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Sample records for allotetraploid rice species

  1. Genetic relationships between diploid and allotetraploid cherry species (Prunus avium, Prunus x gondouinii and Prunus cerasus).

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    Tavaud, M; Zanetto, A; David, J L; Laigret, F; Dirlewanger, E

    2004-12-01

    Prunus avium L. (diploid, AA, 2n=2x=16), Prunus cerasus L. (allotetraploid, AAFF, 2n=4x=32) species, and their hybrid Prunus x gondouinii Rehd., constitute the most widely cultivated cherry tree species. P. cerasus is supposed to be an hybrid species produced by the union of unreduced P. avium gametes and normal P. fruticosa gametes. A continuum of morphological traits between these three species makes their assignation difficult. The aim of this paper is to study the genetic relationships between tetraploid and diploid cherry species. In all, 114 genotypes belonging to these species were analyzed using 75 AFLP markers. The coordinates of these genotypes on the first axis of a correspondence analysis allowed us to clearly distinguish each species, to identify misclassifications and to assign unknown genotypes to one species. We showed that there are specific alleles in P. cerasus, which are not present in the A genome of P. avium and which probably come from the F genome of P. cerasus. The frequencies of each marker in the A and the F genomes were estimated in order to identify A and F specific markers. We discuss the utility of these specific markers for finding the origin of the A and F genomes in the allopolyploid species. PMID:15354194

  2. Genetic Segregation and Genomic Hybridization Patterns Support an Allotetraploid Structure and Disomic Inheritance for Salix Species

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    Gianni Barcaccia

    2014-09-01

    Full Text Available The Salix alba L. (white willow—Salix fragilis L. (crack willow complex includes closely related polyploid species, mainly tetraploid (2n = 4x = 76, which are dioecious and hence obligate allogamous. Because little is known about the genome constitution and chromosome behavior of these pure willow trees, genetic analysis of their naturally occurring interspecific polyploid hybrids is still very difficult. A two-way pseudo-testcross strategy was exploited using single-dose AFLP markers in order to assess the main inheritance patterns of tetraploid biotypes (disomy vs. tetrasomy in segregating populations stemmed from S. alba × S. fragilis crosses and reciprocals. In addition, a genomic in situ hybridization (GISH technology was implemented in willow to shed some light on the genome structure of S. alba and S. fragilis species, and their hybrids (allopolyploidy vs. autopolyploidy. The frequency of S. alba-specific molecular markers was almost double compared to that of S. fragilis-specific ones, suggesting the phylogenetic hypothesis of S. fragilis as derivative species from S. alba-like progenitors. Cytogenetic observations at pro-metaphase revealed about half of the chromosome complements being less contracted than the remaining ones, supporting an allopolyploid origin of both S. alba and S. fragilis. Both genetic segregation and genomic hybridization data are consistent with an allotetraploid nature of the Salix species. In particular, the vast majority of the AFLP markers were inherited according to disomic patterns in S. alba × S. fragilis populations and reciprocals. Moreover, in all S. alba against S. fragilis hybridizations and reciprocals, GISH signals were observed only on the contracted chromosomes whereas the non-contracted chromosomes were never hybridized. In conclusion, half of the chromosomes of the pure species S. alba and S. fragilis are closely related and they could share a common diploid ancestor, while the rest of

  3. Conditions in home and transplant soils have differential effects on the performance of diploid and allotetraploid anthericum species.

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    Lucie Černá

    Full Text Available Due to increased levels of heterozygosity, polyploids are expected to have a greater ability to adapt to different environments than their diploid ancestors. While this theoretical pattern has been suggested repeatedly, studies comparing adaptability to changing conditions in diploids and polyploids are rare. The aim of the study was to determine the importance of environmental conditions of origin as well as target conditions on performance of two Anthericum species, allotetraploid A. liliago and diploid A. ramosum and to explore whether the two species differ in the ability to adapt to these environmental conditions. Specifically, we performed a common garden experiment using soil from 6 localities within the species' natural range, and we simulated the forest and open environments in which they might occur. We compared the performance of diploid A. ramosum and allotetraploid A. liliago originating from different locations in the different soils. The performance of the two species was not affected by simulated shading but differed strongly between the different target soils. Growth of the tetraploids was not affected by the origin of the plants. In contrast, diploids from the most nutrient poor soil performed best in the richest soil, indicating that diploids from deprived environments have an increased ability to acquire nutrients when available. They are thus able to profit from transfer to novel nutrient rich environments. Therefore, the results of the study did not support the general expectation that the polyploids should have a greater ability than the diploids to adapt to a wide range of conditions. In contrast, the results are in line with the observation that diploids occupy a wider range of environments than the allotetraploids in our system.

  4. Deciphering the complex leaf transcriptome of the allotetraploid species Nicotiana tabacum: a phylogenomic perspective

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    Bombarely Aureliano

    2012-08-01

    Full Text Available Abstract Background Polyploidization is an important mechanism in plant evolution. By analyzing the leaf transcriptomes taken from the allotetraploid Nicotiana tabacum (tobacco and parental genome donors, N. sylvesteris (S-Genome and N. tomentosiformis (T-Genome, a phylogenomic approach was taken to map the fate of homeologous gene pairs in this plant. Results A comparison between the genes present in the leaf transcriptomes of N. tabacum and modern day representatives of its progenitor species demonstrated that only 33% of assembled transcripts could be distinguished based on their sequences. A large majority of the genes (83.6% of the non parent distinguishable and 87.2% of the phylogenetic topology analyzed clusters expressed above background level (more than 5 reads showed similar overall expression levels. Homeologous sequences could be identified for 968 gene clusters, and 90% (6% of all genes of the set maintained expression of only one of the tobacco homeologs. When both homeologs were expressed, only 15% (0.5% of the total showed evidence of differential expression, providing limited evidence of subfunctionalization. Comparing the rate of synonymous nucleotide substitution (Ks and non-synonymous nucleotide substitution (Kn provided limited evidence for positive selection during the evolution of tobacco since the polyploidization event took place. Conclusions Polyploidization is a powerful mechanism for plant speciation that can occur during one generation; however millions of generations may be necessary for duplicate genes to acquire a new function. Analysis of the tobacco leaf transcriptome reveals that polyploidization, even in a young tetraploid such as tobacco, can lead to complex changes in gene expression. Gene loss and gene silencing, or subfunctionalization may explain why both homeologs are not expressed by the associated genes. With Whole Genome Duplication (WGD events, polyploid genomes usually maintain a high percentage of

  5. Chloroplast DNA diversity in wild and cultivated species of rice (Genus Oryza, section Oryza). Cladistic-mutation and genetic-distance analysis.

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    Dally, A M; Second, G

    1990-08-01

    Using a novel nonaqueous procedure, chloroplast DNA was isolated from 318 individual adult rice plants, representing 247 accessions and the breadth of the diversity in section Oryza of genus Oryza. Among them, 32 different cpDNA restriction patterns were distinguished using the restriction endonucleases EcoRI and AvaI, and they were further characterized by restriction with BamHI, HindIII, SmaI, PstI, and BstEII enzymes. The differences in the electrophoretic band patterns were parsimoniously interpreted as being the result of 110 mutations, including 47 restriction site mutations. The relationships between band patterns were studied by a cladistic analysis based on shared mutations and by the computation of genetic distances based on shared bands. The deduced relationships were compared with earlier taxonomical studies. The maternal parents for BC genome allotetraploids were deduced. Within species, cpDNA diversity was found larger in those species with an evolutionary history of recent introgression and/or allotetraploidization. Occasional paternal inheritance and recombination of cpDNA in rice was suggested.

  6. Analysis of complete nucleotide sequences of 12 Gossypium chloroplast genomes: origin and evolution of allotetraploids.

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    Qin Xu

    Full Text Available BACKGROUND: Cotton (Gossypium spp. is a model system for the analysis of polyploidization. Although ascertaining the donor species of allotetraploid cotton has been intensively studied, sequence comparison of Gossypium chloroplast genomes is still of interest to understand the mechanisms underlining the evolution of Gossypium allotetraploids, while it is generally accepted that the parents were A- and D-genome containing species. Here we performed a comparative analysis of 13 Gossypium chloroplast genomes, twelve of which are presented here for the first time. METHODOLOGY/PRINCIPAL FINDINGS: The size of 12 chloroplast genomes under study varied from 159,959 bp to 160,433 bp. The chromosomes were highly similar having >98% sequence identity. They encoded the same set of 112 unique genes which occurred in a uniform order with only slightly different boundary junctions. Divergence due to indels as well as substitutions was examined separately for genome, coding and noncoding sequences. The genome divergence was estimated as 0.374% to 0.583% between allotetraploid species and A-genome, and 0.159% to 0.454% within allotetraploids. Forty protein-coding genes were completely identical at the protein level, and 20 intergenic sequences were completely conserved. The 9 allotetraploids shared 5 insertions and 9 deletions in whole genome, and 7-bp substitutions in protein-coding genes. The phylogenetic tree confirmed a close relationship between allotetraploids and the ancestor of A-genome, and the allotetraploids were divided into four separate groups. Progenitor allotetraploid cotton originated 0.43-0.68 million years ago (MYA. CONCLUSION: Despite high degree of conservation between the Gossypium chloroplast genomes, sequence variations among species could still be detected. Gossypium chloroplast genomes preferred for 5-bp indels and 1-3-bp indels are mainly attributed to the SSR polymorphisms. This study supports that the common ancestor of diploid A

  7. Mycoflora and aflatoxigenic species in derivatives of milled rice

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    LIMA Carlos A. P.

    2000-01-01

    Full Text Available Thirty samples of rough rice stored for 6, 12 and 24 months in government authorized warehouses of the state of Rio Grande do Sul, Brazil, were simultaneously collected. After milling of the product, 90 samples (30 of polished rice, 30 of rice bran and 30 of rice hull were evaluated for their mycoflora, aflatoxigenic species and aflatoxin contamination. The following fungi, listed in decreasing order of frequency, were isolated on Potato-Dextrose Agar: Aspergillus spp., Nigrospora spp., Penicillium spp.; Fusarium spp.; Mucor spp.; Cladosporium spp.; Trichosporon spp. and non-sporulated fungi. The degree of fungal contamination (colony forming units per gram of product was lowest in polished rice, increasing progressively in samples of rice bran and rice hull. Among the Aspergillus species, A. flavus and A. candidus were isolated most frequently. Of the A. flavus isolates, 52.6% strains were found to be toxigenic and produced only Group B aflatoxins. Analysis of the 90 samples did not reveal the presence of aflatoxins in the rice derivatives.

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

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    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. PMID:23339799

  9. Arsenic species in raw and cooked rice: Implications for human health in rural Bengal

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    Halder, Dipti, E-mail: dipti@kth.se [KTH-International Groundwater Arsenic Research Group, Division of Land and Water Resources Engineering, Department of Sustainable Development, Environmental Sciences and Engineering, KTH Royal Institute of Technology, Teknikringen 76, SE-100 44 Stockholm (Sweden); Department of Chemistry, University of Kalyani, Kalyani, 741 235, West Bengal (India); Biswas, Ashis [KTH-International Groundwater Arsenic Research Group, Division of Land and Water Resources Engineering, Department of Sustainable Development, Environmental Sciences and Engineering, KTH Royal Institute of Technology, Teknikringen 76, SE-100 44 Stockholm (Sweden); Department of Chemistry, University of Kalyani, Kalyani, 741 235, West Bengal (India); Šlejkovec, Zdenka [Environmental Sciences Department, Jožef Stefan Institute, Jamova 39, 1000, Ljubljana (Slovenia); Chatterjee, Debashis [Department of Chemistry, University of Kalyani, Kalyani, 741 235, West Bengal (India); Nriagu, Jerome [Department of Environmental Health Sciences, School of Public Health, University of Michigan, 109 Observatory Street, Ann Arbor, MI 48109-2029 (United States); Jacks, Gunnar; Bhattacharya, Prosun [KTH-International Groundwater Arsenic Research Group, Division of Land and Water Resources Engineering, Department of Sustainable Development, Environmental Sciences and Engineering, KTH Royal Institute of Technology, Teknikringen 76, SE-100 44 Stockholm (Sweden)

    2014-11-01

    This study compares the concentrations of total and different species of arsenic (As) in 29 pairs of raw and cooked rice samples collected from households in an area of West Bengal affected by endemic arsenicism. The aim is to investigate the effects of indigenous cooking practice of the rural villagers on As accumulation and speciation in cooked rice. It is found that inorganic As is the predominant species in both raw (93.8%) and cooked rice (88.1%). Cooking of rice with water low in As (< 10 μg L{sup −1}) significantly decreases the total and inorganic As content in cooked rice compared to raw rice. Arsenic concentration is mainly decreased during boiling of rice grains with excess water. Washing of rice grains with low As water has negligible effect on grain As concentration. The study suggests that rice cooking with low As water by the villagers is a beneficial risk reduction strategy. Despite reductions in As content in cooked rice because of cooking with low As water, the consumption of cooked rice represents a significant health threat (in terms of chronic As toxicity) to the study population. - Highlights: • Pairs of raw and cooked rice samples are collected from households. • Total and different species of As in raw and cooked rice samples are compared. • Cooking with As safe water reduces total and inorganic As contents in cooked rice. • Inorganic As is the predominant species in both raw (93.8%) and cooked rice (88.1%). • Risks of As exposure from cooked rice consumption exceed the safety standards.

  10. Species and Distribution of Rice Root Nematode in Yunnan Province, China

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    HUXian-qi; YUMin; LINLi-fei; WANGYang; YUSheng-fu

    2004-01-01

    Rice root nematodes, Hirschmanniella spp. parasitize in the roots of rice and water plant spread widely. Ten species of the genus Hirschmanniella Luc et Goody, 1964 (Nemata:Pratylenchidae) collected from the root of rice in Yunnan Province are reported. They are H. belli, H. caudacrena, H. diversa, H. gracilis, H. imamuri, H. mexicana, H. microtyla,H. mucronata, H. oryzae and H. spinicaudata, including seven species of important pathogenic nematodes of rice and two dominant species H. oryzae and H. imamari. Generally,the trend of species composition pattern is H. oryzae and H. imamari, which is a common composition pattern in the world, but the species composition mode varies with the difference of altitude and latitude. Their distribution relates to altitude and latitude closely, and also to the type of rice, such as indica or japonica rice.

  11. Species and Distribution of Rice Root Nematode in Yunnan Province,China

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    HU Xian-qi; YU Min; LIN Li-fei; WANG Yang; YU Sheng-fu

    2004-01-01

    Rice root nematodes, Hirschmanniella spp. parasitize in the roots of rice and water plant spread widely. Ten species of the genus Hirschmanniella Luc et Goody, 1964 (Nemata:Pratylenchidae) collected from the root of rice in Yunnan Province are reported. They are H. belli, H. caudacrena, H. diversa, H. gracilis, H. imamuri, H. mexicana, H. microtyla,H. mucronata, H. oryzae and H. spinicaudata, including seven species of important pathogenic nematodes of rice and two dominant species H. oryzae and H. imamari. Generally,the trend of species composition pattern is H. oryzae and H. imamari, which is a common composition pattern in the world, but the species composition mode varies with the difference of altitude and latitude. Their distribution relates to altitude and latitude closely, and also to the type of rice, such as indica or japonica rice.

  12. Genetic Diversity of Wild Rice Species in Yunnan Province of China

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    CHENG Zai-quan; HUANG Xing-qi; YING Fu-you; LI Ding-qing; YU Teng-qiong; FU Jian; YAN Hui-jun; ZHONG Qiao-fang; ZHANG Dun-yu; LI Wei-jiao

    2012-01-01

    Yunnan Province of China is one of the important centers for origin and evolution of cultivated rice worldwide.Wild rice is the ancestor of the cultivated rice.Many elite traits of wild rice have widened the genetic basis in cultivated rice.However,many populations of wild rice species have disappeared in the past few years.Therefore,the current status of wild rice resources should be updated and the genetic diversity of wild rice species should be examined for further germplasm preservation and utilization.Our investigations showed that the number of natural wild rice populations declined sharply in Yunnan Province during the past few years due to various reasons.Fortunately,one population of Oryza rufipogon,three of O.officinalis and ten of O.granulata have been newly found in different ecological sites,which were confirmed by inter-simple sequence repeat (ISSR) marker analysis in this study.ISSR analysis and investigation of some important traits of nutritional values indicated that the genetic diversity of the currently existing wild rice resources in Yunnan is still rich.The demonstration of genetic diversity of wild rice by a combined use of geographical distribution,morphological traits,nutrition contents and ISSR markers would be helpful for the conservation and exploration of these important wild rice resources.

  13. Molecular and cytogenetic evidence for an allotetraploid origin of Chenopodium quinoa and C. berlandieri (Amaranthaceae).

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    Kolano, Bozena; McCann, Jamie; Orzechowska, Maja; Siwinska, Dorota; Temsch, Eva; Weiss-Schneeweiss, Hanna

    2016-07-01

    Most of the cultivated chenopods are polyploids, but their origin and evolutionary history are still poorly understood. Phylogenetic analyses of DNA sequences of four plastid regions, nrITS and nuclear 5S rDNA spacer region (NTS) of two tetraploid chenopods (2n=4x=36), Andean C. quinoa and North American C. berlandieri, and their diploid relatives allowed inferences of their origin. The phylogenetic analyses confirmed allotetraploid origin of both tetraploids involving diploids of two different genomic groups (genomes A and B) and suggested that these two might share very similar parentage. The hypotheses on the origin of the two allopolyploid species were further tested using genomic in situ hybridization (GISH). Several diploid Chenopodium species belonging to the two lineages, genome A and B, suggested by phylogenetic analyses, were tested as putative parental taxa. GISH differentiated two sets of parental chromosomes in both tetraploids and further corroborated their allotetraploid origin. Putative diploid parental taxa have been suggested by GISH for C. quinoa and C. berlandieri. Genome sizes of the analyzed allotetraploids fit nearly perfectly the expected additive values of the putative parental taxa. Directional and uniparental loss of rDNA loci of the maternal A-subgenome was revealed for both C. berlandieri and C. quinoa. PMID:27063253

  14. Syntenic relationships between the U and M genomes of Aegilops, wheat and the model species Brachypodium and rice as revealed by COS markers.

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    Molnár, István; Šimková, Hana; Leverington-Waite, Michelle; Goram, Richard; Cseh, András; Vrána, Jan; Farkas, András; Doležel, Jaroslav; Molnár-Láng, Márta; Griffiths, Simon

    2013-01-01

    Diploid Aegilops umbellulata and Ae. comosa and their natural allotetraploid hybrids Ae. biuncialis and Ae. geniculata are important wild gene sources for wheat. With the aim of assisting in alien gene transfer, this study provides gene-based conserved orthologous set (COS) markers for the U and M genome chromosomes. Out of the 140 markers tested on a series of wheat-Aegilops chromosome introgression lines and flow-sorted subgenomic chromosome fractions, 100 were assigned to Aegilops chromosomes and six and seven duplications were identified in the U and M genomes, respectively. The marker-specific EST sequences were BLAST-ed to Brachypodium and rice genomic sequences to investigate macrosyntenic relationships between the U and M genomes of Aegilops, wheat and the model species. Five syntenic regions of Brachypodium identified genome rearrangements differentiating the U genome from the M genome and from the D genome of wheat. All of them seem to have evolved at the diploid level and to have been modified differentially in the polyploid species Ae. biuncialis and Ae. geniculata. A certain level of wheat-Aegilops homology was detected for group 1, 2, 3 and 5 chromosomes, while a clearly rearranged structure was showed for the group 4, 6 and 7 Aegilops chromosomes relative to wheat. The conserved orthologous set markers assigned to Aegilops chromosomes promise to accelerate gene introgression by facilitating the identification of alien chromatin. The syntenic relationships between the Aegilops species, wheat and model species will facilitate the targeted development of new markers specific for U and M genomic regions and will contribute to the understanding of molecular processes related to allopolyploidization.

  15. Syntenic relationships between the U and M genomes of Aegilops, wheat and the model species Brachypodium and rice as revealed by COS markers.

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    István Molnár

    Full Text Available Diploid Aegilops umbellulata and Ae. comosa and their natural allotetraploid hybrids Ae. biuncialis and Ae. geniculata are important wild gene sources for wheat. With the aim of assisting in alien gene transfer, this study provides gene-based conserved orthologous set (COS markers for the U and M genome chromosomes. Out of the 140 markers tested on a series of wheat-Aegilops chromosome introgression lines and flow-sorted subgenomic chromosome fractions, 100 were assigned to Aegilops chromosomes and six and seven duplications were identified in the U and M genomes, respectively. The marker-specific EST sequences were BLAST-ed to Brachypodium and rice genomic sequences to investigate macrosyntenic relationships between the U and M genomes of Aegilops, wheat and the model species. Five syntenic regions of Brachypodium identified genome rearrangements differentiating the U genome from the M genome and from the D genome of wheat. All of them seem to have evolved at the diploid level and to have been modified differentially in the polyploid species Ae. biuncialis and Ae. geniculata. A certain level of wheat-Aegilops homology was detected for group 1, 2, 3 and 5 chromosomes, while a clearly rearranged structure was showed for the group 4, 6 and 7 Aegilops chromosomes relative to wheat. The conserved orthologous set markers assigned to Aegilops chromosomes promise to accelerate gene introgression by facilitating the identification of alien chromatin. The syntenic relationships between the Aegilops species, wheat and model species will facilitate the targeted development of new markers specific for U and M genomic regions and will contribute to the understanding of molecular processes related to allopolyploidization.

