g P/hm2 in year 2001--2002 at the Changshu station. Results revealed that P fertilizer application rates significantly affected the TP concentrations and TP loads in runoff during the rice season, and by drainage flow during the winter wheat season. Both TP loads were significantly increased as the P application rate increases. The data indicate that TP losses to surface water were much higher during the winter wheat season than during the rice season in two

  8. Moulds and mycotoxins in rice from the Swedish retail market.

    PubMed

    Fredlund, E; Thim, A-M; Gidlund, A; Brostedt, S; Nyberg, M; Olsen, M

    2009-04-01

    A survey of moulds and mycotoxins was performed on 99 rice samples taken from the Swedish retail market. The main objective was to study the mould and mycotoxin content in basmati rice and rice with a high content of fibre. Samples of jasmine rice as well as long-grain rice were also included. The samples were analysed for their content of ochratoxin A (high-performance liquid chromatography (HPLC)), aflatoxin B(1), B(2), G(1), and G(2) (HPLC, RIDA(R)QUICK), and mould (traditional cultivation methods in combination with morphological analysis). The majority of samples were sampled according to European Commission Regulation 401/2006. Subsamples were pooled and mixed before milling and both mould and mycotoxin analyses were performed on milled rice. The results showed that the majority of basmati rice (71%) and many jasmine rice samples (20%) contained detectable levels of aflatoxin B(1) (level of quantification = 0.1 microg aflatoxin kg(-1) rice). Two samples of jasmine rice and ten basmati rice samples contained levels over the regulated European maximum limits of 2 microg kg(-1) for aflatoxin B(1) or 4 microg kg(-1) for total aflatoxins. Aspergillus was the most common mould genus isolated, but also Penicillium, Eurotium, Wallemia, Cladosporium, Epicoccum, Alternaria, and Trichotecium were found. The presence of Aspergillus flavus in 21% of the samples indicates that incorrect management of rice during production and storage implies a risk of mould growth and subsequent production of aflatoxin. Rough estimates showed that high rice consumers may have an intake of 2-3 ng aflatoxin kg(-1) bodyweight and day(-1) from rice alone. This survey shows that aflatoxin is a common contaminant in rice imported to Europe.

  9. Functional diversity of jasmonates in rice.

    PubMed

    Liu, Zheng; Zhang, Shumin; Sun, Ning; Liu, Hongyun; Zhao, Yanhong; Liang, Yuling; Zhang, Liping; Han, Yuanhuai

    2015-12-01

    Phytohormone jasmonates (JA) play essential roles in plants, such as regulating development and growth, responding to environmental changes, and resisting abiotic and biotic stresses. During signaling, JA interacts, either synergistically or antagonistically, with other hormones, such as salicylic acid (SA), gibberellin (GA), ethylene (ET), auxin, brassinosteroid (BR), and abscisic acid (ABA), to regulate gene expression in regulatory networks, conferring physiological and metabolic adjustments in plants. As an important staple crop, rice is a major nutritional source for human beings and feeds one third of the world's population. Recent years have seen significant progress in the understanding of the JA pathway in rice. In this review, we summarize the diverse functions of JA, and discuss the JA interplay with other hormones, as well as light, in this economically important crop. We believe that a better understanding of the JA pathway will lead to practical biotechnological applications in rice breeding and cultivation. PMID:26054241

  10. Stability of soil organic matter accumulated under long-term use as a rice paddy

    NASA Astrophysics Data System (ADS)

    Nakahara, Shiko; Zou, Ping; Ando, Ho; Fu, Jianrong; Cao, Zhihong; Nakamura, Toshio; Sugiura, Yuki; Watanabe, Akira

    2016-01-01

    To understand the mechanism responsible for the enhanced accumulation of soil organic matter (SOM) under long-term use as a rice paddy, soil samples from the plow layer from 16 fields that have been used for irrigated rice production from 5 to 2000 years in the Hangzhou Bay, China, were analyzed. The humin in silt/clay particles was isolated as a representative relatively stable SOM pool, and isotopic signatures (δ13C, δ15N, and 14C concentration), 13C nuclear magnetic resonance (NMR) spectra, and biodegradability in an incubation were examined. The amounts of C and N in the bulk soil, silt/clay, and silt/clay-humin increased with increasing period of use as a rice paddy within the east and west zones, respectively. The degree of humification determined for humic acids indicated that the progression of humification did not contribute to the accumulation of C beyond 100 years. The δ15N of silt/clay-humin suggested an increase in organic N derived from chemical fertilizer or recent biological fixation with increasing amount of this fraction. The 14C concentration showed a negative correlation with the amount of silt/clay-humin C. The structural property with regard to 13C NMR spectra and biodegradability of the silt/clay-humin remained constant with the length of use as a rice paddy or 14C concentration. These results suggest that the larger C or N accumulation in the soils with a longer rice paddy history can be attributed to an enhancement in the accumulation of recently generated SOM rather than the stable accumulation of humus over the years.

  11. FORMULATION AND EVALUATION OF RICE BRAN WAX AS OINTMENT BASE

    PubMed Central

    Bhalekar, M; Manish, Lavhale; Krishna, Sini

    2004-01-01

    Rice Bran wax is obtained from natural sources and is abundantly available in the country. Rice bran wax is suitable for use in chocolate enrobes, as an enteric coating for candy and lozenges, as a plasticizing material in chewing gums etc. Present study attempts to find if rice bran wax is useful as ointment base. The oleaginous type ointment base is prepared by using rice bran wax and evaluated for speardabililty, water number and active ingredient diffusibility. The results obtained in the present study indicate, rice bran wax can be used as a good component in ointment base, comparable with white wax. PMID:22557151

  12. Remote sensing-based Information for crop monitoring: contribution of SAR and Moderate resolution optical data on Asian rice production

    NASA Astrophysics Data System (ADS)

    Boschetti, Mirco; Holectz, Francesco; Manfron, Giacinto; Collivignarelli, Francesco; Nelson, Andrew