  16. Relationships of wild and domesticated rices (Oryza AA genome species) based upon whole chloroplast genome sequences

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    Wambugu, Peterson W.; Marta Brozynska; Agnelo Furtado; Daniel L. Waters; Robert J. Henry

    2015-01-01

    Rice is the most important crop in the world, acting as the staple food for over half of the world’s population. The evolutionary relationships of cultivated rice and its wild relatives have remained contentious and inconclusive. Here we report on the use of whole chloroplast sequences to elucidate the evolutionary and phylogenetic relationships in the AA genome Oryza species, representing the primary gene pool of rice. This is the first study that has produced a well resolved and strongly su...

  17. Biological control of rice brown spot with native isolates of three Trichoderma species

    OpenAIRE

    Elham Khalili; Mehdi Sadravi; Shahram Naeimi; Vahid Khosravi

    2012-01-01

    Brown spot caused by Bipolaris oryzae is an important rice disease in Southern coast of Caspian Sea, the major rice growing region in Iran. A total of 45 Trichoderma isolates were obtained from rice paddy fields in Golestan and Mazandaran provinces which belonged to Trichoderma harzianum, T. virens and T. atroviride species. Initially, they were screened against B. oryzae by antagonism tests including dual culture, volatile and nonvolatile metabolites and hyperparasitism. Results showed that ...

  18. Speciation of Six-Arsenic Species of Rice in Korea by HPLC/ICPMS

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    Kim J.Y.

    2013-04-01

    Full Text Available Determination of arsenic (As speciation in rice is necessary because inorganic As species are more toxic than organic As. Arsenic levels of rice in Korea were determined by microwave extraction and High Performance Liquid Chromatography coupled with Inductively Coupled Plasma-Mass Spectrometry. The extraction method showed a high recovery and low Limit of Detection (LOD and Limit of Quantitation (LOQ. Most of the As species in rice were noticed to be inorganic [Arsenite (AsIII, Dimethylarsinic acid (DMA]. The percentage of inorganic As/total As is 69.01 % (36.40-87.86 %. Arsenite and DMA were the major compounds in rice in Korea when compare to U.S. rice. The order and percentage of As species showed were AsIII (56-70 %>DMA (23-38 %>AsV (5 %>MMA(1 %.

  19. Diversity in the Content of Some Nutritional Components in Husked Seeds of Three Wild Rice Species and Rice Varieties in Yunnan Province of China

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    Zai-Quan CHENG; Xing-Qi HUANG; Yi-Zheng ZHANG; Jun QIAN; Ming-Zhi YANG; Cheng-Jun WU; Jia-Fu LIU

    2005-01-01

    In addition to rice (Oryza sativa L.) cultivars, there are three wild rice species, namely O.rufipogon Griff, O. officinalis Wall and O. granulata Baill, in Yunnan Province, China. Each species has different subtypes and ecological distributions. Yunnan wild rice species are excellent genetic resources for developing new rice cultivars. The nutritional components of the husked seeds of wild rice have not been investigated thus far. Herein, we report on the contents of total protein, starch, amylose, 17 amino acids, and five macro and five trace mineral elements in husked seeds from three wild rice species and six O. sativa cultivars. The mean (± SD) protein content in the husked rice of O. rufipogon, O. officinalis, and O. granulata was (14.5 ± 0.6)%, (16.3 ± 1. 1)%, and (15.3 ± 0.5)%, respectively. O. officinalis Ⅲ originating from Gengma had the highest protein content (19.3%). In contrast, the average protein content of six O. sativa cultivars was only 9.15%. The total content of 17 amino acids of three wild rice species was 30%-50% higher than that of the six cultivars. Tyrosine, lysine, and valine content in the three wild rice species was 34%-209% higher than that of the cultivars. However, the difference in total starch content among different O. sativa varieties or types of wild rice species was very small. The average amylose content of O. rufipogon, O. officinalis,and O. granulata was 12.0%, 9.7%, and 11.3%, respectively, much lower than that of the indica and japonica varieties (14.37%-17.17%) but much higher than that of the glutinous rice cultivars (3.89%). The sulfur, phosphorus, magnesium, zinc, and ferrite content in the three wild rice species was 30%-158% higher than that of the six cultivars. The considerable difference in some nutritional components among wild rice species and O. sativa cultivars represents a wide biodiversity of Yunnan Oryza species. Based on the results of the present study, it is predicted that some good genetic traits

  20. Relationships of wild and domesticated rices (Oryza AA genome species) based upon whole chloroplast genome sequences.

    Science.gov (United States)

    Wambugu, Peterson W; Brozynska, Marta; Furtado, Agnelo; Waters, Daniel L; Henry, Robert J

    2015-01-01

    Rice is the most important crop in the world, acting as the staple food for over half of the world's population. The evolutionary relationships of cultivated rice and its wild relatives have remained contentious and inconclusive. Here we report on the use of whole chloroplast sequences to elucidate the evolutionary and phylogenetic relationships in the AA genome Oryza species, representing the primary gene pool of rice. This is the first study that has produced a well resolved and strongly supported phylogeny of the AA genome species. The pan tropical distribution of these rice relatives was found to be explained by long distance dispersal within the last million years. The analysis resulted in a clustering pattern that showed strong geographical differentiation. The species were defined in two primary clades with a South American/African clade with two species, O glumaepatula and O longistaminata, distinguished from all other species. The largest clade was comprised of an Australian clade including newly identified taxa and the African and Asian clades. This refined knowledge of the relationships between cultivated rice and the related wild species provides a strong foundation for more targeted use of wild genetic resources in rice improvement and efforts to ensure their conservation. PMID:26355750

  1. Higher taxa as surrogates of species richness of spiders in insect-resistant transgenic rice

    Institute of Scientific and Technical Information of China (English)

    Sheng Lin; Min-Sheng You; Liette Vasseur; Guang Yang; Feng-Jing Liu; Feng Guo

    2012-01-01

    Biodiversity assessments can often be time- and resource-consuming.Several alternative approaches have been proposed to reduce sampling efforts,including indicator taxa and surrogates.In this study,we examine the reliability of higher taxon surrogates to predict species richness in two experimental rice fields of Fujian Province,southeastern China during 2005 and 2009.Spider samples in transgenic and nontransgenic plots were collected using a suction sampler.Both the genus and family surrogates had significant and positive linear relationships with species richness in the transgenic and nontransgenic rice fields.The rice varieties did not significantly influence the linear relationships.Our findings suggest that higher-taxon surrogacy could be a useful alternative to complete species inventory for risk assessments of transgenic rice.

  2. Dynamics of immature stages of Anopheles arabiensis and other mosquito species (Diptera: Culicidae) in relation to rice cropping in a rice agro-ecosystem in Kenya.

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    Mwangangi, Joseph; Shililu, Josephat; Muturi, Ephantus; Gu, Weidong; Mbogo, Charles; Kabiru, Ephantus; Jacob, Benjamin; Githure, John; Novak, Robert

    2006-12-01

    We determined changes in species composition and densities of immature stages of Anopheles arabiensis mosquitoes in relation to rice growth cycle in order to generate data for developing larval control strategies in rice ecosystems. Experimental rice paddies (6.3m x 3.15m) exposed to natural colonization of mosquitoes were sampled weekly for two rice growing cycles between February 2004 and March 2005. Overall, 21,325 Anopheles larvae were collected, of which 91.9% were 1st and 2nd instars and 8.1% were 3rd and 4th instars. An. arabiensis was the predominant species (84.1%) with other species, An. pharoensis (13.5%), An. funestus (2.1%), An. coustani (0.3%), and An. maculipalpis (0.1%) accounting for only a small proportion of the anophelines collected. Culex quinquefasciatus (65.7%) was the predominant species among the non-anopheline species. Others species collected included: C. annulioris (9.9%), C. poicilipes (7.3%), C. tigripes (7.2%), C. duttoni (0.6%), Aedes aegypti (5.3%), Ae. cumminsii (3.5%), and Ae. vittatus (0.7%). The densities of the major anopheline species were closely related to rice stage and condition of the rice field. An. arabiensis, the predominant species, was most abundant over a three-week period after transplanting. Low densities of larvae were collected during the late vegetative, reproductive, and ripening phases of rice. An increase in larval density ten days post-transplanting was found to correlate with the application of fertilizer (sulphate of ammonia). Culicine and aedine species densities were significantly higher during the post-harvesting period. Our results suggest that the transplanting stage is favorable for the growth of immature stages of An. arabiensis and provides a narrow window for targeted larval intervention in rice. PMID:17249341

  3. Effect of organic matter amendment, arsenic amendment and water management regime on rice grain arsenic species

    International Nuclear Information System (INIS)

    Arsenic accumulation in rice grain has been identified as a major problem in some regions of Asia. A study was conducted to investigate the effect of increased organic matter in the soil on the release of arsenic into soil pore water and accumulation of arsenic species within rice grain. It was observed that high concentrations of soil arsenic and organic matter caused a reduction in plant growth and delayed flowering time. Total grain arsenic accumulation was higher in the plants grown in high soil arsenic in combination with high organic matter, with an increase in the percentage of organic arsenic species observed. The results indicate that the application of organic matter should be done with caution in paddy soils which have high soil arsenic, as this may lead to an increase in accumulation of arsenic within rice grains. Results also confirm that flooding conditions substantially increase grain arsenic. -- Highlights: ► High soil arsenic and organic matter caused a reduction in plant growth. ► A delayed flowering time was observed in high arsenic and organic matter soil. ► Total grain arsenic increased in high arsenic and organic matter soil. ► Percentage organic arsenic in the grain altered in arsenic and organic matter soil. -- The addition of high amounts of organic matter to soils led to an increase in total rice grain arsenic, as well as alteration in the percentage arsenic species in the rice grains

  4. Effect of organic matter amendment, arsenic amendment and water management regime on rice grain arsenic species.

    Science.gov (United States)

    Norton, Gareth J; Adomako, Eureka E; Deacon, Claire M; Carey, Anne-Marie; Price, Adam H; Meharg, Andrew A

    2013-06-01

    Arsenic accumulation in rice grain has been identified as a major problem in some regions of Asia. A study was conducted to investigate the effect of increased organic matter in the soil on the release of arsenic into soil pore water and accumulation of arsenic species within rice grain. It was observed that high concentrations of soil arsenic and organic matter caused a reduction in plant growth and delayed flowering time. Total grain arsenic accumulation was higher in the plants grown in high soil arsenic in combination with high organic matter, with an increase in the percentage of organic arsenic species observed. The results indicate that the application of organic matter should be done with caution in paddy soils which have high soil arsenic, as this may lead to an increase in accumulation of arsenic within rice grains. Results also confirm that flooding conditions substantially increase grain arsenic.

  5. Release of elicitors from rice blast spores under the action of reactive oxygen species

    Science.gov (United States)

    The effects of reactive oxygen species (ROS) on secretion of hypothesized elicitors from spores of rice blast causal fungus Magnaporthe grisea were studied. For spore exposure to exogenous ROS, they were germinated for 5 h in 50 µM H2O2 followed by addition of catalase E.C. 1.11.1.6 (to decompose pe...

  6. Development and mapping of SNP assays in allotetraploid cotton

    OpenAIRE

    Byers, Robert L.; Harker, David B.; Yourstone, Scott M.; Peter J Maughan; Udall, Joshua A.

    2012-01-01

    A narrow germplasm base and a complex allotetraploid genome have made the discovery of single nucleotide polymorphism (SNP) markers difficult in cotton (Gossypium hirsutum). To generate sequence for SNP discovery, we conducted a genome reduction experiment (EcoRI, BafI double digest, followed by adapter ligation, biotin–streptavidin purification, and agarose gel separation) on two accessions of G. hirsutum and two accessions of G. barbadense. From the genome reduction experiment, a total of 2...

  7. Analysis of intron sequence variability of the conservative HMG-box of Sox9 genes in allotetraploids and their original parents

    Institute of Scientific and Technical Information of China (English)

    Liu Jifang; Liu Shaojun; Tao Min; Li Wei; Liu Yun

    2007-01-01

    The Sox genes of allotetraploids and their original maternal red crucian carp ( Carassius caassius red var. ) and original paternal common carp ( Cyprinus carpio L. ) were detected by PCR with the designed primers based on the conserved HMG-box sequence in different species. Sequencing of Sox genes indicated that two Sox9 genes (Atsox9a and Atsox9b ) existed in allotetraploids, while only one Sox9 gene existed in red crucian carp ( Rcsox9a ) and common carp ( Ccsox9b ). All of the four Sox9 genes contained an intron in the HMG-box, with the sizes of 413 bp, 703 bp, 401 bp and 714 bp, respectively. Moreover, the introns obeyed the rule of "GT-AG". A high similarity was observed between introns of Atsox9a and Rcsox9a (94.4 % ), Atsox9b and Ccsox9b (97.8 % ). Interestingly, the deduced amino acid sequences of their corresponding exons all shared 100 % identity. Thus, introns of the HMG-domain of Sox9s in allotetraploids and their original parents have not only the length polymorphism but also intron variability. Our results provide significant molecular evidence for the origin and evolution of allotetraploids.

  8. The rice aquaporin Lsi1 mediates uptake of methylated arsenic species.

    Science.gov (United States)

    Li, Ren-Ying; Ago, Yukiko; Liu, Wen-Ju; Mitani, Namiki; Feldmann, Jörg; McGrath, Steve P; Ma, Jian Feng; Zhao, Fang-Jie

    2009-08-01

    Pentavalent methylated arsenic (As) species such as monomethylarsonic acid [MMA(V)] and dimethylarsinic acid [DMA(V)] are used as herbicides or pesticides, and can also be synthesized by soil microorganisms or algae through As methylation. The mechanism of MMA(V) and DMA(V) uptake remains unknown. Recent studies have shown that arsenite is taken up by rice (Oryza sativa) roots through two silicon transporters, Lsi1 (the aquaporin NIP2;1) and Lsi2 (an efflux carrier). Here we investigated whether these two transporters also mediate the uptake of MMA(V) and DMA(V). MMA(V) was partly reduced to trivalent MMA(III) in rice roots, but only MMA(V) was translocated to shoots. DMA(V) was stable in plants. The rice lsi1 mutant lost about 80% and 50% of the uptake capacity for MMA(V) and DMA(V), respectively, compared with the wild-type rice, whereas Lsi2 mutation had little effect. The short-term uptake kinetics of MMA(V) can be described by a Michaelis-Menten plus linear model, with the wild type having 3.5-fold higher V(max) than the lsi1 mutant. The uptake kinetics of DMA(V) were linear with the slope being 2.8-fold higher in the wild type than the lsi1 mutant. Heterologous expression of Lsi1 in Xenopus laevis oocytes significantly increased the uptake of MMA(V) but not DMA(V), possibly because of a very limited uptake of the latter. Uptake of MMA(V) and DMA(V) by wild-type rice was increased as the pH of the medium decreased, consistent with an increasing proportion of the undissociated species. The results demonstrate that Lsi1 mediates the uptake of undissociated methylated As in rice roots.

  9. Biological control of rice brown spot with native isolates of three Trichoderma species

    Directory of Open Access Journals (Sweden)

    Elham Khalili

    2012-03-01

    Full Text Available Brown spot caused by Bipolaris oryzae is an important rice disease in Southern coast of Caspian Sea, the major rice growing region in Iran. A total of 45 Trichoderma isolates were obtained from rice paddy fields in Golestan and Mazandaran provinces which belonged to Trichoderma harzianum, T. virens and T. atroviride species. Initially, they were screened against B. oryzae by antagonism tests including dual culture, volatile and nonvolatile metabolites and hyperparasitism. Results showed that Trichoderma isolates can significantly inhibit mycelium growth of pathogen in vitro by producing volatile and nonvolatile metabolites Light microscopic observations showed no evidence of mycoparasitic behaviour of the tested isolates of Trichoderma spp. such as coiling around the B. oryzae. According to in vitro experiments, Trichoderma isolates were selected in order to evaluate their efficacy in controlling brown spot in glasshouse using seed treatment and foliar spray methods. Concerning the glasshouse tests, two strains of T. harzianum significantly controlled the disease and one strain of T. atroviride increased the seedling growth. It is the first time that the biological control of rice brown spot and increase of seedling growth with Trichoderma species have been studied in Iran.

  10. The oryza map alignment project: the golden path to unlocking the genetic potential of wild rice species.

    Science.gov (United States)

    Wing, Rod A; Ammiraju, Jetty S S; Luo, Meizhong; Kim, Hyeran; Yu, Yeisoo; Kudrna, Dave; Goicoechea, Jose L; Wang, Wenming; Nelson, Will; Rao, Kiran; Brar, Darshan; Mackill, Dave J; Han, Bin; Soderlund, Cari; Stein, Lincoln; SanMiguel, Phillip; Jackson, Scott

    2005-09-01

    The wild species of the genus Oryza offer enormous potential to make a significant impact on agricultural productivity of the cultivated rice species Oryza sativa and Oryza glaberrima. To unlock the genetic potential of wild rice we have initiated a project entitled the 'Oryza Map Alignment Project' (OMAP) with the ultimate goal of constructing and aligning BAC/STC based physical maps of 11 wild and one cultivated rice species to the International Rice Genome Sequencing Project's finished reference genome--O. sativa ssp. japonica c. v. Nipponbare. The 11 wild rice species comprise nine different genome types and include six diploid genomes (AA, BB, CC, EE, FF and GG) and four tetrapliod genomes (BBCC, CCDD, HHKK and HHJJ) with broad geographical distribution and ecological adaptation. In this paper we describe our strategy to construct robust physical maps of all 12 rice species with an emphasis on the AA diploid O. nivara--thought to be the progenitor of modern cultivated rice. PMID:16217601

  11. Different localization patterns of anthocyanin species in the pericarp of black rice revealed by imaging mass spectrometry.

    Directory of Open Access Journals (Sweden)

    Yukihiro Yoshimura

    Full Text Available Black rice (Oryza sativa L. Japonica contains high levels of anthocyanins in the pericarp and is considered an effective health-promoting food. Several studies have identified the molecular species of anthocyanins in black rice, but information about the localization of each anthocyanin species is limited because methodologies for investigating the localization such as determining specific antibodies to anthocyanin, have not yet been developed Matrix-assisted laser desorption/ionization imaging mass spectrometry (MALDI-IMS is a suitable tool for investigating the localization of metabolites. In this study, we identified 7 species of anthocyanin monoglycosides and 2 species of anthocyanin diglycosides in crude extracts from black rice by matrix-assisted laser desorption/ionization mass spectrometry (MALDI-MS analysis. We also analyzed black rice sections by MALDI-IMS and found 2 additional species of anthocyanin pentosides and revealed different localization patterns of anthocyanin species composed of different sugar moieties. Anthocyanin species composed of a pentose moiety (cyanidin-3-O-pentoside and petunidin-3-O-pentoside were localized in the entire pericarp, whereas anthocyanin species composed of a hexose moiety (cyanidin-3-O-hexoside and peonidin-3-O-hexoside were focally localized in the dorsal pericarp. These results indicate that anthocyanin species composed of different sugar moieties exhibit different localization patterns in the pericarp of black rice. This is the first detailed investigation into the localization of molecular species of anthocyanins by MALDI-IMS.

  12. Different Localization Patterns of Anthocyanin Species in the Pericarp of Black Rice Revealed by Imaging Mass Spectrometry

    OpenAIRE

    Yukihiro Yoshimura; Nobuhiro Zaima; Tatsuya Moriyama; Yukio Kawamura

    2012-01-01

    Black rice (Oryza sativa L. Japonica) contains high levels of anthocyanins in the pericarp and is considered an effective health-promoting food. Several studies have identified the molecular species of anthocyanins in black rice, but information about the localization of each anthocyanin species is limited because methodologies for investigating the localization such as determining specific antibodies to anthocyanin, have not yet been developed Matrix-assisted laser desorption/ionization imag...

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

    Energy Technology Data Exchange (ETDEWEB)

    Rothenberg, Sarah E., E-mail: rothenberg.sarah@gmail.com [State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, 46 Guanshui Lu, Guiyang 550002 (China); Feng Xinbin, E-mail: fengxinbin@vip.skleg.cn [State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, 46 Guanshui Lu, Guiyang 550002 (China); Dong Bin, E-mail: dongbin@whu.edu.cn [State Key Laboratory of Water Resources and Hydropower Engineering Science, Wuhan University, Wuhan 430072 (China); Shang Lihai, E-mail: shanglihai@vip.gyig.ac.cn [State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, 46 Guanshui Lu, Guiyang 550002 (China); Yin Runsheng, E-mail: yinrunsheng2002@163.com [State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, 46 Guanshui Lu, Guiyang 550002 (China); Yuan Xiaobo, E-mail: xiantao_131@163.com [College of Resources and the Environment, Southwest University, Chongqing 400716 (China)

    2011-05-15

    In China, total Hg (Hg{sub T}) and methylmercury (MeHg) were quantified in rice grain grown in three sites using water-saving rice cultivation methods, and in one Hg-contaminated site, where rice was grown under flooded conditions. Polished white rice concentrations of Hg{sub T} (water-saving: 3.3 {+-} 1.6 ng/g; flooded: 110 {+-} 9.2 ng/g) and MeHg (water-saving 1.3 {+-} 0.56 ng/g; flooded: 12 {+-} 2.4 ng/g) were positively correlated with root-soil Hg{sub T} and MeHg contents (Hg{sub T}: r{sup 2} = 0.97, MeHg: r{sup 2} = 0.87, p < 0.05 for both), which suggested a portion of Hg species in rice grain was derived from the soil, and translocation of Hg species from soil to rice grain was independent of irrigation practices and Hg levels, although other factors may be important. Concentrations of Hg{sub T} and other trace elements were significantly higher in unmilled brown rice (p < 0.05), while MeHg content was similar (p > 0.20), indicating MeHg infiltrated the endosperm (i.e., white rice) more efficiently than inorganic Hg(II). - Highlights: > First time that Hg{sub T} and MeHg were characterized in both brown and white rice. > MeHg translocation into the endosperm was more efficient than inorganic Hg(II). > In this respect, MeHg behaved like dimethylarsinic acid and organic Se species. > In white rice, Hg{sub T} and MeHg were positively correlated with soil Hg{sub T} and MeHg. > Uptake rates of Hg{sub T} and MeHg were independent of irrigation methods and Hg content. - Methylmercury was more efficiently translocated to the endosperm than inorganic mercury.

  14. Reactive oxygen species activity in the interaction of rice with Erwinia chrysanthemi pv. zeae

    Institute of Scientific and Technical Information of China (English)

    Qiongguang LIU; Landi HE; Jingyi ZHANG; Yutao WANG; Zhenzhong WANG

    2008-01-01

    Activities of reactive oxygen species (ROS) were investigated in the interaction between rice and Erwinia chrysanthemi pv. zeae. Results showed that variety (128) had higher increases in activity compared to those in the susceptible variety (Texian 13) 24 hours after bacteria inoculation. The activities of superoxide dismutase (SOD) increased in 128 and Texian 13 twenty-four hours after inoculation and then decreased, but the SOD activity in 128 was found to be usually lower than that in Texian 13. The CAT activity in Texian 13 had two peaks at 24 h and 96 h after inoculation, while little change was seen in 128. In conclusion, ROS and its related enzymes could be correlated to rice resistance against E. chrysanthemi pv. zeae.

  15. Ascorbic acid and reactive oxygen species are involved in the inhibition of seed germination by abscisic acid in rice seeds

    OpenAIRE

    Ye, Nenghui; Zhu, Guohui; Liu, Yinggao; Zhang, Aying; Li, Yingxuan; Liu, Rui; Shi, Lu; Jia, Liguo; Zhang, Jianhua

    2011-01-01

    The antagonism between abscisic acid (ABA) and gibberellin (GA) plays a key role in controlling seed germination, but the mechanism of antagonism during this process is not known. The possible links among ABA, reactive oxygen species (ROS), ascorbic acid (ASC), and GA during rice seed germination were investigated. Unlike in non-seed tissues where ROS production is increased by ABA, ABA reduced ROS production in imbibed rice seeds, especially in the embryo region. Such reduced ROS also led to...

  16. Ecotoxicological effects of rice field waters on selected planktonic species: comparison between conventional and organic farming.

    Science.gov (United States)

    Suárez-Serrano, Andrea; Ibáñez, Carles; Lacorte, Silvia; Barata, Carlos

    2010-11-01

    The aim of this study was to assess the ecotoxicological effects of water coming from untreated organic and conventional rice field production areas in the Ebro Delta (Catalonia, Spain) treated with the herbicides oxadiazon, benzofenap, clomazone and bensulfuron-methyl and the fungicides carbendazim, tricyclazole and flusilazole. Irrigation and drainage channels of the study locations were also included to account for potential toxic effects of water coming in and out of the studied rice fields. Toxicity tests included four species (Pseudokirchneriella subcapitata, Desmodesmus subcapitatus, Chlorella vulgaris and Daphnia magna), three endpoints (microalgae growth, D. magna mortality and feeding rates), and two trophic levels: primary producers (microalgae) and grazers (D. magna). Pesticides in water were analyzed by solid phase extraction-liquid chromatography-electrospray-tandem mass spectrometry (LC-ESI-MS/MS). Negative effects on algae growth and D. magna feeding rates were detected mainly after application of herbicides and fungicides, respectively, in the conventional rice field. Results indicated that most of the observed negative effects in microalgae and D. magna were explained by the presence of herbicides and fungicides. The above mentioned analyses also denoted an inverse relationship between phytoplankton biomass measured as chlorophyll a and herbicides. In summary, this study indicates that in real field situations low to moderate levels of herbicides and fungicides have negative impacts to planktonic organisms and these effects seem to be short-lived.

  17. Characterization of Interspecific Hybrids Between Oryza sativa L. and Three Wild Rice Species of China by Genomic In Situ Hybridization

    Institute of Scientific and Technical Information of China (English)

    Guang-Xuan Tan; Zhi-Yong Xiong; Hua-Jun Jin; Gang Li; Li-Li Zhu; Li-Hui Shu; Guang-Cun He

    2006-01-01

    In the genus Oryza, interspecific hybrids are useful bridges for transferring the desired genes from wild species to cultivated rice (Oryza sativa L.). In the present study, hybrids between O. sativa (AA genome)and three Chinese wild rices, namely O. rufipogon (AA genome), O. officinalis (CC genome), and O. meyeriana (GG genome), were produced. Agricultural traits of the F1 hybrids surveyed were intermediate between their parents and appreciably resembled wild rice parents. Except for the O. sativa × O. rufipogon hybrid,the other F1 hybrids were completely sterile. Genomic in situ hybridization (GISH) was used for hybrid verification. Wild rice genomic DNAs were used as probes and cultivated rice DNA was used as a block. With the exception of O. rufipogon chromosomes, this method distinguished the other two wild rice and cultivated rice chromosomes at the stage of mitotic metaphase with different blocking ratios. The results suggest that a more distant phylogenetic relationship exists between O. meyeriana and O. sativa and that O. rufipogon and O. sativa share a high degree of sequence homology. The average mitotic chromosome length of O. officinalis and O. meyeriana was 1.25- and 1.51-fold that of O. sativa, respectively. 4',6'-Diamidino2-phenylindole staining showed that the chromosomes of O. officinalis and O. meyeriana harbored more heterochromatin, suggesting that the C and G genomes were amplified with repetitive sequences compared with the A genome. Although chromocenters formed by chromatln compaction were detected with wild rice-specific signals corresponding to the C and G genomes in discrete domains of the F1 hybrid interphase nuclei, the size and number of O. meyeriana chromocenters were bigger and greater than those of O. officinalis. The present results provide an important understanding of the genomic relationships and a tool for the transfer of useful genes from three native wild rice species in China to cultivars.

  18. Insights into the Musa genome: Syntenic relationships to rice and between Musa species

    Directory of Open Access Journals (Sweden)

    Althoff Ryan

    2008-01-01

    Full Text Available Abstract Background Musa species (Zingiberaceae, Zingiberales including bananas and plantains are collectively the fourth most important crop in developing countries. Knowledge concerning Musa genome structure and the origin of distinct cultivars has greatly increased over the last few years. Until now, however, no large-scale analyses of Musa genomic sequence have been conducted. This study compares genomic sequence in two Musa species with orthologous regions in the rice genome. Results We produced 1.4 Mb of Musa sequence from 13 BAC clones, annotated and analyzed them along with 4 previously sequenced BACs. The 443 predicted genes revealed that Zingiberales genes share GC content and distribution characteristics with eudicot and Poaceae genomes. Comparison with rice revealed microsynteny regions that have persisted since the divergence of the Commelinid orders Poales and Zingiberales at least 117 Mya. The previously hypothesized large-scale duplication event in the common ancestor of major cereal lineages within the Poaceae was verified. The divergence time distributions for Musa-Zingiber (Zingiberaceae, Zingiberales orthologs and paralogs provide strong evidence for a large-scale duplication event in the Musa lineage after its divergence from the Zingiberaceae approximately 61 Mya. Comparisons of genomic regions from M. acuminata and M. balbisiana revealed highly conserved genome structure, and indicated that these genomes diverged circa 4.6 Mya. Conclusion These results point to the utility of comparative analyses between distantly-related monocot species such as rice and Musa for improving our understanding of monocot genome evolution. Sequencing the genome of M. acuminata would provide a strong foundation for comparative genomics in the monocots. In addition a genome sequence would aid genomic and genetic analyses of cultivated Musa polyploid genotypes in research aimed at localizing and cloning genes controlling important agronomic

  19. Hygromycin B-induced cell death is partly mediated by reactive oxygen species in rice (Oryza sativa L.).

    Science.gov (United States)

    Oung, Hui-Min; Lin, Ke-Chun; Wu, Tsung-Meng; Chandrika, Nulu Naga Prafulla; Hong, Chwan-Yang

    2015-12-01

    The aminoglycoside antibiotic hygromycin B (Hyg) inhibits prokaryotic, chloroplast and mitochondrial protein synthesis. Because of the toxic effect of Hyg on plant cells, the HPT gene, encoding hygromycin phosphotransferase, has become one of the most widely used selectable markers in plant transformation. Yet the mechanism behind Hyg-induced cell lethality in plants is not clearly understood. In this study, we aimed to decipher this mechanism. With Hyg treatment, rice calli exhibited cell death, and rice seedlings showed severe growth defects, leaf chlorosis and leaf shrinkage. Rice seedlings also exhibited severe lipid peroxidation and protein carbonylation, for oxidative stress damage at the cellular level. The production of reactive oxygen species such as O2(·-), H2O2 and OH(·) was greatly induced in rice seedlings under Hyg stress, and pre-treatment with ascorbate increased resistance to Hyg-induced toxicity indicating the existence of oxidative stress. Overexpression of mitochondrial Alternative oxidase1a gene without HPT selection marker in rice enhanced tolerance to Hyg and attenuated the degradation of protein content, whereas the rice plastidial glutathione reductase 3 mutant showed increased sensitivity to Hyg. These results demonstrate that Hyg-induced cell lethality in rice is not only due to the inhibition of protein synthesis but also mediated by oxidative stress.

  20. Southern rice black-streaked dwarf virus: A new proposed Fijivirus species in the family Reoviridae

    Institute of Scientific and Technical Information of China (English)

    ZHOU GuoHui; WEN JingJung; CAI DeJiang; LI Peng; XU DongLin; ZHANG ShuGuang

    2008-01-01

    . It is proposed that this virus be considered as a new species, Southern rice black-streaked dwarf virus, in the group 2 of the genus Fijivirus in the family Reoviridae.

  1. Molecular identification of Aspergillus and Eurotium species isolated from rice and their toxin-producing ability.

    Science.gov (United States)

    Yazdani, D; Zainal Abidin, M A; Tan, Y H; Kamaruzaman, S

    2011-01-01

    Thirty milled rice samples were collected from retailers in 4 provinces of Malaysia. These samples were evaluated for Aspergillus spp. infection by direct plating on malt extract salt agar (MESA). All Aspergillus holomorphs were isolated and identified using nucleotide sequences of ITS 1 and ITS 2 of rDNA. Five anamorphs (Aspergillus flavus, A. oryzae, A. tamarii, A. fumigatus and A. niger) and 5 teleomorphs (Eurotium rubrum, E. amstelodami, E. chevalieri, E. cristatum and E. tonophilum) were identified. The PCR-sequencing based technique for sequences of ITS 1 and ITS 2 is a fast technique for identification of Aspergillus and Eurotium species, although it doesn't work flawlessly for differentiation of Eurotium species. All Aspergillus and Eurotium isolates were screened for their ability to produce aflatoxin and ochratoxin A (OTA) by HPLC and TLC techniques. Only A. flavus isolate UPM 89 was able to produce aflatoxins B1 and B2. PMID:22168015

  2. Rice pseudomolecule-anchored cross-species DNA sequence alignments indicate regional genomic variation in expressed sequence conservation

    Directory of Open Access Journals (Sweden)

    Thomas Howard

    2007-08-01

    Full Text Available Abstract Background Various methods have been developed to explore inter-genomic relationships among plant species. Here, we present a sequence similarity analysis based upon comparison of transcript-assembly and methylation-filtered databases from five plant species and physically anchored rice coding sequences. Results A comparison of the frequency of sequence alignments, determined by MegaBLAST, between rice coding sequences in TIGR pseudomolecules and annotations vs 4.0 and comprehensive transcript-assembly and methylation-filtered databases from Lolium perenne (ryegrass, Zea mays (maize, Hordeum vulgare (barley, Glycine max (soybean and Arabidopsis thaliana (thale cress was undertaken. Each rice pseudomolecule was divided into 10 segments, each containing 10% of the functionally annotated, expressed genes. This indicated a correlation between relative segment position in the rice genome and numbers of alignments with all the queried monocot and dicot plant databases. Colour-coded moving windows of 100 functionally annotated, expressed genes along each pseudomolecule were used to generate 'heat-maps'. These revealed consistent intra- and inter-pseudomolecule variation in the relative concentrations of significant alignments with the tested plant databases. Analysis of the annotations and derived putative expression patterns of rice genes from 'hot-spots' and 'cold-spots' within the heat maps indicated possible functional differences. A similar comparison relating to ancestral duplications of the rice genome indicated that duplications were often associated with 'hot-spots'. Conclusion Physical positions of expressed genes in the rice genome are correlated with the degree of conservation of similar sequences in the transcriptomes of other plant species. This relative conservation is associated with the distribution of different sized gene families and segmentally duplicated loci and may have functional and evolutionary implications.

  3. BAC libraries construction from the ancestral diploid genomes of the allotetraploid cultivated peanut

    Directory of Open Access Journals (Sweden)

    Chaine Christian

    2008-01-01

    Full Text Available Abstract Background Cultivated peanut, Arachis hypogaea is an allotetraploid of recent origin, with an AABB genome. In common with many other polyploids, it seems that a severe genetic bottle-neck was imposed at the species origin, via hybridisation of two wild species and spontaneous chromosome duplication. Therefore, the study of the genome of peanut is hampered both by the crop's low genetic diversity and its polyploidy. In contrast to cultivated peanut, most wild Arachis species are diploid with high genetic diversity. The study of diploid Arachis genomes is therefore attractive, both to simplify the construction of genetic and physical maps, and for the isolation and characterization of wild alleles. The most probable wild ancestors of cultivated peanut are A. duranensis and A. ipaënsis with genome types AA and BB respectively. Results We constructed and characterized two large-insert libraries in Bacterial Artificial Chromosome (BAC vector, one for each of the diploid ancestral species. The libraries (AA and BB are respectively c. 7.4 and c. 5.3 genome equivalents with low organelle contamination and average insert sizes of 110 and 100 kb. Both libraries were used for the isolation of clones containing genetically mapped legume anchor markers (single copy genes, and resistance gene analogues. Conclusion These diploid BAC libraries are important tools for the isolation of wild alleles conferring resistances to biotic stresses, comparisons of orthologous regions of the AA and BB genomes with each other and with other legume species, and will facilitate the construction of a physical map.

  4. A complex recombination pattern in the genome of allotetraploid Brassica napus as revealed by a high-density genetic map.

    Directory of Open Access Journals (Sweden)

    Guangqin Cai

    Full Text Available Polyploidy plays a crucial role in plant evolution. Brassica napus (2n = 38, AACC, the most important oil crop in the Brassica genus, is an allotetraploid that originated through natural doubling of chromosomes after the hybridization of its progenitor species, B. rapa (2n = 20, AA and B. oleracea (2n = 18, CC. A better understanding of the evolutionary relationship between B. napus and B. rapa, B. oleracea, as well as Arabidopsis, which has a common ancestor with these three species, will provide valuable information about the generation and evolution of allopolyploidy. Based on a high-density genetic map with single nucleotide polymorphism (SNP and simple sequence repeat (SSR markers, we performed a comparative genomic analysis of B. napus with Arabidopsis and its progenitor species B. rapa and B. oleracea. Based on the collinear relationship of B. rapa and B. oleracea in the B. napus genetic map, the B. napus genome was found to consist of 70.1% of the skeleton components of the chromosomes of B. rapa and B. oleracea, with 17.7% of sequences derived from reciprocal translocation between homoeologous chromosomes between the A- and C-genome and 3.6% of sequences derived from reciprocal translocation between non-homologous chromosomes at both intra- and inter-genomic levels. The current study thus provides insights into the formation and evolution of the allotetraploid B. napus genome, which will allow for more accurate transfer of genomic information from B. rapa, B. oleracea and Arabidopsis to B. napus.

  5. Measurement of inorganic arsenic species in rice after nitric acid extraction by HPLC-ICPMS: verification using XANES.

    Science.gov (United States)

    Maher, W; Foster, S; Krikowa, F; Donner, E; Lombi, E

    2013-06-01

    The measurement of As species in rice is normally accomplished by extraction followed by HPLC-ICPMS analysis. This method, however, has not been comprehensively validated by comparing these speciation results with XANES, which does not require sample extraction, due to the challenge of conducting XANES analysis at very low As concentrations. In this study As speciation data using nitric acid extraction/HPLC-ICPMS and XANES are compared to verify the efficacy of using 2% v/v nitric acid extraction and HPLC-ICPMS to measure inorganic As, DMA, and MA in reference rice materials and common rice varieties obtainable in Australia. Total As and As species (As(III), As(V), DMA, and MA) concentrations measured in 8 reference materials were in agreement with published values. XANES analysis was performed on 5 samples having total As concentrations ranging from 0.198 to 0.335 μg g(-1). XANES results gave similar proportions of total As(III), As(V), and DMA to HPLC-ICPMS. XANES was able to distinguish two forms of As(III): As(III) and As(III)GSH. Total As concentrations in rice samples varied from 0.006 to 0.45 μg g(-1) As (n = 47) with a mean ± std of 0.127 ± 0.112 μg g(-1) As with most As present as inorganic species (63 ± 26%). DMA was found in nearly all the rice samples with the majority of samples containing concentrations below 0.05 μg g(-1) As while MA concentrations were negligible (<0.003 μg g(-1) As). Six rice varieties produced in Australia, China, and Spain all had elevated DMA concentrations (0.170-0.399 μg g(-1) As) that were correlated with total As concentrations (r(2) = 0.7518). In conclusion, comparison of As speciation by HPLC-ICPMS and XANES showed that similar As species were detected indicating the appropriateness of using 2% v/v nitric acid for extraction of rice prior to speciation. Common rice varieties obtainable in Australia generally have low As concentrations with most As present as inorganic As.

  6. New approaches to the management of golden apple snail, Pomacea canaliculata (Lamarck): An invasive alien pest species of rice

    International Nuclear Information System (INIS)

    Full text: Golden apple snail (GAS), Pomacea canaliculata (Lamarck) is native to South America. It was introduced to farmers in the Philippines in the 1980s from Argentina via Taiwan, and to other countries in Asia to increase their income and to enrich the protein intake in their diet, and also as an aquarium pet. The Global Invasive Species (IAS) FAO report that it causes 1.2 billion USD losses to aquatic crops particularly rice, taro and morning glory in Asian countries and the USA. Aside from being a serious agricultural pest, it is also an environmental pest. In an attempt to control GAS resource-poor-farmers resort to 'shot-gun approach' of using toxic and non specific agrochemicals thereby aggravating ecosystem pollution, risking their health and causing loss of aquatic biodiversity. GAS is expanding its distribution westwards in Asia and poses new threats of its invasion in Australia, India, Bangladesh and Pakistan. At the Philippine Rice Research Institute (PhilRice), my team focuses on two approaches. First we have to understand the field ecology of the GAS and identify weak-links in their life cycle. Then we use this basic information to manage GAS at the village level within the community in an ecologically sustainable socially acceptable and economically viable ways. I shall discuss how this LAS in transplanted lowland irrigated rice ecologies can be managed using locally available attractants during the vulnerable stage(s) of rice crop growth. New approaches will highlight the innovative and applied techniques on how to prevent the rampant abuse/misuse of agrochemicals, as well as GAS utilisation in weed management in rice fields and as aqua feed. In future, it is necessary to develop collaborative exploratory research with the IAEA and the Philippine Nuclear Research Institute (PNRI) to develop an effective area-wide management of GAS in direct-seeded rice systems that will capitalise on an integrated approach and environment-friendly technologies

  7. High-density Linkage Map of Cultivated Allotetraploid Cotton Based on SSR, TRAP, SRAP and AFLP Markers

    Institute of Scientific and Technical Information of China (English)

    Jiwen Yu; Shuxun Yu; Cairui Lu; Wu Wang; Shuli Fan; Meizhen Song; Zhongxu Lin; Xianlong Zhang; Jinfa Zhang

    2007-01-01

    A high-density linkage map was constructed for an F2 population derived from an interspecific cross of cultivated allotetraploid species between Gossyplum hirsutum L. and G. barbadense L. A total of 186 F2 individuals from the interspecific cross of "CRI 36 × Hai 7124" were genotyped at 1 252 polymorphic loci including a novel marker system,target region amplification polymorphism (TRAP). The map consists of 1 097 markers, including 697 simple sequence repeats (SSRs), 171 TRAPs, 129 sequence-related amplified polymorphisms, 98 amplified fragment length polymorphisms, and two morphological markers, and spanned 4 536.7 cM with an average genetic distance of 4.1 cM per marker. Using 45 duplicated SSR loci among chromosomes, 11 of the 13 pairs of homologous chromosomes were identified in tetraplold cotton. This map will provide an essential resource for high resolution mapping of quantitative trait loci and molecular breeding in cotton.

  8. Occurrence and stability of inorganic and organic arsenic species in wines, rice wines and beers from Central European market.

    Science.gov (United States)

    Huang, J-H; Hu, K-N; Ilgen, J; Ilgen, G

    2012-01-01

    We investigated in total 80 wine samples of different types and seven grape juice and 23 beer samples purchased from markets in Central Europe in order to understand the arsenic (As) speciation and help assess the potential As toxicity via intake of alcoholic beverages. Generally, total As concentrations in most samples investigated were below the drinking water limit 10 µg l(-1) published by the World Health Organization (WHO); ranging from 0.46 to 21.0 µg l(-1) As in red and white wines and from 0.75 to 13.4 µg l(-1) As in beers. In addition, concentrations of total As in rice wine and in rice beer were 0.63-6.07 and 3.69-8.23 µg l(-1) As, respectively. The total As concentrations in ice wine ranged from 7.94 to 18.8 µg l(-1) As, significantly higher than in white and red wine. Arsenite predominated as the As species in most of the wine samples, whereas arsenate was the dominant species in rice wine, beer and rice beer. Methyl As components were usually minor components in all wine and beer samples. Monomethylarsonic acid, dimethylarsinic acid and two additional unknown As species were frequently found in grape juice, late harvest and ice wine with higher sweetness. After air exposure, arsenite, arsenate, monomethylarsonic acid and dimethylarsinic acid were stable at 4°C for months, probably due to the acidic conditions of wine and beer samples. The presence of sulfite had little influence on As speciation in wine. Despite the predominance of more toxic arsenite and arsenate in wine and beer, the estimated weekly exposure to As (via consumption of beer, wine and rice wine) is low. The As intake per capita is 6.81 µg from beer, <1.93 µg from wine and 0.88 µg from rice wine, estimated using the median of total As concentration multiplied by the average consumption per capita of the corresponding beverage.