    2013-04-01

    Updated information on crop typology and status are strongly required to support suitable action to better manage agriculture production and reduce food insecurity. In this field, remote sensing has been demonstrated to be a suitable tool to monitor crop condition however rarely the tested system became really operative. The ones today available, such as the European Commission MARS, are mainly based on the analysis of NDVI time series and required ancillary external information like crop mask to interpret the seasonal signal. This condition is not always guarantied worldwide reducing the potentiality of the remote sensing monitoring. Moreover in tropical countries cloud contamination strongly reduce the possibility of using optical remote sensing data for crop monitoring. In this framework we focused our analysis on the rice production monitoring in Asian tropical area. Rice is in fact the staple food for half of the world population (FAO 2004), in Asia almost 90% of the world's rice is produced and consumed and Rice and poverty often coincide. In this contest the production of reliable rice production information is of extreme interest. We tried to address two important issue in terms of required geospatial information for crop monitoring: rice crop detection (rice map) and seasonal dynamics analysis (phenology). We use both SAR and Optical data in order to exploit the potential complementarity of this system. Multi-temporal ASAR Wide Swath data are in fact the best option to deal with cloud contamination. SAR can easily penetrate the clouds providing information on the surface target. Temporal analysis of archive ASAR data allowed to derived accurate map, at 100m spatial resolution, of permanent rice cultivated areas. On the other and high frequency revisiting optical data, in this case MODIS, have been used to extract seasonal information for the year under analysis. MOD09A1 Surface Reflectance 8-Day L3 Global 500m have been exploited to derive time series of

  13. Effect of Red Yeast Rice and Coconut, Rice Bran or Sunflower Oil Combination in Rats on Hypercholesterolemic Diet

    PubMed Central

    Vellingiri, Kishore

    2016-01-01

    Introduction Dietary supplements provide a novel population based health approach for treating hyperlipidemias. Red yeast rice is known to have lipid lowering effects. Combination of red yeast rice with various oils is taken by different population around the world. Aim In this present work, we aimed to compare the effects of red yeast rice with different oil (coconut, rice bran and sunflower oil) supplementations on lipid levels and oxidative stress in rats fed on hypercholesterolemic diet. Materials and Methods A Randomized controlled study was conducted on 28 male Sprague Dawley rats. It included 4 arms-Control arm (hypercholesterolemic diet), Test arm A (hypercholesterolemic diet +Red yeast rice + Rice bran oil), arm B (hypercholesterolemic diet +Red yeast rice + Coconut oil) and arm C (hypercholesterolemic diet +Red yeast rice + Sunflower oil). At the end of one month, serum cholesterol, triglycerides, MDA and paraoxonase was measured. The mean values of analytes between the different groups were compared using student ‘t-’ test. Results The rats fed with red yeast rice and rice bran oil combination showed significantly lower levels of serum cholesterol, triglycerides and MDA when compared to the controls. The serum paraoxonase levels were significantly higher in this group when compared to the controls. The rats fed with red yeast rice and coconut oil combination showed significantly lower serum cholesterol and MDA levels when compared to the controls. The mean triglyceride and paraoxonase levels did not show any statistically significant difference from the controls. The rats on red yeast rice and sunflower oil combination did not show any statistically significant difference in the lipid levels and oxidative stress parameters. Conclusion The food combination which had best outcome in preventing the development of hyperlipidemia and oxidative stress in rats fed with hypercholesterolemic diet was red yeast rice and rice bran oil. Combining red yeast rice

  14. Applicability of logistic model and integrated satellite data for rice crop phenology detection

    NASA Astrophysics Data System (ADS)

    Chen, Chi-Farn; Son, Nguyen-Thanh; Chen, Cheng-Ru; Chang, Ly-Yu; Chiang, Shou-Hao

    2016-04-01

    Changes in climate condition through global warming locally altered climatic and hydrological conditions and likely trigger the increase of insect populations and diseases, causing the potential loss of rice yields. Because the rice fields damaged by diseases or insects may affect neighbouring fields, monitoring the cropping progress was important to provide agronomic planners with valuable information that could be used to timely devise strategies to mitigate possible impacts on the potential yield. This study aimed to develop an approach to monitor rice sowing and harvesting progress from the integrated Moderate Resolution Imaging Spectroradiometer (MODIS)-Landsat satellite data. We processed for the 2007 winter-spring and summer-autumn cropping seasons in 2007, following four main steps: (1) constructing a set of MODIS-Landsat fusion data using the spatiotemporal adaptive reflectance fusion model (STARFM), (2) creating smooth time-series enhanced vegetation 2 (EVI2) data using the commonly-used empirical mode decomposition (EMD), (3) detecting key phenological stages of rice crops the double logistic algorithm, and (4) error verification of the detected sowing and harvesting dates using field data. The comparison results between the EVI2 data derived from the fusion data and that from the Landsat yielded close agreement between these two datasets (R2 > 0.9). The double logistic algorithm applied to the filtered time-series EVI2 data to estimate phenological events of rice crops indicated the validity of our approach for monitoring the progress of sowing and harvesting activities in the region. The results obtained by comparisons between the estimated sowing/ harvesting dates and the field survey data indicated that the root mean squared error (RMSE) values archived for the winter-spring crop were respectively 8.4 and 5.5 days, while those for the summer-autumn crop were 9.4 and 12.8 days, respectively. The results obtained from this study could provide decision

  15. Study of sticky rice-lime mortar technology for the restoration of historical masonry construction.

    PubMed

    Yang, Fuwei; Zhang, Bingjian; Ma, Qinglin

    2010-06-15

    mortar is a special organic-inorganic composite material. The inorganic component is calcium carbonate, and the organic component is amylopectin, which is presumably derived from the sticky rice soup added to the mortar. A systematic study of sticky rice-lime mortar technology was conducted to help determine the proper courses of action in restoring ancient buildings. Lime mortars with varying sticky rice content were prepared and tested. The physical properties, mechanical strength, and compatibility of lime mortar were found to be significantly improved by the introduction of sticky rice, suggesting that sticky rice-lime mortar is a suitable material for repairing mortar in ancient masonry. Moreover, the amylopectin in the lime mortar was found to act as an inhibitor; the growth of the calcium carbonate crystals is controlled by its presence, and a compact structure results, which may explain the enhanced performance of this organic-inorganic composite compared to single-component lime mortar.