  9. Relationships between Phosphatidylglycerol Molecular Species of Thylakoid Membrane Lipids and Sensitivities to Chilling-induced Photoinhibition in Rice

    Institute of Scientific and Technical Information of China (English)

    Su-Qin Zhu; Hua Zhao; Jian-Sheng Liang; Ben-Hua Ji; De-Mao Jiao

    2008-01-01

    In an attempt to explore the relationships between phosphatidylglycerol (PG) molecular species of thylakoid membrane lipids and sensitivities to chilling-induced photoinhibition, PG molecular species, D1 protein, electron transport activities of thylakoid membrane and the potential quantum yield (Fv/Fm) in rice treated under middle and low photon flux density (PFD) at 11℃ were analyzed by high performance liquid chromatography, enzyme hydrolysis, gas phase chromatography (GC) and so on. Results showed that the major molecular species of PGs in rice thylakoid membrane were 18:3/16:0, 18:3/16:1(3t), 18:2/16:0, 18:2/16:1(3t), 18:1/16:0, 18:1116:1(3t), 16:0/16:0, 16:0116:1(3t). There were large differences in the contents of unsaturated PG molecular species such as 18:1-3/16:0-16:1(3t) and saturated PG molecular species like 16:0116:0-16:1(3t) among japonica cv 9516 (j-9516),japonica-indica hybrid F1 j-951611-SY63 (ji-95SY) and indica cv Shanyou 63 (i-SY63). J-9516 containing higher contents of unsaturated PG molecular species was manifest in stable DI protein contents under chill and tolerant to chill-induced photoinhibition. In contrast to j-9516, i-SY63 with lower contents of unsaturated PG molecular species, exhibited unstable D1 protein contents under chill and was sensitive to chill-induced photoinhibition, ji-g5SY containing middle contents of unsaturated PG molecular species between those of j-9516 and i-SY63, exhibited mid extent of sensitivity to chill-induced photoinhibition. The losses in D1 protein also account for the inhibition in electron transport activity of thylakoid membrane and the observed decline in FvlFm. The PG molecular species that is efficient in raising chilling-resistant capacity were those containing unsaturated fatty acids, namely, unsaturated PG molecular species. These results implied that the substrate selectivity of the glycerol-3-phosphate acyltransferase In chloroplasts towards 16:0 or 18:1 displayed greatly the difference

  10. The ultrastructure of pollen grain surface in allotetraploid petunia (Petunia hybrida hort. superbissima as revealed by scanning electron microscopy

    Directory of Open Access Journals (Sweden)

    S. Muszyński

    2015-05-01

    Full Text Available The ultrastructure of pollen grain surface in allotetraploid petunias was analyzed by scanning electron microscopy. The pollen grain wall is developed into characteristic pattern of convulations.

  11. A Record of Small-Clawed Otters (Aonyx cinereus) Foraging on an Invasive Pest Species, Golden Apple Snails (Pomacea canaliculata) in a West Sumatra Rice Field

    OpenAIRE

    Jabang; Wilson Novarino; Aadrean

    2011-01-01

    A small-clawed otter (Aonyx cinereus) survey in West Sumatran rice fields was conducted from April to September 2010. During this survey, golden apple snail (Pomacea canaliculata) shell remains were found on a rice field bank as suspected prey remains of small-clawed otters. This suspicion was later proved by the occurrence of snail material (pieces of operculum and shell) in otter spraints. This is the first evidence of small-clawed otters foraging on this invasive pest species. Characterist...

  12. Natural variation of rice blast resistant gene Pi-ta in Oryza species

    Science.gov (United States)

    The Pi-ta gene in rice is a putative NBS type cytoplasmic receptor conferring resistance to races of Magnaporthe oryzae in a gene-for-gene manner. A Functional Nucleotide Polymorphism (FNP) change resulting in an amino acid substitution of Alanine to Serine at position 918 (nucleotide G to T at posi...

  13. Variation of Cd concentration in various rice cultivars and derivation of cadmium toxicity thresholds for paddy soil by species-sensitivity distribution

    Institute of Scientific and Technical Information of China (English)

    SONG Wen-en; CHEN Shi-bao; LIU Ji-fang; CHEN Li; SONG Ning-ning; LI Ning; LIU Bin

    2015-01-01

    It is imperative to derive an appropriate cadmium (Cd) health risk toxicity threshold for paddy soils to ensure the Cd con-centration of rice grains meet the food safety standard. In this study, 20 rice cultivars from the main rice producing areas in China were selected, and a pot-experiment was conducted to investigate transformation of Cd in paddy soil-rice system with 0 (CK), 0.3 mg kg–1 (T1) and 0.6 mg kg–1 (T2) Cd treatments in greenhouse. The results showed that Cd concentrations of rice grains existed signiifcant difference (P<0.05) in 20 rice cultivars under the same Cd level in soil. The Cd concentrations of rice grains of the CK, T1 and T2 treatments were in the range of 0.143–0.202, 0.128–0.458 and 0.332–0.806 mg kg–1, respectively. Marked differences of the ratios of Cd concentration for soil to rice grain (BCFs) and transfer factors (TFs, root to grain and straw to grain) among the tested cultivars were observed in this study. The bioconcentration factors (BCFgrain) and TFs of the 20 rice cultivars were 0.300–1.112 and 0.342–0.817, respectively. The TFs of Cd from straw to grain ranged from 0.366 to 1.71, with signiifcant differences among these 20 rice cultivars. The bioconcentration factors (BCFgrain) and TFs among the 20 rice cultivars ranged from 0.300–1.112 and 0.342–0.817, respectively. The species-sensitivity distribu-tion (SSD) of Cd sensitivity of the rice species could be iftted wel with Burr-III (R2=0.987) based on the data of BCFs. The toxicity threshold of Cd derived from SSD for the paddy soil was 0.507 mg kg–1 in the present study.

  14. Variation of Cd concentration in various rice cultivars and derivation of cadmium toxicity thresholds for paddy soil by species-sensitivity distribution

    Institute of Scientific and Technical Information of China (English)

    SONG Wen-en[1; CHEN Shi-bao[1; LIU Ji-fang[2; CHEN Li[3; SONG Ning-ning[1; LINing[1; LIU Bin[1

    2015-01-01

    It is imperative to derive an appropriate cadmium (Cd) health risk toxicity threshold for paddy soils to ensure the Cd con- centration of rice grains meet the food safety standard. In this study, 20 rice cultivars from the main rice producing areas in China were selected, and a pot-experiment was conducted to investigate transformation of Cd in paddy soil-rice system with 0 (CK), 0.3 mg kg-1 (T1) and 0.6 mg kg-1(T2) Cd treatments in greenhouse. The results showed that Cd concentrations of rice grains existed significant difference (P〈0.05) in 20 rice cultivars under the same Cd level in soil. The Cd concentrations of rice grains of the CK, T1 and T2 treatments were in the range of 0.143-0.202, 0.128-0.458 and 0.332-0.806 mg kg-1, respectively. Marked differences of the ratios of Cd concentration for soil to rice grain (BCFs) and transfer factors (TFs, root to grain and straw to grain) among the tested cultivars were observed in this study. The bioconcentration factors (BCFgrain) and TFs of the 20 rice cultivars were 0.300-1.112 and 0.342-0.817, respectively. The TFs of Cd from straw to grain ranged from 0.366 to 1.71, with significant differences among these 20 rice cultivars. The bioconcentration factors (BCFgrain) and TFs among the 20 rice cultivars ranged from 0.300-1.112 and 0.342-0.817, respectively. The species-sensitivity distribu- tion (SSD) of Cd sensitivity of the rice species could be fitted well with Burr-Ill (R2=0.987) based on the data of BCFs. The toxicity threshold of Cd derived from SSD for the paddy soil was 0.507 mg kg-1 in the present study.

  15. Defining the distribution of arsenic species and plant nutrients in rice ( Oryza sativa L.) from the root to the grain

    Science.gov (United States)

    Seyfferth, Angelia L.; Webb, Samuel M.; Andrews, Joy C.; Fendorf, Scott

    2011-11-01

    The transport mechanisms of As from contaminated soil or irrigation water into roots and subsequently into grain, and the As species distribution—a toxicity determinant, is critical for assessing health risks imposed by As. However, the commonly-employed extraction of plant material with trifluoroacetic acid (TFA) has not proven successful in preserving inorganic As species. Synchrotron-based spectroscopic techniques are useful for discerning elemental distributions and chemical speciation of elements in situ. Here, we both characterize the mineral phases of Fe coatings on rice roots, and quantify plant nutrients and As species in situ on roots and grain samples. Arsenic in rice grains was present in bran layers as oxidized As (69-88% as As(V) i and 12-31% as DMA) and in the germ as a mixture of As(V) i and As(III) i, but was non-detected from the endosperm, which is consistent with previous findings. The extent of Fe coatings on rice roots was variable and, when present, consisted of lepidocrocite (γ-FeOOH), goethite (α-FeOOH) and ferrihydrite (Fe(OH) 3· nH 2O). Arsenic was co-located with root Fe coatings, but our findings indicate that Fe is not a direct interceptor of As uptake, and is rather a bulk scavenger mostly near the air-water interface. On whole root mounts with Fe plaque, arsenic was present as mixed species of As(V) i (44-66%) and As(III) i (34-56%). Within a root cross-section, oxidized As species were dominant in the xylem (86% as As(V) i and 14% as DMA) whereas mostly reduced species (71% as As(III) i, 29% as AsGlu 3) resided within a vacuole adjacent to the xylem. This finding contrasts the prevailing view that As(V) i is rapidly reduced in roots and transported to shoots as As(III) i, and points to the importance of interspecies differences in As-uptake dynamics.

  16. Plant species richness and floristic composition change along a rice-pasture sequence in subsistence farms of Brazilian Amazon, influence on the fallows biodiversity (Benfica, State of Para)

    OpenAIRE

    Mitja, Danielle; Miranda, L. D. S.; Velasquez, Elena; Lavelle, Patrick

    2008-01-01

    Along the Amazonian pioneer front in the Brazilian state of Pari, smallholder farmers manually clear primary rain forest every year to grow rice prior to sowing pastures that they will use for 5-20 years. Species richness and floristic composition of the weedy species were studied in 20 plots along a farming succession, from rice fields, to 1-year-old, 4-8-year-old and over 10-year-old pastures planted to Brachiaria brizantha. In the early phases of the farming cycle reduction in the average ...

  17. Comparative chromosome banding of two South-American species of rice rats of the genus Oligoryzomys (Rodentia, Sigmodontinae).

    Science.gov (United States)

    Aniskin, V M; Volobouev, V T

    1999-01-01

    Comparative analysis of G- and C-banding patterns in two species of pygmy rice rats, namely Oligoryzomys microtis from Peru (Ucayali and Loreto departments) and O. flavescens from Bolivia (Tarija department) established that the diploid number of the former species is 64 (NFa = 66), whereas, in the latter, it varies between 64 and 66 (NFa = 66-68) due to the presence of 0-2 heterochromatic supernumerary or B chromosomes. The G-banding pattern of the euchromatic part of their karyotypes is similar in spite of differences in morphology of the largest and smallest autosomal pairs caused by a centromeric shift and the presence of heterochromatic arms, respectively. In addition, the total quantity of C-heterochromatin is smaller in the karyotype of O. microtis than in that of O. flavescens, resulting in differences in the number and size of chromosome pairs (including sex chromosomes) bearing C-blocks. It follows from present and previous data that these karyotypic features are stable in each of these species and thus may be used as species-specific markers.

  18. Genome-wide SNP development and validation for allotetraploid Gossypium

    Science.gov (United States)

    Efforts toward development of cotton SNPs have been few and mostly small-scale. Novel cotton fiber ESTs were developed from normalized non-clonal cDNA libraries of Gossypium species that were sequenced using complementary 454 and Illumina technologies. A hybrid de novo assembly of G. hirsutum cv. ...

  19. Sites of infection by pythium species in rice seedlings and effects of plant age and water depth on disease development.

    Science.gov (United States)

    Chun, S C; Schneider, R W

    1998-12-01

    ABSTRACT Seedling disease, caused primarily by several species of Pythium, is one of the major constraints to water-seeded rice production in Louisiana. The disease, also known as water-mold disease, seed rot, and seedling damping-off, causes stand reductions and growth abnormalities. In severe cases, fields must be replanted, which may result in delayed harvests and reduced yields. To develop more effective disease management tactics including biological control, this study was conducted primarily to determine sites of infection in seeds and seedlings; effect of plant age on susceptibility to P. arrhenomanes, P. myriotylum, and P. dissotocum; and minimum exposure times required for infection and seedling death. In addition, the effect of water depth on seedling disease was investigated. Infection rates of seed embryos were significantly higher than those of endosperms for all three Pythium spp. The development of roots from dry-seeded seedlings was significantly reduced by P. arrhenomanes and P. myriotylum at 5 days after planting compared with that of roots from noninoculated controls. Susceptibility of rice to all three species was sharply reduced within 2 to 6 days after planting, and seedlings were completely resistant at 8 days after planting. There was a steep reduction in emergence through the flood water, relative to the noninoculated control, following 2 to 3 days of exposure to inoculum of P. arrhenomanes and P. myriotylum. In contrast, P. dissotocum was much less virulent and required longer exposure times to cause irreversible seedling damage. Disease incidence was higher when seeds were planted into deeper water, implying that seedlings become resistant after they emerge through the flood water. These results suggest that disease control tactics including flood water management need to be employed for a very short period of time after planting. Also, given that the embryo is the primary site of infection and it is susceptible for only a few days, the

  20. A Record of Small-Clawed Otters (Aonyx cinereus Foraging on an Invasive Pest Species, Golden Apple Snails (Pomacea canaliculata in a West Sumatra Rice Field

    Directory of Open Access Journals (Sweden)

    Jabang

    2011-01-01

    Full Text Available A small-clawed otter (Aonyx cinereus survey in West Sumatran rice fields was conducted from April to September 2010. During this survey, golden apple snail (Pomacea canaliculata shell remains were found on a rice field bank as suspected prey remains of small-clawed otters. This suspicion was later proved by the occurrence of snail material (pieces of operculum and shell in otter spraints. This is the first evidence of small-clawed otters foraging on this invasive pest species. Characteristics of the shell remains and spraints are described.

  1. HYR1-mediated detoxification of reactive oxygen species is required for full virulence in the rice blast fungus.

    Directory of Open Access Journals (Sweden)

    Kun Huang

    2011-04-01

    Full Text Available During plant-pathogen interactions, the plant may mount several types of defense responses to either block the pathogen completely or ameliorate the amount of disease. Such responses include release of reactive oxygen species (ROS to attack the pathogen, as well as formation of cell wall appositions (CWAs to physically block pathogen penetration. A successful pathogen will likely have its own ROS detoxification mechanisms to cope with this inhospitable environment. Here, we report one such candidate mechanism in the rice blast fungus, Magnaporthe oryzae, governed by a gene we refer to as MoHYR1. This gene (MGG_07460 encodes a glutathione peroxidase (GSHPx domain, and its homologue in yeast was reported to specifically detoxify phospholipid peroxides. To characterize this gene in M. oryzae, we generated a deletion mutantΔhyr1 which showed growth inhibition with increased amounts of hydrogen peroxide (H₂O₂. Moreover, we observed that the fungal mutants had a decreased ability to tolerate ROS generated by a susceptible plant, including ROS found associated with CWAs. Ultimately, this resulted in significantly smaller lesion sizes on both barley and rice. In order to determine how this gene interacts with other (ROS scavenging-related genes in M. oryzae, we compared expression levels of ten genes in mutant versus wild type with and without H₂O₂. Our results indicated that the HYR1 gene was important for allowing the fungus to tolerate H₂O₂ in vitro and in planta and that this ability was directly related to fungal virulence.

  2. Comparative metabolomic analysis reveals a reactive oxygen species-dominated dynamic model underlying chilling environment adaptation and tolerance in rice.

    Science.gov (United States)

    Zhang, Jingyu; Luo, Wei; Zhao, Yuan; Xu, Yunyuan; Song, Shuhui; Chong, Kang

    2016-09-01

    Cold, a major environmental stress for plants, has been studied intensively for decades. Its response system has been revealed, especially at the transcriptional level. The mechanisms underlying recovery growth and environmental adaptation, however, remain unknown. Taking advantage of a naturally existing system, two subspecies of Asian cultivated rice (Oryza sativa) with significant divergence in chilling tolerance, we analyzed representative japonica and indica varieties, Nipponbare and 93-11, using comparative metabolomic analysis at six time points covering chilling treatment and recovery. In total, 223 known metabolites were detected. During chilling treatment, significant biochemical changes were centered on antioxidation. During recovery, a wide-ranging chilling response was observed. Large-scale amino acid accumulation occurred, consistent with the appearance of chilling injury. At the mid-treatment stage, the accumulation of antioxidation-related compounds appeared earlier in Nipponbare than in 93-11, consistent with the higher reactive oxygen species (ROS) levels in japonica vs indica varieties. A significant contribution of ROS-mediated gene regulation, rather than the C-repeat binding factor/dehydration-responsive-element binding factor (CBF/DREB) regulon, to the more vigorous transcriptional stress response in Nipponbare was revealed by RNA-seq. Accordingly, during recovery, the induction of stress-tolerant-related metabolites was more active in the chilling-tolerant variety Nipponbare. Senescence-related compounds accumulated only in the chilling-sensitive variety 93-11. Our study uncovers the dynamic metabolic models underlying chilling response and recovery, and reveals a ROS-dominated rice adaptation mechanism to low-temperature environments. PMID:27198693

  3. Evolutionary analysis of allotetraploid hybrids of red crucian carp × common carp,based on ISSR,AFLP molecular markers and cloning of cyclins genes

    Institute of Scientific and Technical Information of China (English)

    LIU LiangGuo; YAN JinPeng; LIU ShaoJun; LIU Dong; YOU CuiPing; ZHONG Huan; TAO Min; LIU Yun

    2009-01-01

    The allotetraploid hybrids of red crucian carp × common carp are the first reported artificially cultured polyploid fish with bisexual fertility and stable inheritance in vertebrate.Using ISSR and AFLP markers and the cyclins genes,the genomes and cyclin gene sequence changes were analyzed between the allotetraploid hybrids and their parents.The results indicated that the allotetraploids inherited many genetic characteristics from their parents and the genetic characteristics were stable after 15 generations.However,the allotetraploids had a closer genetic relationship with their original female parents and represented a bias toward the maternal progenitor.DNA fingerprinting analysis showed that the allotetraploids had undergone sequences deletion from their original parents and that the deleted sequences were mostly from the male parent's genome.Some non-parental bands were found in the allotetraploid hybrids.Sequences analysis of the cyclin A1 and B1 genes showed nonsynonymous substitutions of single nucleotides in codons that were different from their original parents,leading to non-parental amino acid loci.We speculate that the non-additivity in the allotetraploids,compared with their progenitors,could be an adjustment to the genomic shock from heterozygosity and polyploidy, allowing maintenance of genetic stability.

  4. Multiple translocation of the AVR-Pita effector gene among chromosomes of the rice blast fungus Magnaporthe oryzae and related species.

    Directory of Open Access Journals (Sweden)

    Izumi Chuma

    2011-07-01

    Full Text Available Magnaporthe oryzae is the causal agent of rice blast disease, a devastating problem worldwide. This fungus has caused breakdown of resistance conferred by newly developed commercial cultivars. To address how the rice blast fungus adapts itself to new resistance genes so quickly, we examined chromosomal locations of AVR-Pita, a subtelomeric gene family corresponding to the Pita resistance gene, in various isolates of M. oryzae (including wheat and millet pathogens and its related species. We found that AVR-Pita (AVR-Pita1 and AVR-Pita2 is highly variable in its genome location, occurring in chromosomes 1, 3, 4, 5, 6, 7, and supernumerary chromosomes, particularly in rice-infecting isolates. When expressed in M. oryzae, most of the AVR-Pita homologs could elicit Pita-mediated resistance, even those from non-rice isolates. AVR-Pita was flanked by a retrotransposon, which presumably contributed to its multiple translocation across the genome. On the other hand, family member AVR-Pita3, which lacks avirulence activity, was stably located on chromosome 7 in a vast majority of isolates. These results suggest that the diversification in genome location of AVR-Pita in the rice isolates is a consequence of recognition by Pita in rice. We propose a model that the multiple translocation of AVR-Pita may be associated with its frequent loss and recovery mediated by its transfer among individuals in asexual populations. This model implies that the high mobility of AVR-Pita is a key mechanism accounting for the rapid adaptation toward Pita. Dynamic adaptation of some fungal plant pathogens may be achieved by deletion and recovery of avirulence genes using a population as a unit of adaptation.

  5. Simultaneous determination of arsenic and mercury species in rice by ion-pairing reversed phase chromatography with inductively coupled plasma mass spectrometry.

    Science.gov (United States)

    Fang, Yong; Pan, Yushi; Li, Peng; Xue, Mei; Pei, Fei; Yang, Wenjian; Ma, Ning; Hu, Qiuhui

    2016-12-15

    An analytical method using reversed phase chromatography-inductively coupled plasma mass spectrometry for arsenic and mercury speciation analysis was described. The effect of ion-pairing reagent on simultaneous separation of four arsenic (arsenite, arsenate, monomethlyarsonate and dimethylarsinate) and three mercury species (inorganic mercury (Hg(II)), methylmecury and ethylmercury) was investigated. Parameters including concentrations and pH of the mobile phase were optimized. The separation and re-equilibration time was attained within 20min. Meanwhile, a sequential extraction method for arsenic and mercury in rice was tested. Subsequently, 1% HNO3 microwave-assisted extraction was chosen. Calibration curves based on peak area measurements were linear with correlation coefficient greater than 0.9958 for each species in the range studied. The detection limits of the species were in the range of 0.84-2.41μg/L for arsenic and 0.01-0.04μg/L for mercury, respectively. The proposed method was then successfully applied for the simultaneous determination of arsenic and mercury species in rice flour standard material and two kinds of rice from local markets. PMID:27451225

  6. Patterns of sequence divergence and evolution of the S orthologous regions between Asian and African cultivated rice species.

    Science.gov (United States)

    Guyot, Romain; Garavito, Andrea; Gavory, Frédérick; Samain, Sylvie; Tohme, Joe; Ghesquière, Alain; Lorieux, Mathias

    2011-01-01

    A strong postzygotic reproductive barrier separates the recently diverged Asian and African cultivated rice species, Oryza sativa and O. glaberrima. Recently a model of genetic incompatibilities between three adjacent loci: S(1)A, S(1) and S(1)B (called together the S(1) regions) interacting epistatically, was postulated to cause the allelic elimination of female gametes in interspecific hybrids. Two candidate factors for the S(1) locus (including a putative F-box gene) were proposed, but candidates for S(1)A and S(1)B remained undetermined. Here, to better understand the basis of the evolution of regions involved in reproductive isolation, we studied the genic and structural changes accumulated in the S(1) regions between orthologous sequences. First, we established an 813 kb genomic sequence in O. glaberrima, covering completely the S(1)A, S(1) and the majority of the S(1)B regions, and compared it with the orthologous regions of O. sativa. An overall strong structural conservation was observed, with the exception of three isolated regions of disturbed collinearity: (1) a local invasion of transposable elements around a putative F-box gene within S(1), (2) the multiple duplication and subsequent divergence of the same F-box gene within S(1)A, (3) an interspecific chromosomal inversion in S(1)B, which restricts recombination in our O. sativa×O. glaberrima crosses. Beside these few structural variations, a uniform conservative pattern of coding sequence divergence was found all along the S(1) regions. Hence, the S(1) regions have undergone no drastic variation in their recent divergence and evolution between O. sativa and O. glaberrima, suggesting that a small accumulation of genic changes, following a Bateson-Dobzhansky-Muller (BDM) model, might be involved in the establishment of the sterility barrier. In this context, genetic incompatibilities involving the duplicated F-box genes as putative candidates, and a possible strengthening step involving the

  7. Patterns of Sequence Divergence and Evolution of the S1 Orthologous Regions between Asian and African Cultivated Rice Species

    Science.gov (United States)

    Gavory, Frédérick; Samain, Sylvie; Tohme, Joe; Ghesquière, Alain; Lorieux, Mathias

    2011-01-01

    A strong postzygotic reproductive barrier separates the recently diverged Asian and African cultivated rice species, Oryza sativa and O. glaberrima. Recently a model of genetic incompatibilities between three adjacent loci: S1A, S1 and S1B (called together the S1 regions) interacting epistatically, was postulated to cause the allelic elimination of female gametes in interspecific hybrids. Two candidate factors for the S1 locus (including a putative F-box gene) were proposed, but candidates for S1A and S1B remained undetermined. Here, to better understand the basis of the evolution of regions involved in reproductive isolation, we studied the genic and structural changes accumulated in the S1 regions between orthologous sequences. First, we established an 813 kb genomic sequence in O. glaberrima, covering completely the S1A, S1 and the majority of the S1B regions, and compared it with the orthologous regions of O. sativa. An overall strong structural conservation was observed, with the exception of three isolated regions of disturbed collinearity: (1) a local invasion of transposable elements around a putative F-box gene within S1, (2) the multiple duplication and subsequent divergence of the same F-box gene within S1A, (3) an interspecific chromosomal inversion in S1B, which restricts recombination in our O. sativa×O. glaberrima crosses. Beside these few structural variations, a uniform conservative pattern of coding sequence divergence was found all along the S1 regions. Hence, the S1 regions have undergone no drastic variation in their recent divergence and evolution between O. sativa and O. glaberrima, suggesting that a small accumulation of genic changes, following a Bateson-Dobzhansky-Muller (BDM) model, might be involved in the establishment of the sterility barrier. In this context, genetic incompatibilities involving the duplicated F-box genes as putative candidates, and a possible strengthening step involving the chromosomal inversion might participate to

  8. Patterns of sequence divergence and evolution of the S orthologous regions between Asian and African cultivated rice species.

    Directory of Open Access Journals (Sweden)

    Romain Guyot

    Full Text Available A strong postzygotic reproductive barrier separates the recently diverged Asian and African cultivated rice species, Oryza sativa and O. glaberrima. Recently a model of genetic incompatibilities between three adjacent loci: S(1A, S(1 and S(1B (called together the S(1 regions interacting epistatically, was postulated to cause the allelic elimination of female gametes in interspecific hybrids. Two candidate factors for the S(1 locus (including a putative F-box gene were proposed, but candidates for S(1A and S(1B remained undetermined. Here, to better understand the basis of the evolution of regions involved in reproductive isolation, we studied the genic and structural changes accumulated in the S(1 regions between orthologous sequences. First, we established an 813 kb genomic sequence in O. glaberrima, covering completely the S(1A, S(1 and the majority of the S(1B regions, and compared it with the orthologous regions of O. sativa. An overall strong structural conservation was observed, with the exception of three isolated regions of disturbed collinearity: (1 a local invasion of transposable elements around a putative F-box gene within S(1, (2 the multiple duplication and subsequent divergence of the same F-box gene within S(1A, (3 an interspecific chromosomal inversion in S(1B, which restricts recombination in our O. sativa×O. glaberrima crosses. Beside these few structural variations, a uniform conservative pattern of coding sequence divergence was found all along the S(1 regions. Hence, the S(1 regions have undergone no drastic variation in their recent divergence and evolution between O. sativa and O. glaberrima, suggesting that a small accumulation of genic changes, following a Bateson-Dobzhansky-Muller (BDM model, might be involved in the establishment of the sterility barrier. In this context, genetic incompatibilities involving the duplicated F-box genes as putative candidates, and a possible strengthening step involving the chromosomal

  9. A six-gene phylogeny reveals the evolution of mode of infection in the rice blast fungus and allied species.

    Science.gov (United States)

    Zhang, Ning; Zhao, Shuang; Shen, Qirong

    2011-01-01

    The family Magnaporthaceae contains devastating fungal cereal and grass pathogens, such as Magnaporthe oryzae (rice blast fungus, formerly known as M. grisea), M. poae (summer patch pathogen of turf grasses) and Gaeumannomyces graminis (take-all fungus of various cereals and grasses), which are popular model organisms in fungal biology and host-pathogen interaction studies. Despite their ecological and economic importance, the phylogenetic relationships among the constituent species remain ambiguous due to the lack of convincing morphological characters and paucity of molecular data for the majority of the non-model species in the family. In this study our multilocus phylogeny suggests that both Magnaporthe and Gaeumannomyces are polyphyletic genera. The phylogeny also provides insights into fungal biology and pathogenesis. Magnaporthe oryzae formed a basal clade, while M. poae and M. rhizophila formed another well supported clade with G. incrustans and G. graminis. The basal species infect both root and aerial parts of the plant host, while the aerial infection capacity seems to be lost in the taxa of the latter clade. The phylogeny is corroborated by evolution of the anamorphs and a cAMP-dependent protein kinase (CPKA) gene. Magnaporthe oryzae produces Pyricularia, while taxa in the latter clade all produce Phialophora-like anamorphs. CPKA is present in animals and many fungal lineages with various functions. In M. oryzae CPKA is essential for the formation of functional appressoria for leaf penetration. In root-infecting G. graminis var. tritici and M. poae however only non-functional CPKA homologous pseudogenes were found in their genomes. The study indicates that anamorphic and ecological features are more informative than the teleomorphic characters in defining monophyletic groups among these taxa. PMID:21642347

  10. The new species Enterobacter oryziphilus sp nov and Enterobacter oryzendophyticus sp nov are key inhabitants of the endosphere of rice

    NARCIS (Netherlands)

    Hardoim, Pablo Rodrigo; Nazir, Rashid; Sessitsch, Angela; Elhottova, Dana; Korenblum, Elisa; van Overbeek, Leonard Simon; van Elsas, Jan Dirk

    2013-01-01

    Background: Six independent Gram-negative, facultatively anaerobic, non-spore-forming, nitrogen-fixing rod-shaped isolates were obtained from the root endosphere of rice grown at the International Rice Research Institute (IRRI) and investigated in a polyphasic taxonomic study. Results: The strains p

  11. Mixed-Species Biofilm Formation by Lactic Acid Bacteria and Rice Wine Yeasts

    OpenAIRE

    Kawarai, Taketo; Furukawa, Soichi; OGIHARA, Hirokazu; Yamasaki, Makari

    2008-01-01

    We found that species combinations such as Lactobacillus casei subsp. rhamnosus IFO3831 and Saccharomyces cerevisiae Kyokai-10 can form a mixed-species biofilm in coculture. Moreover, the Kyokai-10 yeast strain can form a biofilm in monoculture in the presence of conditioned medium (CM) from L. casei IFO3831. The active substance(s) in bacterial CM is heat sensitive and has a molecular mass of between 3 and 5 kDa. In biofilms from cocultures or CM monocultures, yeast cells had a distinct morp...

  12. Genetic mapping of wild introgressions into cultivated peanut: a way toward enlarging the genetic basis of a recent allotetraploid

    Directory of Open Access Journals (Sweden)

    Glaszmann Jean-Christophe

    2009-08-01

    Full Text Available Abstract Background Peanut (Arachis hypogaea L. is widely used as a food and cash crop around the world. It is considered to be an allotetraploid (2n = 4x = 40 originated from a single hybridization event between two wild diploids. The most probable hypothesis gave A. duranensis as the wild donor of the A genome and A. ipaënsis as the wild donor of the B genome. A low level of molecular polymorphism is found in cultivated germplasm and up to date few genetic linkage maps have been published. The utilization of wild germplasm in breeding programs has received little attention due to the reproductive barriers between wild and cultivated species and to the technical difficulties encountered in making large number of crosses. We report here the development of a SSR based genetic map and the analysis of genome-wide segment introgressions into the background of a cultivated variety through the utilization of a synthetic amphidiploid between A. duranensis and A. ipaënsis. Results Two hundred ninety eight (298 loci were mapped in 21 linkage groups (LGs, spanning a total map distance of 1843.7 cM with an average distance of 6.1 cM between adjacent markers. The level of polymorphism observed between the parent of the amphidiploid and the cultivated variety is consistent with A. duranensis and A. ipaënsis being the most probable donor of the A and B genomes respectively. The synteny analysis between the A and B genomes revealed an overall good collinearity of the homeologous LGs. The comparison with the diploid and tetraploid maps shed new light on the evolutionary forces that contributed to the divergence of the A and B genome species and raised the question of the classification of the B genome species. Structural modifications such as chromosomal segment inversions and a major translocation event prior to the tetraploidisation of the cultivated species were revealed. Marker assisted selection of BC1F1 and then BC2F1 lines carrying the desirable donor

  13. Diverged Copies of the Seed Regulatory Opaque-2 Gene by a Segmental Duplication in the Progenitor Genome of Rice,Sorghum,and Maize

    Institute of Scientific and Technical Information of China (English)

    Jian-Hong Xu; Joachim Messing

    2008-01-01

    Comparative analyses of the sequence of entire genomes have shown that gene duplications,chromosomal segmental duplications.or even whole genome duplications(WGD)have played prominent roles in the evolution of many eukaryotic species.Here,we used the ancient duplication of a well known transcription factor in maize,encoded by the Opaque-2(02)IOCUS,to examine the generaI features of divergences of chromosomaI segmentaI duplications in a lineagespecific manner.We took advantage of contiguous chromosomal sequence information in rice(Oryza sativa,Nipponbare).sorghum(Sorghum bicoloc Btx623),and maize(Zea mays,B73)that were aligned by conserved gene order(synteny).This analysis showed that the maize O2 locus is contained within a 1.25 million base-pair(Mb)segment on chromosome 7.which was duplicated≈56 million years ago(mya)before the split of rice and maize 50 mya.The duplicated region on chromosome 1 is only half the size and contains the maize OHP gene.which does not restore the o2 mutation although it encodes a protein with the same DNA and protein binding properties in endosperm.The segmental duplication iS not only found in rice,but also in sorghum,which split from maize 11.9 mya.A detailed analysis of the duplicated regions provided examples for complex rearrangements including deletions.duplications,conversions,inversions,and translocations.Furthermore,the rice and sorghum genomes appeared to be more stable than the maize genome,probably because maize underwent allotetraploidization and then diploidization.

  14. Mechanisms of production and emission of methane in rice fields. Impact of fertilization and cultivated species; Mechanismen der Produktion und Emission von Methan in Reisfeldern. Abhaengigkeit von Feldduengung und angebauter Varietaet

    Energy Technology Data Exchange (ETDEWEB)

    Butterbach-Bahl, K.

    1993-12-31

    Methane emissions from rice fields are a significant source (approx. 20%) of atmospheric methane. Laboratory tests and field tests have shown that throughout the entire vegetation period, more than 80% of the total methane emissions from rice fields in Italy were released by the aerating tissue of the rice plant. The amount of methane emissions has been found to depend on the rice species cultivated, and on fertilization. Additional studies into the gas transport capability of the aerenchyma of the rice plants show a clear correlation between highest diffusion resistance of the aerenchyma of a given rice plant, and lowest methane emissions measured in the rice species. This is a result that opens up new possibilities of reducing methane emissions from rice fields. (orig.) [Deutsch] Methan-Emissionen aus Reisfeldern sind eine signifikante Quelle (ca. 20%) fuer atmosphaerisches Methan. In Labor- und Freilandexperimenten konnte nachgewiesen werden, dass waehrend der Vegetationsperiode ueber 80% der Gesamt-Methan-Emissionen aus italienischen Reisfeldern ueber das Aerenchymsystem der Reispflanze erfolgt. Die Hoehe der Methan-Emission war von der angebauten Reisvarietaet und der Feldduengung abhaengig. Ergaenzende Untersuchungen zur Gaswegigkeit des Aerenchymsystems der Reispflanze zeigten, dass die Reisvarietaet mit den groessten Diffusionswiderstaenden des Aerenchymsystems auch die niedrigsten Methan-Emissionsraten aufwies. Dieses Ergebnis eroeffnet neue Moeglichkeiten zur Reduktion der Methan-Emissionen aus Reisfeldern. (orig.)

  15. Homeolog loss and expression changes in natural populations of the recently and repeatedly formed allotetraploid Tragopogon mirus (Asteraceae

    Directory of Open Access Journals (Sweden)

    Soltis Pamela S

    2010-02-01

    Full Text Available Abstract Background Although polyploidy has long been recognized as a major force in the evolution of plants, most of what we know about the genetic consequences of polyploidy comes from the study of crops and model systems. Furthermore, although many polyploid species have formed repeatedly, patterns of genome evolution and gene expression are largely unknown for natural polyploid populations of independent origin. We therefore examined patterns of loss and expression in duplicate gene pairs (homeologs in multiple individuals from seven natural populations of independent origin of Tragopogon mirus (Asteraceae, an allopolyploid that formed repeatedly within the last 80 years from the diploids T. dubius and T. porrifolius. Results Using cDNA-AFLPs, we found differential band patterns that could be attributable to gene silencing, novel expression, and/or maternal/paternal effects between T. mirus and its diploid parents. Subsequent cleaved amplified polymorphic sequence (CAPS analyses of genomic DNA and cDNA revealed that 20 of the 30 genes identified through cDNA-AFLP analysis showed additivity, whereas nine of the 30 exhibited the loss of one parental homeolog in at least one individual. Homeolog loss (versus loss of a restriction site was confirmed via sequencing. The remaining gene (ADENINE-DNA GLYCOSYLASE showed ambiguous patterns in T. mirus because of polymorphism in the diploid parent T. dubius. Most (63.6% of the homeolog loss events were of the T. dubius parental copy. Two genes, NUCLEAR RIBOSOMAL DNA and GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE, showed differential expression of the parental homeologs, with the T. dubius copy silenced in some individuals of T. mirus. Conclusions Genomic and cDNA CAPS analyses indicated that plants representing multiple populations of this young natural allopolyploid have experienced frequent and preferential elimination of homeologous loci. Comparable analyses of synthetic F1 hybrids showed only

  16. A STRESS-RESPONSIVE NAC1-regulated protein phosphatase gene rice protein phosphatase18 modulates drought and oxidative stress tolerance through abscisic acid-independent reactive oxygen species scavenging in rice.

    Science.gov (United States)

    You, Jun; Zong, Wei; Hu, Honghong; Li, Xianghua; Xiao, Jinghua; Xiong, Lizhong

    2014-12-01

    Plants respond to abiotic stresses through a complexity of signaling pathways, and the dephosphorylation mediated by protein phosphatase (PP) is an important event in this process. We identified a rice (Oryza sativa) PP2C gene, OsPP18, as a STRESS-RESPONSIVE NAC1 (SNAC1)-regulated downstream gene. The ospp18 mutant was more sensitive than wild-type plants to drought stress at both the seedling and panicle development stages. Rice plants with OsPP18 suppressed through artificial microRNA were also hypersensitive to drought stress. Microarray analysis of the mutant revealed that genes encoding reactive oxygen species (ROS) scavenging enzymes were down-regulated in the ospp18 mutant, and the mutant exhibited reduced activities of ROS scavenging enzymes and increased sensitivity to oxidative stresses. Overexpression of OsPP18 in rice led to enhanced osmotic and oxidative stress tolerance. The expression of OsPP18 was induced by drought stress but not induced by abscisic acid (ABA). Although OsPP18 is a typical PP2C with enzymatic activity, it did not interact with SNF1-RELATED PROTEIN KINASE2 protein kinases, which function in ABA signaling. Meanwhile, the expression of ABA-responsive genes was not affected in the ospp18 mutant, and the ABA sensitivities of the ospp18 mutant and OsPP18-overexpressing plants were also not altered. Together, these findings suggest that OsPP18 is a unique PP2C gene that is regulated by SNAC1 and confers drought and oxidative stress tolerance by regulating ROS homeostasis through ABA-independent pathways.

  17. Photon emissions from rice cells elicited by N-acetylchitooligosaccharide are generated through phospholipid signaling in close association with the production of reactive oxygen species.

    Science.gov (United States)

    Kageyama, C; Kato, K; Iyozumi, H; Inagaki, H; Yamaguchi, A; Furuse, K; Baba, K

    2006-01-01

    Biophotons are ultraweak light emissions from biochemical reactions in a living body. They increase in suspension-cultured rice (Oryza sativa L.) cells when elicited by N-acetylchitooligosaccharide. Biochemical analyses were undertaken to investigate the relationship between disease response and biophotons in order to clarify the emission mechanism of biophotons caused by this elicitor. Photon emissions induced by N-acetylchitohexaose were suppressed when cells were pretreated with the reactive oxygen species (ROS)-generating inhibitors: pyrocatechol-3,5-disulfonic acid disodium salt (Tiron); diphenylene iodonium (DPI); and salicylhydroxamic acid (SHAM). Conversely, exogenously applied ROS (superoxide and hydrogen peroxide) were able to induce photon emissions. The effects of protein phosphorylation (K-252a) and the Ca(2+) signaling inhibitors, ethylene glycol-bis(beta-aminoethylether)-N,N,N',N'-tetraacetic acid (EGTA) and LaCl(3), caused photon emissions to decrease. It is clear that photon emissions from rice cells elicited by N-acetylchitohexaose are closely associated with the ROS-generating system, and are regulated by Ca(2+) signaling and protein phosphorylation. Exogenously applied phosphatidic acid (PA), the second messenger in the signal transduction of disease response, raised photon emissions in rice cells. Comparisons of photon emissions from PA and N-acetylchitohexaose regarding time courses, spectral compositions, and the inhibition ratios of several inhibitors, as well as a loss- and gain-of-function assay using the protein synthesis inhibitor cycloheximide (CHX) and PA, showed the possibility that photon emissions from rice cells elicited by N-acetylchitooligosaccharide were generated through PA, an intermediate of phospholipid signaling.