  16. Avian foods, foraging and habitat conservation in world rice fields

    USGS Publications Warehouse

    Stafford, J.D.; Kaminski, R.M.; Reinecke, K.J.

    2010-01-01

    Worldwide, rice (Oryza sativa) agriculture typically involves seasonal flooding and soil tillage, which provides a variety of microhabitats and potential food for birds. Water management in rice fields creates conditions ranging from saturated mud flats to shallow (<30 cm) water, thereby attracting different guilds of birds. Grain not collected during harvest (i.e. waste rice) is typically the most abundant potential food of birds in rice fields, with estimates of seed mass from North America ranging from 66672 kg/ha. Although initially abundant after harvest, waste rice availability can be temporally limited. Few abundance estimates for other foods, such as vertebrate prey or forage vegetation, exist for rice fields. Outside North America, Europe and Japan, little is known about abundance and importance of any avian food in rice fields. Currently, flooding rice fields after harvest is the best known management practice to attract and benefit birds. Studies from North America indicate specific agricultural practices (e.g. burning stubble) may increase use and improve access to food resources. Evaluating and implementing management practices that are ecologically sustainable, increase food for birds and are agronomically beneficial should be global priorities to integrate rice production and avian conservation. Finally, land area devoted to rice agriculture appears to be stable in the USA, declining in China, and largely unquantified in many regions. Monitoring trends in riceland area may provide information to guide avian conservation planning in rice-agriculture ecosystems.

  17. Efficacy of Selected Insecticides Applied to Hybrid Rice Seed

    PubMed Central

    Adams, A.; Gore, J.; Musser, F.; Cook, D.; Walker, T.; Dobbins, C.

    2016-01-01

    Hybrid rice and insecticide seed treatments targeting rice water weevil, Lissorhoptrus oryzophilus Kuschel, have altered the landscape of rice production. The effect of reduced seeding rates on seed treatment efficacy in hybrid rice has not been studied. During 2011 and 2012, an experiment was conducted at seven locations to determine the relationship between low seeding rates used in hybrid rice and efficacy of selected insecticidal seed treatments as measured by rice water weevil densities and yield. Labeled rates of thiamethoxam, chlorantraniliprole, and clothianidin were compared with higher rates of these products to determine if labeled rates provide an acceptable level of control of the rice water weevil. Study locations were divided into low, moderate, and high groups based on rice water weevil larval densities. All seed treatments and seed treatment rates reduced rice water weevil densities. However, there was no observed yield or economic benefit from the use of an insecticidal seed treatment in areas of low pressure. Differences in yield were observed among seed treatments and seed treatment rates in moderate and high pressure locations, and all seed treatments yielded better than the untreated plots, but these differences were not always economical. All seed treatments showed an economic advantage in areas of high weevil pressure, and there were no differences among seed treatment products or rates, suggesting that currently labeled seed treatment rates in hybrid rice are effective for rice water weevil management. PMID:26537671

  18. Efficacy of Selected Insecticides Applied to Hybrid Rice Seed.

    PubMed

    Adams, A; Gore, J; Musser, F; Cook, D; Catchot, A; Walker, T; Dobbins, C

    2016-02-01

    Hybrid rice and insecticide seed treatments targeting rice water weevil, Lissorhoptrus oryzophilus Kuschel, have altered the landscape of rice production. The effect of reduced seeding rates on seed treatment efficacy in hybrid rice has not been studied. During 2011 and 2012, an experiment was conducted at seven locations to determine the relationship between low seeding rates used in hybrid rice and efficacy of selected insecticidal seed treatments as measured by rice water weevil densities and yield. Labeled rates of thiamethoxam, chlorantraniliprole, and clothianidin were compared with higher rates of these products to determine if labeled rates provide an acceptable level of control of the rice water weevil. Study locations were divided into low, moderate, and high groups based on rice water weevil larval densities. All seed treatments and seed treatment rates reduced rice water weevil densities. However, there was no observed yield or economic benefit from the use of an insecticidal seed treatment in areas of low pressure. Differences in yield were observed among seed treatments and seed treatment rates in moderate and high pressure locations, and all seed treatments yielded better than the untreated plots, but these differences were not always economical. All seed treatments showed an economic advantage in areas of high weevil pressure, and there were no differences among seed treatment products or rates, suggesting that currently labeled seed treatment rates in hybrid rice are effective for rice water weevil management. PMID:26537671

  19. Induction of somatic instability in stable yellow leaf mutant of rice by ion beam irradiation

    NASA Astrophysics Data System (ADS)

    Maekawa, M.; Hase, Y.; Shikazono, N.; Tanaka, A.

    2003-05-01

    Any class II type active transposons have not been discovered in rice though transposon (mobile element) is very useful for gene isolation in several plant species. In order to capture somatic instability induced by an endogenous active transposon in rice, stable yellow leaf plants derived from a variegated yellow leaf ( yl-v) mutant found in F2 of a cross between distantly related rice varieties were irradiated with carbon and helium ion beams. In M1 plants derived from the seeds irradiated with 50 Gy of 220 MeV carbon ions, a variegated yl plant was generated and this plant showed small or large sectors in leaves expanded later. Most of panicle-row M2 lines segregated into variegated and stable yl plants. In total, the ratio of variegated to stable yl plants was 3:1, suggesting that clear variegation observed on M1 plants might be caused by activation of a cryptic inactive autonomous element by carbon ion beam irradiation.

  20. Automated rice leaf disease detection using color image analysis

    NASA Astrophysics Data System (ADS)

    Pugoy, Reinald Adrian D. L.; Mariano, Vladimir Y.