  18. Similar patterns of rDNA evolution in synthetic and recently formed natural populations of Tragopogon (Asteraceae allotetraploids

    Directory of Open Access Journals (Sweden)

    Soltis Pamela S

    2010-09-01

    Full Text Available Abstract Background Tragopogon mirus and T. miscellus are allotetraploids (2n = 24 that formed repeatedly during the past 80 years in eastern Washington and adjacent Idaho (USA following the introduction of the diploids T. dubius, T. porrifolius, and T. pratensis (2n = 12 from Europe. In most natural populations of T. mirus and T. miscellus, there are far fewer 35S rRNA genes (rDNA of T. dubius than there are of the other diploid parent (T. porrifolius or T. pratensis. We studied the inheritance of parental rDNA loci in allotetraploids resynthesized from diploid accessions. We investigate the dynamics and directionality of these rDNA losses, as well as the contribution of gene copy number variation in the parental diploids to rDNA variation in the derived tetraploids. Results Using Southern blot hybridization and fluorescent in situ hybridization (FISH, we analyzed copy numbers and distribution of these highly reiterated genes in seven lines of synthetic T. mirus (110 individuals and four lines of synthetic T. miscellus (71 individuals. Variation among diploid parents accounted for most of the observed gene imbalances detected in F1 hybrids but cannot explain frequent deviations from repeat additivity seen in the allotetraploid lines. Polyploid lineages involving the same diploid parents differed in rDNA genotype, indicating that conditions immediately following genome doubling are crucial for rDNA changes. About 19% of the resynthesized allotetraploid individuals had equal rDNA contributions from the diploid parents, 74% were skewed towards either T. porrifolius or T. pratensis-type units, and only 7% had more rDNA copies of T. dubius-origin compared to the other two parents. Similar genotype frequencies were observed among natural populations. Despite directional reduction of units, the additivity of 35S rDNA locus number is maintained in 82% of the synthetic lines and in all natural allotetraploids. Conclusions Uniparental reductions of

  19. Genome-Wide Comparative Analysis of the Phospholipase D Gene Families among Allotetraploid Cotton and Its Diploid Progenitors.

    Directory of Open Access Journals (Sweden)

    Kai Tang

    Full Text Available In this study, 40 phospholipase D (PLD genes were identified from allotetraploid cotton Gossypium hirsutum, and 20 PLD genes were examined in diploid cotton Gossypium raimondii. Combining with 19 previously identified Gossypium arboreum PLD genes, a comparative analysis was performed among the PLD gene families among allotetraploid and two diploid cottons. Based on the orthologous relationships, we found that almost each G. hirsutum PLD had a corresponding homolog in the G. arboreum and G. raimondii genomes, except for GhPLDβ3A, whose homolog GaPLDβ3 may have been lost during the evolution of G. arboreum after the interspecific hybridization. Phylogenetic analysis showed that all of the cotton PLDs were unevenly classified into six numbered subgroups: α, β/γ, δ, ε, ζ and φ. An N-terminal C2 domain was found in the α, β/γ, δ and ε subgroups, while phox homology (PX and pleckstrin homology (PH domains were identified in the ζ subgroup. The subgroup φ possessed a single peptide instead of a functional domain. In each phylogenetic subgroup, the PLDs showed high conservation in gene structure and amino acid sequences in functional domains. The expansion of GhPLD and GrPLD gene families were mainly attributed to segmental duplication and partly attributed to tandem duplication. Furthermore, purifying selection played a critical role in the evolution of PLD genes in cotton. Quantitative RT-PCR documented that allotetraploid cotton PLD genes were broadly expressed and each had a unique spatial and developmental expression pattern, indicating their functional diversification in cotton growth and development. Further analysis of cis-regulatory elements elucidated transcriptional regulations and potential functions. Our comparative analysis provided valuable information for understanding the putative functions of the PLD genes in cotton fiber.

  20. The Predatory Function of Three Spiders to Two Insect Pests in Rice Within a Multi-species Co-existence System

    Institute of Scientific and Technical Information of China (English)

    LI Jian-quan; SHEN Zuo-rui; ZHAO Zhi-mo

    2002-01-01

    The prey-seeking behavior of three spiders (X1-Pirata subpiraticus, X2-Clubiona japonicola and X3-Tetragnatha japonica ) for brown plant hopper (X4-Nilaparvata lugens ) and rice spittle bug (Xs-Callitettix versicolor) was investigated, as well as how interference between and within species occurred, by using a quadratic regression rotational composite design. Six predation models derived from the analysis of interactions among and within predators and preys were developed. The total predatory capacity of spiders on rice insect pests after coexistence for one day can be expressed as follows: Y3 = 32. 795 + 2.25X1 + 1.083X2 + 0.5X3 + 10.167X4 + 3.167X5 - 1.67X12 - 2.42X22 - 3. 295X32 - 0. 045X42 + 0. 455X52 - 3. 125X1X2 + 0.375X1X3-0.625X1X4 - 0.375X1X5 + 0.375X2X3 - 0.875X2X4 + 0.125X2X5 + 0.375X3X4 - 0.375X3X5 + 0.125X4X5. The principal efficiency analysis using this model indicated that increases in insect pest density significantly increased predation by predators; this was much greater than the effect of any single predator. X4 had a greater effect than X5; however, X4 and X5 demonstrated little interspecific interference and even promoted each other and increased predation rates as the densities of the two pests increased. Among the three predators, an increase in the density of X1 had the greatest effect on the increase in predation, X3 had the second, X2 the third greatest effect. As predator density increased inter- and intra-species interference occurred, which were largely related to the size, activity, niche breadth, niche overlap and searching efficiency of the predators. X2 produced the greatest interference between different individuals and between any other predator species. X3 had the second greatest, which reduced predation levels at high predator densities. Because of these factors, the highest predation rate was obtained at a prey density of 120 per 4 rice-hills. The optimal proportion of the three predators in the multi-predator prey system was X

  1. Conservation and utilization of rice genetic resources in China

    Institute of Scientific and Technical Information of China (English)

    2000-01-01

    @@Rice genetic resources presents variably in China. There are land races and wild species. cultivated lowland rice and upland rice, indica (Hsien) and japonica (Keng) riee. early, middle, and late rice as well as glutinous and non-glutinous rice. Up to February 2000, a total of 76, 646 rice accessions were catalogued,and 67. 444 base accessions were stored in the National Crop Gene Bank in the Institute of Crop Genetic Resources (ICGR) of the Chinese Academy of Agricultural Sciences, Beijing, China (Table 1). About 35,000 rice duplicates were stored in China National Rice Research Institute(CNRRI), Hangzhou, Zhejiang Province. China.

  2. Identification of Quantitative Trait Loci Affecting Hemicellulose Characteristics Based on Cell Wall Composition in a Wild and Cultivated Rice Species

    Institute of Scientific and Technical Information of China (English)

    Si-Ju Zhang; Xue-Qin Song; Bai-Sheng Yu; Bao-Cai Zhang; Chuan-Qing Sun; J. Paul Knox; Yi-Hua Zhou

    2012-01-01

    Cell wall hemicellulosic polysaccharides are structurally complex and diverse.Knowledge about the synthesisof cell wall hemicelluloses and their biological roles is limited.Quantitative trait loci (QTL) mapping is a helpful tool for the dissection of complex phenotypes for gene identification.In this study,we exploited the natural variation in cell wall monosaccharide levels between a common wild rice,Yuanj,and an elite indica cultivar,Teqing,and performed QTL mapping with their introgression lines (ILs).Chemical analyses conducted on the culms of Yuanj and Teqing showed that the major alterations are found in glucose and xylose levels,which are correlated with specific hemicellulosic polymers.Glycosidic linkage examination revealed that,in Yuanj,an increase in glucose content results from a higher level of mixed linkage β-glucan (MLG),whereas a reduction in xylose content reflects a low level of xylan backbone and a varied arabinoxylan (AX) structure.Seventeen QTLs for monosaccharides have been identified through composition analysis of the culm residues of 95 core ILs.Four major QTLs affecting xylose and glucose levels are responsible for 19 and 21% of the phenotypic variance,respectively.This study provides a unique resource for the genetic dissection of rice cell wall formation and remodeling in the vegetative organs.

  3. Small RNA in rice genome

    Institute of Scientific and Technical Information of China (English)

    王凯; 朱小蓬; 钟兰; 陈润生

    2002-01-01

    Rice has many characteristics of a model plant. The recent completion of the draft of the rice genome represents an important advance in our knowledge of plant biology and also has an important contribution to the understanding of general genomic evolution. Besides the rice genome finishing map, the next urgent step for rice researchers is to annotate the genes and noncoding functional sequences. The recent work shows that noncoding RNAs (ncRNAs) play significant roles in biological systems. We have explored all the known small RNAs (a kind of ncRNA) within rice genome and other six species sequences, including Arabidopsis, maize, yeast, worm, mouse and pig. As a result we find 160 out of 552 small RNAs (sRNAs) in database have homologs in 108 rice scaffolds, and almost all of them (99.41%) locate in intron regions of rice by gene predication. 19 sRNAs only appear in rice. More importantly, we find two special U14 sRNAs: one is located in a set of sRNA ZMU14SNR9(s) which only appears in three plants, 86% sequences of them can be compared as the same sequence in rice, Arabidopsis and maize; the other conserved sRNA XLHS7CU14 has a segment which appears in almost all these species from plants to animals. All these results indicate that sRNA do not have evident borderline between plants and animals.

  4. Biomphalaria species distribution and its effect on human Schistosoma mansoni infection in an irrigated area used for rice cultivation in northeast Brazil

    Directory of Open Access Journals (Sweden)

    Delmany Moitinho Barboza

    2012-09-01

    Full Text Available The role of irrigated areas for the spread of schistosomiasis is of worldwide concern. The aim of the present study was to investigate the spatial distribution of the intermediate snail host Biomphalaria in an area highly endemic for schistosomiasis due to Schistosoma mansoni, evaluating the relationship between irrigation and types of natural water sources on one hand, and the influence of place and time of water exposure on the intensity of human infection on the other. A geographical information system (GIS was used to map the distribution of the intermediate snail hosts in Ilha das Flores, Sergipe, Brazil, combined with a clinical/epidemiological survey. We observed a direct correlation between the intensity of human infection with S. mansoni and irrigation projects. Malacological studies to identify snail species and infection rates showed that B. glabrata is the main species responsible for human schistosomiasis in the municipality, but that B. straminea also plays a role. Our results provide evidence for a competitive selection between the two snail species in rice fields with a predominance of B. glabrata in irrigation systems and B. straminea in natural water sources.

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

    Science.gov (United States)

    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 ...

  6. Repellent Activity of Extracts of Wild Rice Species against Panonychus citri and Aphis citricola in Associated with Esterase Isoenzyme in Insests

    Institute of Scientific and Technical Information of China (English)

    WAN Shu-qing; LIU Xiang-fa; FENG Guo-zhong; PAN Da-jian

    2006-01-01

    Six species of wild rice with different ecophenotypes including Oryza grandiglumis (E6-1, E6-3 / 6-4), O. minuta (E13-9,E13-13), O. officinalis (E15-8, E15-13), O. punctata (E16-1, E16-3, E1 6-13), O. granulata (E7-4), and O. latifolia (101392, E9-1, E9-10)were extracted with methnol and the repellent activity of the extracts against the two insects Aphis citricola and Panonychus citri were studied. The extracts of O. officinalis E15-8 showed higher repellent rate to the two insects than those of the other species. The repellent rates of the extracts of E15-8 to P. citriand A. citricola were 83.26% and 87.86% at 5×104 μg/mL in 24 h and 87.95% and 82.43% in 48 h, respectively. The extracts of O. officinalis E15-8 had the effect of inhibition to the esterase of the two insects.

  7. RAPD-based genetic analysis of offsprings from the sexual cross using allotetraploid citrus somatic hybrid as pollen parent

    Institute of Scientific and Technical Information of China (English)

    YI HuaLin; DENG XiuXin

    2007-01-01

    Huazhong Agricultural University, Wuhan 430070, ChinaThirty-one polymorphic decamer primers were selected to genotype 92 progenies from the cross between Yiben No,4, a monoembryonic diploid F1 hybrid of Citrus reticulata Blanco cv Huanongbendizao tangerine and C. ichangensis Swingle, and [Hamlin sweet orange + Rough lemon], an allotetraploid somatic hybrid of Citrus sinensis Osbeck cv. Hamlin and C. jambhiri Lush cv. Rough Lemon. x2(Chi-square) analysis of RAPD markers in the progenies indicated they were randomly transmitted from the four donor parents, without significant difference between the diploids and triploids. However,these progenies were clustered into three major groups using dendrogram constructed by UPGMA,skewed to three parents in certain degrees, 15 (13 triploids and 2 diploids) to Hamlin, 16 (9 and 7) to Yiben No. 4, and 61 (57 and 4) to [Hamlin sweet orange + Rough Lemon] from which genomic contribution was predominant in progenies, respectively.

  8. RAPD-based genetic analysis of offsprings from the sexual cross using allotetraploid citrus somatic hybrid as pollen parent

    Institute of Scientific and Technical Information of China (English)

    2007-01-01

    Thirty-one polymorphic decamer primers were selected to genotype 92 progenies from the cross be- tween Yiben No.4, a monoembryonic diploid F1 hybrid of Citrus reticulata Blanco cv Huanongbendizao tangerine and C. ichangensis Swingle, and [Hamlin sweet orange + Rough lemon], an allotetraploid somatic hybrid of Citrus sinensis Osbeck cv. Hamlin and C. jambhiri Lush cv. Rough Lemon. χ2 (Chi-square) analysis of RAPD markers in the progenies indicated they were randomly transmitted from the four donor parents, without significant difference between the diploids and triploids. However, these progenies were clustered into three major groups using dendrogram constructed by UPGMA, skewed to three parents in certain degrees, 15 (13 triploids and 2 diploids) to Hamlin, 16 (9 and 7) to Yiben No. 4, and 61 (57 and 4) to [Hamlin sweet orange + Rough Lemon] from which genomic contribu- tion was predominant in progenies, respectively.

  9. Genome-Wide Gene Expressions Respond Differently to A-subgenome Origins in Brassica napus Synthetic Hybrids and Natural Allotetraploid

    Science.gov (United States)

    Zhang, Dawei; Pan, Qi; Tan, Chen; Zhu, Bin; Ge, Xianhong; Shao, Yujiao; Li, Zaiyun

    2016-01-01

    The young allotetraploid Brassica napus (2n = 38, AACC) is one of models to study genomic responses to allopolyploidization. The extraction of AA component from natural B. napus and then restitution of progenitor B. rapa should provide a unique opportunity to reveal the genome interplay for gene expressions during the evolution. Herein, B. napus hybrids (2n = 19, AC) between the extracted and extant B. rapa (2n = 20, AA) and the same B. oleracea genotype (2n = 18, CC) were studied by RNA-seq and compared with natural B. napus donor, to reveal the gene expression changes from hybridization and domestication and the effects of A genome with different origins. Upon the initial merger of two diploid genomes, additive gene expression was prevalent in these two hybrids, for non-additively expressed genes only represented a small portion of total expressed genes. A high proportion of genes exhibited expression level dominance, with no preference to either of the parental genomes. Comparison of homoeolog expressions also showed no bias toward any genomes and the parental expression patterns were often maintained in the hybrids and natural allotetraploids. Although, the overall patterns of gene expression were highly conserved between two hybrids, the extracted B. rapa responded less and appeared more compatible for hybridization than the extant B. rapa. Our results suggested that expression level dominance and homoeolog expressions bias were balanced at the initial stage of genome merger, and such balance were largely maintained during the domestication of B. napus, despite the increased extent over time. PMID:27790227

  10. Efficient generation of volatile species for cadmium analysis in seafood and rice samples by a modified chemical vapor generation system coupled with atomic fluorescence spectrometry

    International Nuclear Information System (INIS)

    Highlights: • We develop a modified chemical vapor generation method coupled with AFS for the determination of cadmium. • The response of Cd could be increased at least four-fold compared to conventional thiourea and Co(II) system. • A simple mixing sequences experiment is designed to study the reaction mechanism. • The interference of transition metal ions can be easily eliminated by adding DDTC. • The method is successfully applied in seafood samples and rice samples. - Abstract: A vapor generation procedure to determine Cd by atomic fluorescence spectrometry (AFS) has been established. Volatile species of Cd are generated by following reaction of acidified sample containing Fe(II) and L-cysteine (Cys) with sodium tetrahydroborate (NaBH4). The presence of 5 mg L−1 Fe(II) and 0.05% m/v Cys improves the efficiency of Cd vapor generation substantially about four-fold compared with conventional thiourea and Co(II) system. Three experiments with different mixing sequences and reaction times are designed to study the reaction mechanism. The results document that the stability of Cd(II)–Cys complexes is better than Cys–THB complexes (THB means NaBH4) while the Cys–THB complexes have more contribution to improve the Cd vapor generation efficiency than Cd(II)–Cys complexes. Meanwhile, the adding of Fe(II) can catalyze the Cd vapor generation. Under the optimized conditions, the detection limit of Cd is 0.012 μg L−1; relative standard deviations vary between 0.8% and 5.5% for replicate measurements of the standard solution. In the presence of 0.01% DDTC, Cu(II), Pb(II) and Zn(II) have no significant influence up to 5 mg L−1, 10 mg L−1and 10 mg L−1, respectively. The accuracy of the method is verified through analysis of the certificated reference materials and the proposed method has been applied in the determination of Cd in seafood and rice samples

  11. Efficient generation of volatile species for cadmium analysis in seafood and rice samples by a modified chemical vapor generation system coupled with atomic fluorescence spectrometry

    Energy Technology Data Exchange (ETDEWEB)

    Yang, Xin-an, E-mail: 13087641@qq.com; Chi, Miao-bin, E-mail: 1161306667@qq.com; Wang, Qing-qing, E-mail: wangqq8812@163.com; Zhang, Wang-bing, E-mail: ahutwbzh@163.com

    2015-04-15

    Highlights: • We develop a modified chemical vapor generation method coupled with AFS for the determination of cadmium. • The response of Cd could be increased at least four-fold compared to conventional thiourea and Co(II) system. • A simple mixing sequences experiment is designed to study the reaction mechanism. • The interference of transition metal ions can be easily eliminated by adding DDTC. • The method is successfully applied in seafood samples and rice samples. - Abstract: A vapor generation procedure to determine Cd by atomic fluorescence spectrometry (AFS) has been established. Volatile species of Cd are generated by following reaction of acidified sample containing Fe(II) and L-cysteine (Cys) with sodium tetrahydroborate (NaBH{sub 4}). The presence of 5 mg L{sup −1} Fe(II) and 0.05% m/v Cys improves the efficiency of Cd vapor generation substantially about four-fold compared with conventional thiourea and Co(II) system. Three experiments with different mixing sequences and reaction times are designed to study the reaction mechanism. The results document that the stability of Cd(II)–Cys complexes is better than Cys–THB complexes (THB means NaBH{sub 4}) while the Cys–THB complexes have more contribution to improve the Cd vapor generation efficiency than Cd(II)–Cys complexes. Meanwhile, the adding of Fe(II) can catalyze the Cd vapor generation. Under the optimized conditions, the detection limit of Cd is 0.012 μg L{sup −1}; relative standard deviations vary between 0.8% and 5.5% for replicate measurements of the standard solution. In the presence of 0.01% DDTC, Cu(II), Pb(II) and Zn(II) have no significant influence up to 5 mg L{sup −1}, 10 mg L{sup −1}and 10 mg L{sup −1}, respectively. The accuracy of the method is verified through analysis of the certificated reference materials and the proposed method has been applied in the determination of Cd in seafood and rice samples.

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

    Science.gov (United States)

    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

  13. Ectopic expression of Hrf1 enhances bacterial resistance via regulation of diterpene phytoalexins, silicon and reactive oxygen species burst in rice.

    Directory of Open Access Journals (Sweden)

    Wenqi Li

    Full Text Available Harpin proteins as elicitor derived from plant gram negative bacteria such as Xanthomonas oryzae pv. oryzae (Xoo, Erwinia amylovora induce disease resistance in plants by activating multiple defense responses. However, it is unclear whether phytoalexin production and ROS burst are involved in the disease resistance conferred by the expression of the harpin(Xoo protein in rice. In this article, ectopic expression of hrf1 in rice enhanced resistance to bacterial blight. Accompanying with the activation of genes related to the phytoalexin biosynthesis pathway in hrf1-transformed rice, phytoalexins quickly and consistently accumulated concurrent with the limitation of bacterial growth rate. Moreover, the hrf1-transformed rice showed an increased ability for ROS scavenging and decreased hydrogen peroxide (H(2O(2 concentration. Furthermore, the localization and relative quantification of silicon deposition in rice leaves was detected by scanning electron microscopy (SEM and energy-dispersive X-ray spectrometer (EDS. Finally, the transcript levels of defense response genes increased in transformed rice. These results show a correlation between Xoo resistance and phytoalexin production, H(2O(2, silicon deposition and defense gene expression in hrf1-transformed rice. These data are significant because they provide evidence for a better understanding the role of defense responses in the incompatible interaction between bacterial disease and hrf1-transformed plants. These data also supply an opportunity for generating nonspecific resistance to pathogens.

  14. Rice-Map: a new-generation rice genome browser

    Directory of Open Access Journals (Sweden)

    Luo Jingchu

    2011-03-01

    Full Text Available Abstract Background The concurrent release of rice genome sequences for two subspecies (Oryza sativa L. ssp. japonica and Oryza sativa L. ssp. indica facilitates rice studies at the whole genome level. Since the advent of high-throughput analysis, huge amounts of functional genomics data have been delivered rapidly, making an integrated online genome browser indispensable for scientists to visualize and analyze these data. Based on next-generation web technologies and high-throughput experimental data, we have developed Rice-Map, a novel genome browser for researchers to navigate, analyze and annotate rice genome interactively. Description More than one hundred annotation tracks (81 for japonica and 82 for indica have been compiled and loaded into Rice-Map. These pre-computed annotations cover gene models, transcript evidences, expression profiling, epigenetic modifications, inter-species and intra-species homologies, genetic markers and other genomic features. In addition to these pre-computed tracks, registered users can interactively add comments and research notes to Rice-Map as User-Defined Annotation entries. By smoothly scrolling, dragging and zooming, users can browse various genomic features simultaneously at multiple scales. On-the-fly analysis for selected entries could be performed through dedicated bioinformatic analysis platforms such as WebLab and Galaxy. Furthermore, a BioMart-powered data warehouse "Rice Mart" is offered for advanced users to fetch bulk datasets based on complex criteria. Conclusions Rice-Map delivers abundant up-to-date japonica and indica annotations, providing a valuable resource for both computational and bench biologists. Rice-Map is publicly accessible at http://www.ricemap.org/, with all data available for free downloading.

  15. Broadening the genetic base of Abyssinian mustard (Brassica carinata A. Braun) through introgression of genes from related allotetraploid species

    OpenAIRE

    Farooq A. Sheikh; Sashi Banga; Surindar S. Banga

    2014-01-01

    Brassica carinata (BBCC, 2n=34) has still to emerge as a major oilseed crop owing to poor agronomic attributes like long stature, long maturity duration and low seed yield. The restricted amount of genetic variability available in natural B. carinata necessitates utilization of new sources of variability for broadening its genetic base. Interspecific hybridization followed by selection in selfed and back cross progenies was employed to generate useful variability into B. carinata cv ˈPC5ˈ fro...

  16. Miracle Rice

    Institute of Scientific and Technical Information of China (English)

    2009-01-01

    A pioneering agricultural scientist helps China find its way out of a food deficit BIG YIELDS: Despite the remarkable accomplishments he has already achieved, Yuan Longping is still working hard to improve the hybrid rice strain he has developed

  17. Benthic macroinvertebrates in Italian rice fields

    Directory of Open Access Journals (Sweden)

    Daniela Lupi

    2013-02-01

    Full Text Available Rice fields can be considered man-managed temporary wetlands. Five rice fields handled with different management strategies, their adjacent channels, and a spring were analysed by their benthic macroinvertebrate community to i evaluate the role of rice agroe- cosystem in biodiversity conservation; ii find indicator species which can be used to compare the ecological status of natural wetlands with rice agroecosystems; and iii find the influence of environmental variables on biodiversity. Different methods of data analysis with increasing degree of complexity – from diversity index up to sophisticated multivariate analysis – were used. The investigation provided a picture of benthic macroinvertebrates inhabiting rice agroecosystems where 173 taxa were identified, 89 of which detected in rice paddies. Among them, 4 phyla (Mollusca, Annelida, Nematomorpha, and Arthropoda, 8 classes (Bivalvia, Gastropoda, Oligochaeta, Hirudinea, Gordioida, Insecta, Branchiopoda, and Malacostraca, 24 orders, 68 families, 127 genera and 159 species have been found. Ten threatened and 3 invasive species were detected in the habitats examined. The information obtained by the different methods of data analysis allowed a more comprehensive view on the value of the components of rice agroecosystems. Data analyses highlighted significant differences between habitats (feeding channel and rice field, with higher diversity observed in channels, and emphasised the role of the water chemical-physical parameters. The period of water permanence in rice fields resulted to be only one of the factors influencing the community of benthic macroinvertebrates. The presence of rare/endangered species allowed characterising some stations, but it was less informative about management strategies in rice paddies because most of these species were absent in rice fields.

  18. Chromosome isolation by flow sorting in Aegilops umbellulata and Ae. comosa and their allotetraploid hybrids Ae. biuncialis and Ae. geniculata.

    Directory of Open Access Journals (Sweden)

    István Molnár

    Full Text Available This study evaluates the potential of flow cytometry for chromosome sorting in two wild diploid wheats Aegilops umbellulata and Ae. comosa and their natural allotetraploid hybrids Ae. biuncialis and Ae. geniculata. Flow karyotypes obtained after the analysis of DAPI-stained chromosomes were characterized and content of chromosome peaks was determined. Peaks of chromosome 1U could be discriminated in flow karyotypes of Ae. umbellulata and Ae. biuncialis and the chromosome could be sorted with purities exceeding 95%. The remaining chromosomes formed composite peaks and could be sorted in groups of two to four. Twenty four wheat SSR markers were tested for their position on chromosomes of Ae. umbellulata and Ae. comosa using PCR on DNA amplified from flow-sorted chromosomes and genomic DNA of wheat-Ae. geniculata addition lines, respectively. Six SSR markers were located on particular Aegilops chromosomes using sorted chromosomes, thus confirming the usefulness of this approach for physical mapping. The SSR markers are suitable for marker assisted selection of wheat-Aegilops introgression lines. The results obtained in this work provide new opportunities for dissecting genomes of wild relatives of wheat with the aim to assist in alien gene transfer and discovery of novel genes for wheat improvement.

  19. Control of Echinochloa sp. in the Irrigated Rice Crop

    OpenAIRE

    Luís Eduardo Panozzo; Dirceu Agostinetto; Pedro Valério Dutra de Moraes; Deivid Araújo Magano; Adilson Harter; Luciana Barros Pinto

    2014-01-01

    The species of Echinochloa (barnyardgrass) stand out among major weeds infesting rice cropping and damages are variable depending on the weed population, rice cultivar, and management practices adopted by rice farmers. The objective of this work was to measure the control of barnyardgrass in rice cropping, cultivar Qualimax 1, due to the early times of flood irrigation, application times, and doses of penoxsulam. The experiment was conducted in the field, where the experimental design used a ...

  20. Rice agroecosystem and the maintenance of biodiversity

    International Nuclear Information System (INIS)

    Rice fields are a special type of wetland. They are shallow, constantly disturbed and experience extremes in temperature and dissolved oxygen content. They receive nutrients in the form of fertilizers during rice cultivation. Rice fields; support a variety of flora and fauna that have adapted and adjusted themselves to the extreme conditions. Since rice fields also support populations of wild fish, rice?fish integration should be done in order to optimize land use and provide supplementary income to farmers. Rice?fish farming encourages farmers to judiciously apply pesticides and herbicides in their fields thus helping to control excessive and unwarranted use of these chemicals. Rice fields also support many migratory and nonmigratory bird species and provides habitat for small mammals. Thus the rice agroecosystem helps to maintain aquatic biodiversity. The Muda rice agroecosystem consists of a troika of interconnected ecosystems. The troika consisting of reservoirs, the connecting network of canals and the rice fields; should be investigated further. This data is needed for informed decision-making concerning development and management of the system so that productivity and biodiversity can be maintained and sustained. (Author)

  1. Rice PROTEIN l-ISOASPARTYL METHYLTRANSFERASE isoforms differentially accumulate during seed maturation to restrict deleterious isoAsp and reactive oxygen species accumulation and are implicated in seed vigor and longevity.

    Science.gov (United States)

    Petla, Bhanu Prakash; Kamble, Nitin Uttam; Kumar, Meenu; Verma, Pooja; Ghosh, Shraboni; Singh, Ajeet; Rao, Venkateswara; Salvi, Prafull; Kaur, Harmeet; Saxena, Saurabh Chandra; Majee, Manoj

    2016-07-01

    PROTEIN l-ISOASPARTYL O-METHYLTRANSFERASE (PIMT) is a protein-repairing enzyme involved in seed vigor and longevity. However, the regulation of PIMT isoforms during seed development and the mechanism of PIMT-mediated improvement of seed vigor and longevity are largely unknown. In this study in rice (Oryza sativa), we demonstrate the dynamics and correlation of isoaspartyl (isoAsp)-repairing demands and PIMT activity, and their implications, during seed development, germination and aging, through biochemical, molecular and genetic studies. Molecular and biochemical analyses revealed that rice possesses various biochemically active and inactive PIMT isoforms. Transcript and western blot analyses clearly showed the seed development stage and tissue-specific accumulation of active isoforms. Immunolocalization studies revealed distinct isoform expression in embryo and aleurone layers. Further analyses of transgenic lines for each OsPIMT isoform revealed a clear role in the restriction of deleterious isoAsp and age-induced reactive oxygen species (ROS) accumulation to improve seed vigor and longevity. Collectively, our data suggest that a PIMT-mediated, protein repair mechanism is initiated during seed development in rice, with each isoform playing a distinct, yet coordinated, role. Our results also raise the intriguing possibility that PIMT repairs antioxidative enzymes and proteins which restrict ROS accumulation, lipid peroxidation, etc. in seed, particularly during aging, thus contributing to seed vigor and longevity. PMID:26987457

  2. Assembly and sorting of homologous BAC contigs in allotetraploid cotton genomes

    Science.gov (United States)

    Upland cotton (G. hirsutum) is a diploidized allopolyploid species containing At and Dt sub-genomes that have partial homology. Assembly and sorting of homologous BAC contigs into their subgenomes and further to individual chromosomes are of both great interest and great challenge for genome-wide i...

  3. Differential regulation of gene products in newly synthesized Brassica napus allotetraploids is not related to protein function nor subcellular localization

    Directory of Open Access Journals (Sweden)

    Valot Benoît

    2007-02-01

    Full Text Available Abstract Background Allopolyploidy is a preeminent process in plant evolution that results from the merger of distinct genomes in a common nucleus via inter-specific hybridization. Allopolyploid formation is usually related to genome-wide structural and functional changes though the underlying mechanisms operating during this "genomic shock" still remain poorly known. The aim of the present study was to investigate the modifications occurring at the proteomic level following an allopolyploidization event and to determine whether these changes are related to functional properties of the proteins. In a previous report, we applied comparative proteomics to synthetic amphiploids of Brassica napus and to its diploid progenitors B. rapa and B. oleracea. Although several hundred polypeptides displayed additivity (i.e. mid-parent values in the amphiploids, many of them showed non-additivity. Here, we report the in silico functional characterization of the "non-additive" proteins (the ones with a non-additive pattern of regulation in synthetic B. napus. Results The complete set of non-additive proteins (335 in the stem and 205 in the root, as well as a subset of additive polypeptides (200 per organ, was identified by mass spectrometry. Several protein isoforms were found, and most of them (~55% displayed "different" or "opposite" patterns of regulation in the amphiploids, i.e. isoforms of the same protein showing both up-regulation and down-regulation in the synthetic B. napus compared to the mid-parent value. Components of protein complexes were identified of which ~50% also displayed "different" or "opposite" patterns of regulation in the allotetraploids. In silico functional categorization of the identified proteins was carried out, and showed that neither functional category nor metabolic pathway were systematically affected by non-additivity in the synthetic amphiploids. In addition, no subcellular compartment was found to be over- or under

  4. 四倍体鲫鲤、三倍体湘云鲫染色体减数分裂观察%Chromosome pairing in meiosis Ⅰ in allotetraploid hybrids and allotriploid crucian carp

    Institute of Scientific and Technical Information of China (English)

    张纯; 何晓晓; 刘少军; 孙远东; 刘筠

    2005-01-01

    In the present paper, the chromosome pairing during meiosis Ⅰ(MⅠ)of spermatocytes in allotetraploid hybrids of the red crucian carp (Carassius auratus, red var.)(♀)×common carp Cyprinus carpio (♂), allotriploid crucian carp, diploid red crucian carp and common carp was investigated. As the control groups, their chromosome number in metaphase of mitosis was also examined. During MⅠ, the homologous chromosomes of allotetraploid hybrids were paired, showing 100 bivalents, no univalent, trivalent and quadrivalent being found. The chromosome spreads of the allotriploid in MⅠconsisted of 50 bivalents and 50 unsynapsed univalent. Both in diploid red crucian carp and diploid common carp, only 50 bivalents were observed respectively. In the control groups, the metaphase spreads of chromosomes in mitosis in allotetraploid hybrids, allotriploids, diploid red crucian carp and common carp were 4n=200, 3n=150, and 2n=100, respectively. In all the different species, the bivalent number in MⅠ agreed with the chromosome number in mitosis. The 200 chromosomes the allotetraploids possessed only formed 100 bivalents during MⅠ, indicating that they were able to produce stably diploid gametes, maintaining the tetraploidy from one generation to the next one. The coexistence of bivalents and univalent in MⅠin triploid crucian carp resulted in the failure to form the normal mature gametes, providing the evidence on the chromosome level for the sterility of the triploids[Acta Zoologica Sinica 51(1):89-94,2005].%用精巢细胞直接制片法观察了异源四倍体鲫鲤、三倍体湘云鲫和二倍体红鲫、湘江野鲤精母细胞染色体第一次减数分裂中期配对情况;作为对照,观察了上述四种鱼肾细胞的有丝分裂中期染色体.在精母细胞第一次减数分裂中,异源四倍体鲫鲤同源染色体两两配对,形成100个二价体,没有观察到单价体、三价体和四价体;三倍体湘云鲫精母细胞形成50个二价体和50

  5. Diversity and population dynamics of pests and predators in irrigated rice fields with treated and untreated pesticide.

    Science.gov (United States)

    Rattanapun, W

    2012-01-01

    The monitoring of rice pests and their predators in pesticide untreated and treated rice fields was conducted at the southern of Thailand. Twenty-two species in 15 families and 6 orders of rice pests were sampled from untreated rice field. For treated rice field, 22 species in 14 families and 5 orders of rice pest were collected. Regardless of treatment type, dominant species and individual number of rice pest varied to physiological stage of rice. Lepidopteran pests had highest infestation during the vegetative stage of rice growth, while hemipteran pests composed of hopper species (Hemipetra: Auchenorrhyncha) and heteropteran species (Hemiptera: Heteroptera) were dominant groups during the reproductive stage and grain formation and ripening stage of rice growth. In contrast, dominant species of predator did not change throughout rice growing season. There were 35 species in 25 families and seven orders and 40 species in 29 families and seven orders of predators collected from untreated and treated rice field, respectively. Major predators of both rice fields were Micraspis discolor (Fabricius) (Coleoptera: Coccinellidae), Tetragnatha sp. (Araneae: Tetragnathidae) and Agriocnemis pygmaea Rambur (Odonata: Agrionidae). The population dynamic of predators were not related with rice pest population in both treatments. However, the fluctuation of population pattern of rice pests in the untreated treatment were more distinctly synchronized with their predators than that of the treated treatment. There were no significant differences in the total number of rice pest and predator between two treatments at vegetative and reproductive stages of rice growth. Untreated rice field had a higher population number of predator and a lower population number of rice pest than that of treated rice field during grain formation and ripening stages. These results indicated the ago-ecosystem balance in rice fields could be produced through minimal pesticide application, in order to allow

  6. Can transgenic rice cause ecological risks through transgene escape?

    Institute of Scientific and Technical Information of China (English)

    2003-01-01

    Alien transgene escape from genetically engineered rice to non-transgenic varieties or close wild relatives (including weedy rice) may lead to unpredictable ecological risks. However, for transgene escape to occur three conditions need to be met: (i) spatially, transgenic rice and its non-transgenic counterparts or wild relatives should have sympatric distributions; (ii) temporally, the flowering time of transgenic rice and the non-transgenic varieties or wild relatives should overlap; and (iii) biologically, transgenic rice and its wild relative species should have such a sufficiently close relationship that their interspecific hybrids can have normal generative reproduction. This paper presents research data on the geographic distribution, flowering habits, interspecific hybridization, and gene flow of cultivated rice (Oryza sativa) and its closely related wild relatives containing the AA genome. The objective is to estimate the possibility of transgene escape to non-transgenic rice varieties and wild relatives of rice, which may result in unpredictable ecological risks.

  7. Information Commons for Rice (IC4R).

    Science.gov (United States)

    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.

  8. Information Commons for Rice (IC4R).

    Science.gov (United States)

    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

  9. 成都东郊稻田水中砷形态的测定及分布特征%Determination and distribution of arsenic species in the water of rice paddy in the east suburb of Chendu

    Institute of Scientific and Technical Information of China (English)

    郎春燕; 王儒珍; 邓涛

    2012-01-01

    The method of hydride generation-atomic fluorescence spectrometry was used for the determination of arsenic species in the water of rice paddy in the east suburb of Chengdu.It was found that the average concentration of total arsenic was in the range of 3.15—7.90 μg·L^-1 in the surface water and 18.71—53.71 μg·L^-1in the porewater,respectively,most of which is lower than the Standard of National Agricultural Irrigation Water.In the vertical direction,the concentration of arsenic species in porewater was found to be higher than that in surface water,and the concentrations of all arsenic species were found to be the highest at the water-soil interface or near the interface.They had a decreasing tendency with increasing depth.In the horizontal direction,the distribution of arsenic species was different due to different rice paddy conditions.The average concentration of all arsenic species in the studied rice paddy waters follows the order of dissolved arsenic particulate arsenic,As(Ⅲ) As(Ⅴ).%采用氢化物发生-原子荧光光谱法测定了成都东郊4块稻田水中砷的形态.研究发现,该区域稻田表面水砷浓度平均值为3.15—7.9μg·L^-1,土壤孔隙水为18.71—53.71μg·L^-1,除4号稻田土壤孔隙水外,其余各稻田表面水及土壤孔隙水中砷浓度的平均值均未超出国家农田灌溉水质标准.垂直方向上,土壤孔隙水中各形态砷的浓度均比稻田表面水中的高,且都在水-土界面或接近界面处最大,然后依次向下呈递减趋势.水平方向上,各形态砷的浓度因所处稻田条件的不同而分布各异.各形态砷在所研究稻田水中的分布皆呈现出可溶态砷〉颗粒态砷、三价砷〉五价砷的特征.

  10. Single-seeded InDel fingerprints in rice: An effective tool for indica-japonica rice classification and evolutionary studies

    Institute of Scientific and Technical Information of China (English)

    Ping LIU; Xing-Xing CAI; Bao-Rong LU

    2012-01-01

    Asian cultivated rice (Oryza sativa L.),an important cereal crop worldwide,was domesticated from its wild ancestor 8000 years ago.During its long-term cultivation and evolution under diverse agroecological conditions,Asian cultivated rice has differentiated into indica and japonica subspecies.An effective method is required to identify rice germplasm for its indica and japonica features,which is essential in rice genetic improvements.We developed a protocol that combined DNA extraction from a single rice seed and the insertion/deletion (InDel)molecular fingerprint to determine the indica and japonica features of rice germplasm.We analyzed a set of rice germplasm,including 166 Asian rice varieties,two African rice varieties,30 accessions of wild rice species,and 42 weedy rice accessions,using the single-seeded InDel fingerprints (SSIF).The results show that the SSIF method can efficiently determine the indica and japonica features of the rice germplasm.Further analyses revealed significant indica and japonica differentiation in most Asian rice varieties and weedy rice accessions.In contrast,African rice varieties and nearly all the wild rice accessions did not exhibit such differentiation.The pattern of cultivated and wild rice samples illustrated by the SSIF supports our previous hypothesis that indica and japonica differentiation occurred after rice domestication under different agroecological conditions.In addition,the divergent pattern of rice cultivars and weedy rice accessions suggests the possibility of an endoferal origin (from crop) of the weedy rice included in the present study.

  11. A comparative analysis of chromosome pairing at metaphase I in interspecific hybrids between durum wheat (Triticum turgidum L.) and the most widespread Aegilops species.

    OpenAIRE

    Benavente Barzana, M. Elena; Garcia Agüero, V.; Cifuentes Ochoa, Marta

    2010-01-01

    Homoeologous metaphase I (MI) associations in hybrids between durum wheat and its wild allotetraploid relatives Aegilops neglecta, Ae. triuncialis and Ae. ventricosa have been characterized by a genomic in situ hybridization procedure that allows simultaneous discrimination of A, B and wild species genomes. Earlier results in equivalent hybrids with the wild species Ae. cylindrica and Ae. geniculata have also been considered to comparatively assay the MI pairing pattern of the durum wheat × A...

  12. Crop Species Recognition and Discrimination Paddy-Rice from Reaped-Fields by the Radar Vegetation Index (rvi) of ALOS-2/PALSAR2

    Science.gov (United States)

    Yamada, Y.

    2016-06-01

    The Japanese ALOS-2 satellite was launched on May 24th, 2014. It has the L-band SAR, PALSAR-2. Kim,Y. and van Zyl, J.J. proposed a kind of Radar Vegetation Index (RVI) as RVI = 8 * σ0hv / (σ0hh + σ0vv + 2* σ0hv) by L-band full-polarimetric radar data. Kim, Y. and Jackson, T.J., et al. applied the equation into rice and soybean by multi-frequency polarimetric scatterometer above 4.16 meters from the ground. Their report showed the L-band was the most promising wave length for estimating LAI and NDVI from RVI. The author tried to apply the analysis to the actual paddy field areas, both Inashiki region and Miyagi region in the eastern main island, "Honshu", areas of Japan by ALOS-2/PALSAR-2 full-polarimetry data in the summer season, the main crop growing time, of 2015. Judging from conventional methods, it will be possible to discriminate paddy rice growing fields from reaped fields or the other crops growing fields by the PALSAR-2 data. But the RVI value is vaguely related to such land use or biomass at the present preliminary experiment. The continuous research by the additional PALSAR-2 full-polarimetry data should be desired.