    2011-06-01

    In rice-related institutions such as the International Rice Research Institute, assessing the health condition of a rice plant through its leaves, which is usually done as a manual eyeball exercise, is important to come up with good nutrient and disease management strategies. In this paper, an automated system that can detect diseases present in a rice leaf using color image analysis is presented. In the system, the outlier region is first obtained from a rice leaf image to be tested using histogram intersection between the test and healthy rice leaf images. Upon obtaining the outlier, it is then subjected to a threshold-based K-means clustering algorithm to group related regions into clusters. Then, these clusters are subjected to further analysis to finally determine the suspected diseases of the rice leaf.

  1. Recycling rice husks for high-capacity lithium battery anodes.

    PubMed

    Jung, Dae Soo; Ryou, Myung-Hyun; Sung, Yong Joo; Park, Seung Bin; Choi, Jang Wook

    2013-07-23

    The rice husk is the outer covering of a rice kernel and protects the inner ingredients from external attack by insects and bacteria. To perform this function while ventilating air and moisture, rice plants have developed unique nanoporous silica layers in their husks through years of natural evolution. Despite the massive amount of annual production near 10(8) tons worldwide, so far rice husks have been recycled only for low-value agricultural items. In an effort to recycle rice husks for high-value applications, we convert the silica to silicon and use it for high-capacity lithium battery anodes. Taking advantage of the interconnected nanoporous structure naturally existing in rice husks, the converted silicon exhibits excellent electrochemical performance as a lithium battery anode, suggesting that rice husks can be a massive resource for use in high-capacity lithium battery negative electrodes.

  2. Investigations of methane emissions from rice cultivation in Indian context.

    PubMed

    Anand, Shalini; Dahiya, R P; Talyan, Vikash; Vrat, Prem

    2005-05-01

    The increasing demand of the growing population requires enhancement in the production of rice. This has a direct bearing on the global environment since the rice cultivation is one of the major contributors to the methane emissions. As the rice cultivation is intensified with the current practices and technologies, the methane fluxes from paddy fields will substantially rise. Improved high yielding rice varieties together with efficient cultivation techniques will certainly contribute to the curtailment of the methane emission fluxes. In this paper, the system dynamic approach is used for estimating the methane emissions from rice fields in India till the year 2020. Mitigation options studied for curtailing the methane emissions include rice production management, use of low methane emitting varieties of rice, water management and fertilizer amendment. The model is validated quantitatively and sensitivity tests are carried out to examine the robustness of the model. PMID:15788188

  3. Recycling rice husks for high-capacity lithium battery anodes

    PubMed Central

    Jung, Dae Soo; Ryou, Myung-Hyun; Sung, Yong Joo; Park, Seung Bin; Choi, Jang Wook

    2013-01-01

    The rice husk is the outer covering of a rice kernel and protects the inner ingredients from external attack by insects and bacteria. To perform this function while ventilating air and moisture, rice plants have developed unique nanoporous silica layers in their husks through years of natural evolution. Despite the massive amount of annual production near 108 tons worldwide, so far rice husks have been recycled only for low-value agricultural items. In an effort to recycle rice husks for high-value applications, we convert the silica to silicon and use it for high-capacity lithium battery anodes. Taking advantage of the interconnected nanoporous structure naturally existing in rice husks, the converted silicon exhibits excellent electrochemical performance as a lithium battery anode, suggesting that rice husks can be a massive resource for use in high-capacity lithium battery negative electrodes. PMID:23836636

  4. Derivative chameleons

    NASA Astrophysics Data System (ADS)

    Noller, Johannes

    2012-07-01

    We consider generalized chameleon models where the conformal coupling between matter and gravitational geometries is not only a function of the chameleon field phi, but also of its derivatives via higher order co-ordinate invariants (such as ∂μphi∂μphi,squphi,...). Specifically we consider the first such non-trivial conformal factor A(phi,∂μphi∂μphi). The associated phenomenology is investigated and we show that such theories have a new generic mass-altering mechanism, potentially assisting the generation of a sufficiently large chameleon mass in dense environments. The most general effective potential is derived for such derivative chameleon setups and explicit examples are given. Interestingly this points us to the existence of a purely derivative chameleon protected by a shift symmetry for phi → phi+c. We also discuss potential ghost-like instabilities associated with mass-lifting mechanisms and find another, mass-lowering and instability-free, branch of solutions. This suggests that, barring fine-tuning, stable derivative models are in fact typically anti-chameleons that suppress the field's mass in dense environments. Furthermore we investigate modifications to the thin-shell regime and prove a no-go theorem for chameleon effects in non-conformal geometries of the disformal type.

  5. Derivative chameleons

    SciTech Connect

    Noller, Johannes

    2012-07-01

    We consider generalized chameleon models where the conformal coupling between matter and gravitational geometries is not only a function of the chameleon field φ, but also of its derivatives via higher order co-ordinate invariants (such as ∂{sub μ}φ∂{sup μ}φ,□φ,...). Specifically we consider the first such non-trivial conformal factor A(φ,∂{sub μ}φ∂{sup μ}φ). The associated phenomenology is investigated and we show that such theories have a new generic mass-altering mechanism, potentially assisting the generation of a sufficiently large chameleon mass in dense environments. The most general effective potential is derived for such derivative chameleon setups and explicit examples are given. Interestingly this points us to the existence of a purely derivative chameleon protected by a shift symmetry for φ → φ+c. We also discuss potential ghost-like instabilities associated with mass-lifting mechanisms and find another, mass-lowering and instability-free, branch of solutions. This suggests that, barring fine-tuning, stable derivative models are in fact typically anti-chameleons that suppress the field's mass in dense environments. Furthermore we investigate modifications to the thin-shell regime and prove a no-go theorem for chameleon effects in non-conformal geometries of the disformal type.

  6. Production of glutinous rice flour from broken rice via ultrasonic assisted extraction of amylose.

    PubMed

    Setyawati, Yohana Dwi; Ahsan, Sitti Faika; Ong, Lu Ki; Soetaredjo, Felycia Edi; Ismadji, Suryadi; Ju, Yi-Hsu

    2016-07-15

    In this study, a modified aqueous leaching method by complex formation of amylose with glycerol was employed for reducing the amylose content of starch in broken white rice to less than 2%, so that the resulting starch can be classified to that of glutinous rice flour. By employing ultrasonication in alkaline condition, extraction of amylose could be performed by washing at lower temperature in shorter time compared to the existing aqueous leaching method. The effects of glycerol concentration, alkali concentration, ultrasonication and treatment time on the amylose content of the treated starch were systematically investigated. Under optimum condition, amylose content of broken white rice starch can be reduced from 27.27% to 1.43% with a yield of 80.42%. The changes in the physicochemical properties of the rice flour before and after treatment were studied. PMID:26948601

  7. Waste rice for waterfowl in the Mississippi Alluvial Valley

    USGS Publications Warehouse

    Stafford, J.D.; Kaminski, R.M.; Reinecke, K.J.; Manley, S.W.

    2006-01-01

    Flooded rice fields are important foraging habitats for waterfowl in the lower Mississippi Alluvial Valley (MAV). Waste rice previously was abundant in late autumn (140?492 kg/ha), but early planting and harvest dates in recent years may have increased losses of waste rice during autumn before waterfowl arrive. Research in Mississippi rice fields revealed waste-rice abundance decreased 79?99% during autumns 1995?1996. To determine if this trend existed throughout the MAV, we used multistage sampling (MSS) to estimate waste-rice abundance during September?December 2000?2002. Averaged over years, mean abundance of waste rice decreased 71% between harvest ((x) over bar = 271.0 kg/ha, CV = 13% n = 3 years) and late autumn ( (x) over bar = 78.4 kg/ha, CV = 15% n = 3). Among 15 models formulated to explain variation in rice abundance among fields and across years, the best model indicated abundance of waste rice in late autumn differed between harvester types (i.e., conventional > stripper header) and was positively related to initial waste-rice abundance after harvest. Because abundance of waste rice in late autumn was less than previous estimates in all 3 years, we concluded that waterfowl conservationists have overestimated carrying capacity of rice fields for wintering waterfowl by 52?83% and recommend 325 duck-use days/ha (DUDs) as a revised estimate. We suggest monitoring advances in rice harvest dates to determine when new surveys are warranted and recommend increased management of moist-soil wetlands to compensate for decreased rice abundance.

  8. Molecular evolution of the sh4 shattering locus in U.S. weedy rice

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Cultivated rice fields worldwide are plagued with weedy rice, a congeneric 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 g...

  9. Rice fissure resistance QTLs from ‘Saber’ complement those from ‘Cypress’

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The economic value of broken rice is about half that of whole milled rice, so one goal of producers, millers, and rice breeders is to reduce grain breakage during the dehusking and milling processes. One of the primary causes of rice breakage is fissuring, or cracking, of the rice before it enters ...

  10. Sustained expression of human cytomegalovirus glycoprotein B (UL55) in the seeds of homozygous rice plants.

    PubMed

    Tackaberry, Eilleen S; Prior, Fiona A; Rowlandson, Karen; Tocchi, Monika; Mehic, Jelica; Porter, Suzanne; Walsh, Mike; Schleiss, Mark R; Ganz, Peter R; Sardana, Ravinder K; Altosaar, Illimar; Dudani, Anil K

    2008-09-01

    Production of recombinant subunit vaccines in transgenic plants may be a means of reducing vaccine costs while increasing availability and safety. A plant-derived product found safe and effective for oral administration would provide additional advantages when used as a vaccine. Outstanding issues with the technology include transgene stability through successive generations and consistent bioproduction. We previously reported expression of glycoprotein B (gB) of human cytomegalovirus in seeds of transgenic tobacco. Here the goal was to determine if gB could be similarly expressed in rice, and if so, to examine expression over several plant generations. Results show that immunoreactive gB was successfully expressed in transgenic rice seeds, with sustained expression over three generations. The gB contained several neutralizing epitopes and was stable over 27 months.

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

    PubMed

    Calingacion, Mariafe; Laborte, Alice; Nelson, Andrew; Resurreccion, Adoracion; Concepcion, Jeanaflor Crystal; Daygon, Venea Dara; Mumm, Roland; Reinke, Russell; Dipti, Sharifa; Bassinello, Priscila Zaczuk; Manful, John; Sophany, Sakhan; Lara, Karla Cordero; Bao, Jinsong; Xie, Lihong; Loaiza, Katerine; El-hissewy, Ahmad; Gayin, Joseph; Sharma, Neerja; Rajeswari, Sivakami; Manonmani, Swaminathan; Rani, N Shobha; Kota, Suneetha; Indrasari, Siti Dewi; Habibi, Fatemeh; Hosseini, Maryam; Tavasoli, Fatemeh; Suzuki, Keitaro; Umemoto, Takayuki; Boualaphanh, Chanthkone; Lee, Huei Hong; Hung, Yiu Pang; Ramli, Asfaliza; Aung, Pa Pa; Ahmad, Rauf; Wattoo, Javed Iqbal; Bandonill, Evelyn; Romero, Marissa; Brites, Carla Moita; Hafeel, Roshni; Lur, Huu-Sheng; Cheaupun, Kunya; Jongdee, Supanee; Blanco, Pedro; Bryant, Rolfe; Thi Lang, Nguyen; Hall, Robert D; Fitzgerald, Melissa

    2014-01-01

    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 the different traits that make up the quality of the rice grain and obtain a full picture of rice quality demographics. Rice is by no means a 'one size fits all' crop. Regional preferences are not only striking, they drive the market and hence are of major economic importance in any rice breeding / improvement strategy. In this analysis, we have engaged local experts across the world to perform a full assessment of all the major rice quality trait characteristics and importantly, to determine how these are combined in the most preferred varieties for each of their regions. Physical as well as biochemical characteristics have been monitored and this has resulted in the identification of no less than 18 quality trait combinations. This complexity immediately reveals the extent of the specificity of consumer preference. Nevertheless, further assessment of these combinations at the variety level reveals that several groups still comprise varieties which consumers can readily identify as being different. This emphasises the shortcomings in the current tools we have available to assess rice quality and raises the issue of how we might correct for this in the future. Only with additional tools and research will we be able to define directed strategies for rice breeding which are able to combine important agronomic features with the demands of local consumers for specific quality attributes and hence, design new, improved crop varieties which will be awarded success in the global market. PMID:24454799

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

    PubMed

    Calingacion, Mariafe; Laborte, Alice; Nelson, Andrew; Resurreccion, Adoracion; Concepcion, Jeanaflor Crystal; Daygon, Venea Dara; Mumm, Roland; Reinke, Russell; Dipti, Sharifa; Bassinello, Priscila Zaczuk; Manful, John; Sophany, Sakhan; Lara, Karla Cordero; Bao, Jinsong; Xie, Lihong; Loaiza, Katerine; El-hissewy, Ahmad; Gayin, Joseph; Sharma, Neerja; Rajeswari, Sivakami; Manonmani, Swaminathan; Rani, N Shobha; Kota, Suneetha; Indrasari, Siti Dewi; Habibi, Fatemeh; Hosseini, Maryam; Tavasoli, Fatemeh; Suzuki, Keitaro; Umemoto, Takayuki; Boualaphanh, Chanthkone; Lee, Huei Hong; Hung, Yiu Pang; Ramli, Asfaliza; Aung, Pa Pa; Ahmad, Rauf; Wattoo, Javed Iqbal; Bandonill, Evelyn; Romero, Marissa; Brites, Carla Moita; Hafeel, Roshni; Lur, Huu-Sheng; Cheaupun, Kunya; Jongdee, Supanee; Blanco, Pedro; Bryant, Rolfe; Thi Lang, Nguyen; Hall, Robert D; Fitzgerald, Melissa

    2014-01-01

    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 the different traits that make up the quality of the rice grain and obtain a full picture of rice quality demographics. Rice is by no means a 'one size fits all' crop. Regional preferences are not only striking, they drive the market and hence are of major economic importance in any rice breeding / improvement strategy. In this analysis, we have engaged local experts across the world to perform a full assessment of all the major rice quality trait characteristics and importantly, to determine how these are combined in the most preferred varieties for each of their regions. Physical as well as biochemical characteristics have been monitored and this has resulted in the identification of no less than 18 quality trait combinations. This complexity immediately reveals the extent of the specificity of consumer preference. Nevertheless, further assessment of these combinations at the variety level reveals that several groups still comprise varieties which consumers can readily identify as being different. This emphasises the shortcomings in the current tools we have available to assess rice quality and raises the issue of how we might correct for this in the future. Only with additional tools and research will we be able to define directed strategies for rice breeding which are able to combine important agronomic features with the demands of local consumers for specific quality attributes and hence, design new, improved crop varieties which will be awarded success in the global market.

  13. Diversity of Global Rice Markets and the Science Required for Consumer-Targeted Rice Breeding

    PubMed Central

    Calingacion, Mariafe; Laborte, Alice; Nelson, Andrew; Resurreccion, Adoracion; Concepcion, Jeanaflor Crystal; Daygon, Venea Dara; Mumm, Roland; Reinke, Russell; Dipti, Sharifa; Bassinello, Priscila Zaczuk; Manful, John; Sophany, Sakhan; Lara, Karla Cordero; Bao, Jinsong; Xie, Lihong; Loaiza, Katerine; El-hissewy, Ahmad; Gayin, Joseph; Sharma, Neerja; Rajeswari, Sivakami; Manonmani, Swaminathan; Rani, N. Shobha; Kota, Suneetha; Indrasari, Siti Dewi; Habibi, Fatemeh; Hosseini, Maryam; Tavasoli, Fatemeh; Suzuki, Keitaro; Umemoto, Takayuki; Boualaphanh, Chanthkone; Lee, Huei Hong; Hung, Yiu Pang; Ramli, Asfaliza; Aung, Pa Pa; Ahmad, Rauf; Wattoo, Javed Iqbal; Bandonill, Evelyn; Romero, Marissa; Brites, Carla Moita; Hafeel, Roshni; Lur, Huu-Sheng; Cheaupun, Kunya; Jongdee, Supanee; Blanco, Pedro; Bryant, Rolfe; Thi Lang, Nguyen; Hall, Robert D.; Fitzgerald, Melissa

    2014-01-01

    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 the different traits that make up the quality of the rice grain and obtain a full picture of rice quality demographics. Rice is by no means a ‘one size fits all’ crop. Regional preferences are not only striking, they drive the market and hence are of major economic importance in any rice breeding / improvement strategy. In this analysis, we have engaged local experts across the world to perform a full assessment of all the major rice quality trait characteristics and importantly, to determine how these are combined in the most preferred varieties for each of their regions. Physical as well as biochemical characteristics have been monitored and this has resulted in the identification of no less than 18 quality trait combinations. This complexity immediately reveals the extent of the specificity of consumer preference. Nevertheless, further assessment of these combinations at the variety level reveals that several groups still comprise varieties which consumers can readily identify as being different. This emphasises the shortcomings in the current tools we have available to assess rice quality and raises the issue of how we might correct for this in the future. Only with additional tools and research will we be able to define directed strategies for rice breeding which are able to combine important agronomic features with the demands of local consumers for specific quality attributes and hence, design new, improved crop varieties which will be awarded success in the global market. PMID:24454799

  14. Methane emissions from rice paddies natural wetlands, and lakes in China: synthesis and new estimate.

    PubMed

    Chen, Huai; Zhu, Qiu'an; Peng, Changhui; Wu, Ning; Wang, Yanfen; Fang, Xiuqin; Jiang, Hong; Xiang, Wenhua; Chang, Jie; Deng, Xiangwen; Yu, Guirui

    2013-01-01

    Sources of methane (CH4 ) become highly variable for countries undergoing a heightened period of development due to both human activity and climate change. An urgent need therefore exists to budget key sources of CH4 , such as wetlands (rice paddies and natural wetlands) and lakes (including reservoirs and ponds), which are sensitive to these changes. For this study, references in relation to CH4 emissions from rice paddies, natural wetlands, and lakes in China were first reviewed and then reestimated based on the review itself. Total emissions from the three CH4 sources were 11.25 Tg CH4  yr(-1) (ranging from 7.98 to 15.16 Tg CH4  yr(-1) ). Among the emissions, 8.11 Tg CH4  yr(-1) (ranging from 5.20 to 11.36 Tg CH4  yr(-1) ) derived from rice paddies, 2.69 Tg CH4  yr(-1) (ranging from 2.46 to 3.20 Tg CH4  yr(-1) ) from natural wetlands, and 0.46 Tg CH4  yr(-1) (ranging from 0.33 to 0.59 Tg CH4  yr(-1) ) from lakes (including reservoirs and ponds). Plentiful water and warm conditions, as well as its large rice paddy area make rice paddies in southeastern China the greatest overall source of CH4 , accounting for approximately 55% of total paddy emissions. Natural wetland estimates were slightly higher than the other estimates owing to the higher CH4 emissions recorded within Qinghai-Tibetan Plateau peatlands. Total CH4 emissions from lakes were estimated for the first time by this study, with three quarters from the littoral zone and one quarter from lake surfaces. Rice paddies, natural wetlands, and lakes are not constant sources of CH4 , but decreasing ones influenced by anthropogenic activity and climate change. A new progress-based model used in conjunction with more observations through model-data fusion approach could help obtain better estimates and insights with regard to CH4 emissions deriving from wetlands and lakes in China.

  15. Methane emissions from rice paddies natural wetlands, and lakes in China: synthesis and new estimate.

    PubMed

    Chen, Huai; Zhu, Qiu'an; Peng, Changhui; Wu, Ning; Wang, Yanfen; Fang, Xiuqin; Jiang, Hong; Xiang, Wenhua; Chang, Jie; Deng, Xiangwen; Yu, Guirui

    2013-01-01

    Sources of methane (CH4 ) become highly variable for countries undergoing a heightened period of development due to both human activity and climate change. An urgent need therefore exists to budget key sources of CH4 , such as wetlands (rice paddies and natural wetlands) and lakes (including reservoirs and ponds), which are sensitive to these changes. For this study, references in relation to CH4 emissions from rice paddies, natural wetlands, and lakes in China were first reviewed and then reestimated based on the review itself. Total emissions from the three CH4 sources were 11.25 Tg CH4  yr(-1) (ranging from 7.98 to 15.16 Tg CH4  yr(-1) ). Among the emissions, 8.11 Tg CH4  yr(-1) (ranging from 5.20 to 11.36 Tg CH4  yr(-1) ) derived from rice paddies, 2.69 Tg CH4  yr(-1) (ranging from 2.46 to 3.20 Tg CH4  yr(-1) ) from natural wetlands, and 0.46 Tg CH4  yr(-1) (ranging from 0.33 to 0.59 Tg CH4  yr(-1) ) from lakes (including reservoirs and ponds). Plentiful water and warm conditions, as well as its large rice paddy area make rice paddies in southeastern China the greatest overall source of CH4 , accounting for approximately 55% of total paddy emissions. Natural wetland estimates were slightly higher than the other estimates owing to the higher CH4 emissions recorded within Qinghai-Tibetan Plateau peatlands. Total CH4 emissions from lakes were estimated for the first time by this study, with three quarters from the littoral zone and one quarter from lake surfaces. Rice paddies, natural wetlands, and lakes are not constant sources of CH4 , but decreasing ones influenced by anthropogenic activity and climate change. A new progress-based model used in conjunction with more observations through model-data fusion approach could help obtain better estimates and insights with regard to CH4 emissions deriving from wetlands and lakes in China. PMID:23504718

  16. Analysis of rice glycosyl hydrolase family 1 and expression of Os4bglu12 β-glucosidase

    PubMed Central

    Opassiri, Rodjana; Pomthong, Busarakum; Onkoksoong, Tassanee; Akiyama, Takashi; Esen, Asim; Ketudat Cairns, James R

    2006-01-01

    Background Glycosyl hydrolase family 1 (GH1) β-glucosidases have been implicated in physiologically important processes in plants, such as response to biotic and abiotic stresses, defense against herbivores, activation of phytohormones, lignification, and cell wall remodeling. Plant GH1 β-glucosidases are encoded by a multigene family, so we predicted the structures of the genes and the properties of their protein products, and characterized their phylogenetic relationship to other plant GH1 members, their expression and the activity of one of them, to begin to decipher their roles in rice. Results Forty GH1 genes could be identified in rice databases, including 2 possible endophyte genes, 2 likely pseudogenes, 2 gene fragments, and 34 apparently competent rice glycosidase genes. Phylogenetic analysis revealed that GH1 members with closely related sequences have similar gene structures and are often clustered together on the same chromosome. Most of the genes appear to have been derived from duplications that occurred after the divergence of rice and Arabidopsis thaliana lineages from their common ancestor, and the two plants share only 8 common gene lineages. At least 31 GH1 genes are expressed in a range of organs and stages of rice, based on the cDNA and EST sequences in public databases. The cDNA of the Os4bglu12 gene, which encodes a protein identical at 40 of 44 amino acid residues with the N-terminal sequence of a cell wall-bound enzyme previously purified from germinating rice, was isolated by RT-PCR from rice seedlings. A thioredoxin-Os4bglu12 fusion protein expressed in Escherichia coli efficiently hydrolyzed β-(1,4)-linked oligosaccharides of 3–6 glucose residues and laminaribiose. Conclusion Careful analysis of the database sequences produced more reliable rice GH1 gene structure and protein product predictions. Since most of these genes diverged after the divergence of the ancestors of rice and Arabidopsis thaliana, only a few of their functions

  17. Ambient insect pressure and recipient genotypes determine fecundity of transgenic crop-weed rice hybrid progeny: Implications for environmental biosafety assessment.

    PubMed

    Xia, Hui; Zhang, Hongbin; Wang, Wei; Yang, Xiao; Wang, Feng; Su, Jun; Xia, Hanbing; Xu, Kai; Cai, Xingxing; Lu, Bao-Rong

    2016-08-01

    Transgene introgression into crop weedy/wild relatives can provide natural selective advantages, probably causing undesirable environmental impact. The advantages are likely associated with factors such as transgenes, selective pressure, and genetic background of transgene recipients. To explore the role of the environment and background of transgene recipients in affecting the advantages, we estimated the fitness of crop-weed hybrid lineages derived from crosses between marker-free insect-resistant transgenic (Bt/CpTI) rice with five weedy rice populations under varied insect pressure. Multiway anova indicated the significant effect of both transgenes and weedy rice genotypes on the performance of crop-weed hybrid lineages in the high-insect environment. Increased fecundity was detected in most transgene-present F1 and F2 hybrid lineages under high-insect pressure, but varied among crop-weed hybrid lineages with different weedy rice parents. Increased fecundity of transgenic crop-weed hybrid lineages was associated with the environmental insect pressure and genotypes of their weedy rice parents. The findings suggest that the fitness effects of an insect-resistant transgene introgressed into weedy populations are not uniform across different environments and genotypes of the recipient plants that have acquired the transgene. Therefore, these factors should be considered when assessing the environmental impact of transgene flow to weedy or wild rice relatives.

  18. International collaborative study of the endogenous reference gene, sucrose phosphate synthase (SPS), used for qualitative and quantitative analysis of genetically modified rice.

    PubMed

    Jiang, Lingxi; Yang, Litao; Zhang, Haibo; Guo, Jinchao; Mazzara, Marco; Van den Eede, Guy; Zhang, Dabing

    2009-05-13

    One rice ( Oryza sativa ) gene, sucrose phosphate synthase (SPS), has been proven to be a suitable endogenous reference gene for genetically modified (GM) rice detection in a previous study. Herein are the reported results of an international collaborative ring trial for validation of the SPS gene as an endogenous reference gene and its optimized qualitative and quantitative polymerase chain reaction (PCR) systems. A total of 12 genetically modified organism (GMO) detection laboratories from seven countries participated in the ring trial and returned their results. The validated results confirmed the species specificity of the method through testing 10 plant genomic DNAs, low heterogeneity, and a stable single-copy number of the rice SPS gene among 7 indica varieties and 5 japonica varieties. The SPS qualitative PCR assay was validated with a limit of detection (LOD) of 0.1%, which corresponded to about 230 copies of haploid rice genomic DNA, while the limit of quantification (LOQ) for the quantitative PCR system was about 23 copies of haploid rice genomic DNA, with acceptable PCR efficiency and linearity. Furthermore, the bias between the test and true values of eight blind samples ranged from 5.22 to 26.53%. Thus, we believe that the SPS gene is suitable for use as an endogenous reference gene for the identification and quantification of GM rice and its derivates.

  19. Ambient insect pressure and recipient genotypes determine fecundity of transgenic crop-weed rice hybrid progeny: Implications for environmental biosafety assessment.

    PubMed

    Xia, Hui; Zhang, Hongbin; Wang, Wei; Yang, Xiao; Wang, Feng; Su, Jun; Xia, Hanbing; Xu, Kai; Cai, Xingxing; Lu, Bao-Rong

    2016-08-01

    Transgene introgression into crop weedy/wild relatives can provide natural selective advantages, probably causing undesirable environmental impact. The advantages are likely associated with factors such as transgenes, selective pressure, and genetic background of transgene recipients. To explore the role of the environment and background of transgene recipients in affecting the advantages, we estimated the fitness of crop-weed hybrid lineages derived from crosses between marker-free insect-resistant transgenic (Bt/CpTI) rice with five weedy rice populations under varied insect pressure. Multiway anova indicated the significant effect of both transgenes and weedy rice genotypes on the performance of crop-weed hybrid lineages in the high-insect environment. Increased fecundity was detected in most transgene-present F1 and F2 hybrid lineages under high-insect pressure, but varied among crop-weed hybrid lineages with different weedy rice parents. Increased fecundity of transgenic crop-weed hybrid lineages was associated with the environmental insect pressure and genotypes of their weedy rice parents. The findings suggest that the fitness effects of an insect-resistant transgene introgressed into weedy populations are not uniform across different environments and genotypes of the recipient plants that have acquired the transgene. Therefore, these factors should be considered when assessing the environmental impact of transgene flow to weedy or wild rice relatives. PMID:27468303

  20. Modeling impacts of water and fertilizer management on ecosystem services from rice rotated crop systems in China

    NASA Astrophysics Data System (ADS)

    Chen, Han; Yu, Chaoqing; Li, Changsheng; Huang, Xiao; Zhang, Jie; Yue, Yali; Huang, Guorui

    2015-04-01

    Sustainable intensification in agriculture has stressed the need for management practices that could increase crop yields while simultaneously reducing environmental impacts. It is well recognized that water and nutrient management hold great promise to address these goals. This study uses the DNDC biogeochemical model to stimulate the impacts of water regime and nitrogen fertilizer management interactions on ecosystem services of rice rotated crop systems in China. County-level optimal nitrogen fertilizer application rates under various water management practices were captured and then multiple scenarios of water and nitrogen fertilizer management were set to more than 1600 counties with rice rotations in China. Results indicate that an national average of 15.7±5.9% (the mean value and standard deviation derive from variability of three water management practices) reduction of nitrogen fertilizer inputs can be achieved without significantly sacrificing rice yields. On a national scale, shallow flooding with optimal N application rates appear most potential to enhance ecosystem services, which led to 10.6% reduction of nitrogen fertilizer inputs, 34.3% decrease of total GHG emissions, 2.8% less of overall N loss (NH3 volatilization, denitrification and N leaching) and a 1.7% increase of rice yields compared to the baseline scenario. Regional GHG emissions mitigation derived from water regime change vary with soil properties and the multiple crop index. Among the main production regions of rice in China, the highest reduction happened in Jiangxu, Yunnan, Guizhou and Hubei (more than 40% reduction) with high SOC, high multiple crop index and low clay fraction. The highest reduction of GHG emissions derived from reducing current N application rate to optimal rate appeared in Zhejiang, Guangdong, Jiangsu where the serious over-application of mineral N exit. It was concluded that process models like DNDC would act an essential tool to identify sustainable agricultural