  13. Special rice in China

    Institute of Scientific and Technical Information of China (English)

    2001-01-01

    Xianggu Rice: The rice originated from Jiangyong County, Hunan Province. Its characteristics were: even in grain shape, white in color, special fragrant in taste, and sticky in quality. Handongzao: It was from Wannian County, Jiangxi Province. The rice had big, fertile, and white grain, which was soft with fragrant smell, and it had high head rice rate. So, the local peasants liked to plant it. It was one of the "Tribute rice " in old time. Shizhu "Imperial Rice": The rice was also called "Fragrant Rice", was from Siyuan Village, Yuelai Town, Shizhu County, Sichuan Province. It was the treasure among the rices. The grain was bright in color. When it was cooked, the smell was fragrant. It was said that the rice was from "Han Dynasty", and has become the "Tribute Rice " since then. Blood Glutinous Rice: Originated from Changshu City, Jiangsu Province, the rice has been cultivated more than one hundred years. It had high nutrition value. Among the people, the Blood Glutinous Rice was often used as health food for lying-in women and patients. Qufu Fragrant Rice: Its characteristics were: clean, bright, and translucent in grain color, sticky in quality. It was suitable for cooking gruel and was also called "Fragrant Rice" in the local due to its strong fragrance. It was one of the "Tribute Rice" in old time. Taihu Lake Fragrant Japonica: The rice was from the Region of Taihu Lake, Jiangsu Province. The characteristics were: even and big in grain shape, soft in quality, white in color, fragrant in taste. The local people liked to plant and eat it.□ (To be continued) Translated by CHEN Wenhua, From "China Rice",No.1,1994

  14. Rice methylmercury exposure and mitigation: a comprehensive review

    Science.gov (United States)

    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, price 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. The occurrence of arthropods in processed rice products in Malaysia

    Institute of Scientific and Technical Information of China (English)

    Mariana A; Heah SK; Wong AL; Ho TM

    2010-01-01

    Objective:To determine distribution of arthropods in processed rice products such as rice flour and rice cereal-based infant food. Methods: Random samples of rice flour and rice cereal-based infant food purchased from commercial outlets were examined for the presence of arthropods using a modified Berlese Tullgren Funnel Method. Mites were mounted prior to identification and weevils were directly identified. Results: For non-expired products, infestation was found in 6.7%of rice flour and none was found in rice cereal-based infant food samples. The arthropods found in the flour samples were Cheyletus spp., Suidasia pontifica (S. pontifica), Tarsonemus spp., Tyrophagus putrescentiae (T. putrescentiae), Sitophilus granarius (S. granarius) and Sitophilus oryzae (S. oryzae). Others which cannot be identified were Oribatid and Prostigmatid mites. The most common mites in rice flour were Tarsonemus spp. (69.1%), followed by S. pontifica (18.2%). For expired products, only one sample of rice cereal-based infant food was infested and the infestation was by mites of the family Tydeidae. Conclusions:This study demonstrates the presence of 4 allergenic species of S. pontifica, T. putrescentiae, S. granarius and S. oryzae in rice flour. These arthropods can contribute to the incidence of anaphylaxis upon consumption by atopic individuals. There was no infestation of arthropods in rice cereal-based infant food surveyed except for an expired product in a moderate rusty tin container.

  16. Rice methylmercury exposure and mitigation: a comprehensive review.

    Science.gov (United States)

    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, pmethylmercury (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.

  17. Cytoplasmic and genomic effects on non-meiosis-driven genetic changes in Brassica hybrids and allotetraploids from pairwise crosses of three cultivated diploids.

    Directory of Open Access Journals (Sweden)

    Cheng Cui

    Full Text Available Nuclear-cytoplasmic interactions are predicted to be important in shaping the genetic changes in early stage of allopolyploidization. Our previous study shows the specific role of genome and cytoplasm affecting the chromosome pairing in Brassica hybrids and allotetraploids from pairwise crosses between three cultivated diploids with A, B and C genomes, respectively. Herein, to address how parental genomes and cytoplasm affects genomic, epigenetic and gene expression changes prior to meiosis in these hybrids and allopolyploids, their patterns of AFLP (Amplified fragment length polymorphism, mAFLP (Methylation AFLP and cDNA-AFLP were compared with the progenitors, revealing the major absent bands within each genome. These changes varied under various cytoplasm backgrounds and genome combinations, following the significant order of AFLP> mAFLP> cDNA -AFLP. The frequencies of AFLP bands lost were positively correlated with the divergence degrees of parental genomes, but not obvious for those of mAFLP and cDNA-AFLP absent bands, and methylation change showed least variations among hybrids and within each genome. These changes within each genome followed the A>B>C hierarchy, except the highest rate of cDNA loss in B genome. Among three changes, only overall AFLP bands were significantly correlated with cDNA-AFLP, and their correlations varied within each genome. These changes in allotetraploids were mainly caused by genome merger rather than doubling. Parental genomes altered differently at three levels, responded to the types of cytoplasm and genome and their interaction or divergence. The result provides new clues for instant non-meiosis-driven genome restructuring following genome merger and duplication.

  18. The World of Rice

    Institute of Scientific and Technical Information of China (English)

    VALERIE SARTOR

    2010-01-01

    @@ Pilafs, risottos, soups, snacks, paellas,stuffing, vinegars, wines and desserts-rice is used all over the world in myriad ways as food and drink.Although rice is one of the world's most ancient foods and it is impossible to know exactly where and when cultivation of this marvelous grain began, China is popularly acknowledged as the homeland of rice. Chinese people have many legends about rice. Some describe a benevolent goddess in silk robes whose gown accidentally picked up stray rice grains, which she dropped from the heavens to humans below. It's also said that Shennong, the Divine Farmer in Chinese myth, sowed the first rice on earth.

  19. Rice Responses and Resistance to Planthopper-Borne Viruses at Transcriptomic and Proteomic Levels.

    Science.gov (United States)

    Cui, Feng; Zhao, Wan; Luo, Lan; Kang, Le

    2016-01-01

    Rice (Oryza sativa) is one of the most important cereal crops in the world, especially in Asian areas. Rice virus diseases are considered as the most serious threat to rice yields. Most rice viruses are transmitted by hemipteran insects such as planthoppers and leafhoppers. In Asia five rice viruses are transmitted mainly by three planthopper species in a persistent manner: Rice stripe virus, Rice black-streaked dwarf virus, Rice ragged stunt virus, Rice grassy stunt virus, and Southern rice black-streaked dwarf virus. In rice antivirus studies, several individual genes have been shown to function in rice resistance to viruses. Since plant responses to viral infection are complex, system-level omic studies are required to fully understand the responses. Recently more and more omic studies have appeared in the literatures on relationships between planthoppers and viruses, employing microarray, RNA-Seq, small RNA deep sequencing, degradome sequencing, and proteomic analysis. In this paper, we review the current knowledge and progress of omic studies in rice plant responses and resistance to four planthopper-borned viruses. We also discuss progress in the omic study of the interactions of planthoppers and rice viruses. Future research directions and translational applications of fundamental knowledge of virus-vector-rice interactions are proposed. PMID:26363817

  20. Fungal diversity of rice straw for meju fermentation.

    Science.gov (United States)

    Kim, Dae-Ho; Kim, Seon-Hwa; Kwon, Soon-Wo; Lee, Jong-Kyu; Hong, Seung-Beom

    2013-12-01

    Rice straw is closely associated with meju fermentation and it is generally known that the rice straw provides meju with many kinds of microorganisms. In order to elucidate the origin of meju fungi, the fungal diversity of rice straw was examined. Rice straw was collected from 12 Jang factories where meju are produced, and were incubated under nine different conditions by altering the media (MEA, DRBC, and DG18), and temperature (15°C, 25°C, and 35°C). In total, 937 strains were isolated and identified as belonging to 39 genera and 103 species. Among these, Aspergillus, Cladosporium, Eurotium, Fusarium, and Penicillium were the dominant genera. Fusarium asiaticum (56.3%), Cladosporium cladosporioides (48.6%), Aspergillus tubingensis (37.5%), A. oryzae (31.9%), Eurotium repens (27.1%), and E. chevalieri (25.0%) were frequently isolated from the rice straw obtained from many factories. Twelve genera and 40 species of fungi that were isolated in the rice straw in this study were also isolated from meju. Specifically, A. oryzae, C. cladosporioides, E. chevalieri, E. repens, F. asiaticum, and Penicillium polonicum (11.8%), which are abundant species in meju, were also isolated frequently from rice straw. C. cladosporioides, F. asiaticum, and P. polonicum, which are abundant in the low temperature fermentation process of meju fermentation, were frequently isolated from rice straw incubated at 15°C and 25°C, whereas A. oryzae, E. repens, and E. chevalieri, which are abundant in the high temperature fermentation process of meju fermentation, were frequently isolated from rice straw incubated at 25°C and 35°C. This suggests that the mycobiota of rice straw has a large influence in the mycobiota of meju. The influence of fungi on the rice straw as feed and silage for livestock, and as plant pathogens for rice, are discussed as well. PMID:24043125

  1. Molecular evolution of the rice blast resistance gene Pi-ta in invasive weedy rice in the USA.

    Directory of Open Access Journals (Sweden)

    Seonghee Lee

    Full Text Available The Pi-ta gene in rice has been effectively used to control rice blast disease caused by Magnaporthe oryzae worldwide. Despite a number of studies that reported the Pi-ta gene in domesticated rice and wild species, little is known about how the Pi-ta gene has evolved in US weedy rice, a major weed of rice. To investigate the genome organization of the Pi-ta gene in weedy rice and its relationship to gene flow between cultivated and weedy rice in the US, we analyzed nucleotide sequence variation at the Pi-ta gene and its surrounding 2 Mb region in 156 weedy, domesticated and wild rice relatives. We found that the region at and around the Pi-ta gene shows very low genetic diversity in US weedy rice. The patterns of molecular diversity in weeds are more similar to cultivated rice (indica and aus, which have never been cultivated in the US, rather than the wild rice species, Oryza rufipogon. In addition, the resistant Pi-ta allele (Pi-ta found in the majority of US weedy rice belongs to the weedy group strawhull awnless (SH, suggesting a single source of origin for Pi-ta. Weeds with Pi-ta were resistant to two M. oryzae races, IC17 and IB49, except for three accessions, suggesting that component(s required for the Pi-ta mediated resistance may be missing in these accessions. Signatures of flanking sequences of the Pi-ta gene and SSR markers on chromosome 12 suggest that the susceptible pi-ta allele (pi-ta, not Pi-ta, has been introgressed from cultivated to weedy rice by out-crossing.

  2. Special rice in China

    Institute of Scientific and Technical Information of China (English)

    2001-01-01

    @@Mingshui Rice: It originated from Zhangqiu County, Shandong Province. The characteristics of Mingshui Rice were: absorbing more water, swelling up greatly after being soaked, and being sticky and smelling fragrant after cooked.

  3. 氢化物发生原子荧光法测定稻田土中的锑形态%Determination of antimony species in rice paddy soils by hydride generation atomic fluorescence spetrometry

    Institute of Scientific and Technical Information of China (English)

    郎春燕; 周英; 赖晨焕

    2012-01-01

    Antimony species in rice paddy soils in east suburb of Chengdu were determined by hydride generation-atomic fluorescence spectrometry using aqua regia as a digestant and sequential extraction method. The detection limit of Sb was 0. 108 μg/L,and the recoveries of Sb were 96. 9% ~ 104. 8%. The results showed that the interferences from Cu2+ 、Co2+ 、Se4+ 、Sn2 +、Zn2+、Pb2+、As3+ 、As5+ 、Hg2+ which possibly existed in soils could be efficiently eliminated by using the mixture of thiourea and ascorbic acid. The concentrations of antimony were in the range from 0. 92 mg/kg to 2. 52 mg/kg in samples. The average concentration was 1. 76 mg/kg. The results were not much higher than the standard concentrations of Sb in soils in SiChuan( ≈1. 70 mg/kg, 1991). In the horizontal direction, the distribution of antimony species was different due to different soil conditions of rice paddy. The concentration of antimony species in the studied rice paddy soils generally followed the direction of residual phase > organic/sulphidic phase > Fe/Mn hydrous oxides > carbonate fraction > cation exchangeable. There was a very small proportion of cation exchangeable which could be easily absorbed by plants. In the vertical direction, the concentrations of antimony species had a decreasing tendency with the increased depth of soil.%采用王水消解及逐级浸提技术,以氢化物发生-原子荧光法对成都东郊稻田土中的Sb形态进行了分析,方法检出限为0.108 μg/L,回收率为96.9%~104.8%.加入硫脲-抗坏血酸溶液后,土壤样品中可能存在的金属离子Cu2+、Co2+、Se4、Sn2+、Zn2+、pb2+、As3+、As5+、Hg2+对Sb的干扰可以有效地消除;样品Sb含量在0.92 ~2.52 mg/kg之间波动,平均值为1.76 mg/kg,与四川省土壤Sb背景浓度(≈1.70 mg/kg,1991)相比相差不大.水平方向上,各形态Sb的浓度因所处稻田条件的不同而分布各异,大体呈以下规律:残渣态>有机/硫化物结合态>铁/锰

  4. Adapting weed management in rice to changing climates

    NARCIS (Netherlands)

    Rodenburg, J.; Meinke, H.B.

    2011-01-01

    This paper provides some of the scientific background on how projected environmental conditions could affect weeds and weed management in rice in Africa. Elevated CO2 levels may have positive effects on rice competitiveness with C4 weeds, but these are generally outnumbered by C3 species in weed pop

  5. Transgenic Bacillus thuringiensis (Bt) rice is safer to aquatic ecosystems than its non-transgenic counterpart.

    Science.gov (United States)

    Li, Guangsheng; Wang, Yongmo; Liu, Biao; Zhang, Guoan

    2014-01-01

    Rice lines genetically modified with the crystal toxin genes from Bacillus thuringiensis (Bt) have experienced rapid development, with biosafety certificates for two Bt rice lines issued in 2009. There has still been no commercial release of these lines yet due to public concerns about human health and environmental risks. Some studies confirmed that Bt rice was as safe as conventional rice to non-target organisms when pesticides were not applied, however, pesticides are still required in Bt rice to control non-lepidopteran pests. In this study, we assessed the environmental effects of two Bt rice lines expressing either the cry1Ab/1Ac or cry2A genes, respectively, by using zooplanktons as indicator species under normal field management practices using pesticides when required. In the whole rice growing season, non-Bt rice was sprayed 5 times while Bt rice was sprayed 2 times, which ensured both rice achieved a normal yield. Field investigations showed that rice type (Bt and non-Bt) significantly influenced zooplankton abundance and diversity, which were up to 95% and 80% lower in non-Bt rice fields than Bt rice fields. Laboratory rearing showed that water from non-Bt rice fields was significantly less suitable for the survival and reproduction of Daphnia magna and Paramecium caudatum in comparison with water from Bt rice fields. Higher pesticide residues were detected in the water from non-Bt than Bt rice fields, accounting for the bad performance of zooplankton in non-Bt field water. Our results demonstrate that Bt rice is safer to aquatic ecosystems than non-Bt rice, and its commercialization will be beneficial for biodiversity restoration in rice-based ecosystems.

  6. Transgenic Bacillus thuringiensis (Bt rice is safer to aquatic ecosystems than its non-transgenic counterpart.

    Directory of Open Access Journals (Sweden)

    Guangsheng Li

    Full Text Available Rice lines genetically modified with the crystal toxin genes from Bacillus thuringiensis (Bt have experienced rapid development, with biosafety certificates for two Bt rice lines issued in 2009. There has still been no commercial release of these lines yet due to public concerns about human health and environmental risks. Some studies confirmed that Bt rice was as safe as conventional rice to non-target organisms when pesticides were not applied, however, pesticides are still required in Bt rice to control non-lepidopteran pests. In this study, we assessed the environmental effects of two Bt rice lines expressing either the cry1Ab/1Ac or cry2A genes, respectively, by using zooplanktons as indicator species under normal field management practices using pesticides when required. In the whole rice growing season, non-Bt rice was sprayed 5 times while Bt rice was sprayed 2 times, which ensured both rice achieved a normal yield. Field investigations showed that rice type (Bt and non-Bt significantly influenced zooplankton abundance and diversity, which were up to 95% and 80% lower in non-Bt rice fields than Bt rice fields. Laboratory rearing showed that water from non-Bt rice fields was significantly less suitable for the survival and reproduction of Daphnia magna and Paramecium caudatum in comparison with water from Bt rice fields. Higher pesticide residues were detected in the water from non-Bt than Bt rice fields, accounting for the bad performance of zooplankton in non-Bt field water. Our results demonstrate that Bt rice is safer to aquatic ecosystems than non-Bt rice, and its commercialization will be beneficial for biodiversity restoration in rice-based ecosystems.

  7. Characterization of paralogous protein families in rice

    Directory of Open Access Journals (Sweden)

    Zhu Wei

    2008-02-01

    Full Text Available Abstract Background High gene numbers in plant genomes reflect polyploidy and major gene duplication events. Oryza sativa, cultivated rice, is a diploid monocotyledonous species with a ~390 Mb genome that has undergone segmental duplication of a substantial portion of its genome. This, coupled with other genetic events such as tandem duplications, has resulted in a substantial number of its genes, and resulting proteins, occurring in paralogous families. Results Using a computational pipeline that utilizes Pfam and novel protein domains, we characterized paralogous families in rice and compared these with paralogous families in the model dicotyledonous diploid species, Arabidopsis thaliana. Arabidopsis, which has undergone genome duplication as well, has a substantially smaller genome (~120 Mb and gene complement compared to rice. Overall, 53% and 68% of the non-transposable element-related rice and Arabidopsis proteins could be classified into paralogous protein families, respectively. Singleton and paralogous family genes differed substantially in their likelihood of encoding a protein of known or putative function; 26% and 66% of singleton genes compared to 73% and 96% of the paralogous family genes encode a known or putative protein in rice and Arabidopsis, respectively. Furthermore, a major skew in the distribution of specific gene function was observed; a total of 17 Gene Ontology categories in both rice and Arabidopsis were statistically significant in their differential distribution between paralogous family and singleton proteins. In contrast to mammalian organisms, we found that duplicated genes in rice and Arabidopsis tend to have more alternative splice forms. Using data from Massively Parallel Signature Sequencing, we show that a significant portion of the duplicated genes in rice show divergent expression although a correlation between sequence divergence and correlation of expression could be seen in very young genes. Conclusion

  8. Physicochemical and antioxidative properties of black, brown and red rice varieties of northern Thailand

    Directory of Open Access Journals (Sweden)

    Noppawat Pengkumsri

    2015-06-01

    Full Text Available Rice, the seed of Oryza species, is the major cereal crop in most of the developing countries. Nearly 95% of global rice production is done in Asian countries, and about half of the world’s population consumes it. Some speciality rices are not commonly consumed. Colored rice is one of such variety. In these varieties, high amounts of anthocyanin pigment are deposited in the rice coat to form its black (also known as purple, brown and red colors. Minimum studies are there to explain the properties of these rice varieties of Thailand. Thus, the current study was aimed to assess the physicochemical and antioxidative properties of three rice varieties (Chiang Mai Black rice, Mali Red rice and Suphanburi-1 Brown rice of different cultivars of northern Thailand. Rice bran extracts of these three cultivars were prepared with different solvents (polar and non-polar for the evaluation of total phytochemical content and anti-oxidant free-radical-scavenging properties. Chiang Mai Black rice contained higher concentration of phenolic acid, flavonoids, and anthocyanins (Cyanidin 3-glucoside, peonidin 3-glucoside, cyanidin chloride. Chiang Mai Black rice is richer in free-radical-scavenging compounds and activities than the other tested varieties. Polar extractions of rice bran are high in anti-oxidative compounds and activities than non-polar extractions.

  9. ANALYSIS ON THE DYNAMICS OF SPATIAL DISTRIBUTION PATTERN OF MIXED SPIDER POPULATION IN RICE FIELD

    Institute of Scientific and Technical Information of China (English)

    ZhiWang; Zhe-mingYuan; Da-xiangSong; Ming-shengZhu

    2004-01-01

    The results make it clear that there are total 11 families, 29 genera and 43 species of spiders in the rice field of Dong Fang Hong Farm. Among them, there are 8 families, 19 genera and 28 species in the early rice field, and 10 families, 27 genera and 36 species in the late rice field. The spatial distribution pattern of mixed spider populations in rice fields was different during different development stages of rice plant. During the prophase, metaphase and anaphase of early rice plant development, the spatial distribution pattern of mixed spider populations was aggregative, random and aggregative respectively. During the prophase, metaphase and anaphase of late rice plant development, the spatial distribution pattern was uniform, aggregative and uniform respectively.

  10. Special rice in China

    Institute of Scientific and Technical Information of China (English)

    2001-01-01

    Wushan Rice: It grew in hilly land around Wu Mountain in Wang City, Hunan Province. Its grain is bright and transparent, and the cooked rice is soft, sticky, fragrant, and sweet in taste. It was a "Tribute Rice" in old time. Indian Indica: Growing in Wuchang City, Hubei Province, it was also called" Red Flower Rice" . It was characterized by its thin pericarp and soft, sticky, and oily quality. Its taste was delicious. Fragrant Rice 1: It was from Xinxiang and Hui counties, Henan Province. Its characteristics were: long-round in grain shape, white in color, soft and sticky in quality, and agreeable to the taste. It was usually used as a gift in the local. Baiyutang Rice: It originated from Gaozhuang Village, Beijing suburban district. It had good quality due to the irrigation of the spring water. The rice had even grain shape, white color, hard enough quality to be cooked, fragrant and sweet taste. It was one of the "Tribute Rice" in old time. Tian′e Indica Rice: Xianning and Wuchang counties, Hubei Province were its growing area. It also called "Double Grain" because of its big grain. The hull was red, while the grain was white. When cooked, it needed more water than normal rice, and the rice was agreeable to the taste. Baiyan Rice: It originated from Jishou County, Hunan Province. The grain was even in shape, white in color, and sticky in quality. The rice was easy to be cooked and was fragrant and sweet in taste. It was also a " Tribute Rice" in old time. □ (To be continued) Translated by CHEN Wenhua, From "China Rice", No. 1, 1994

  11. Agrobiodiversity of Muda Rice Agroecosystem:A case Study in Largest Granary Area of Malaysia

    Institute of Scientific and Technical Information of China (English)

    Amir Shah Ruddin Md Shah; Mashhor Mansor; Shahrul Anuar Mohd Shah; Che Salmah Mohd Rawi; Abu Hassan Ahmad; Ibrahim Jaafar

    2008-01-01

    A survey was carried out at the largest rice cultivation area in Peninsular Malaysia, the Muda rice agroecosystem. The main objective of this study was to document the overall biodiversity associated with this unique agroecosystem by using a combination of sampling techniques in order to record different groups of fauna and flora. The total number of biota recorded and identified from the rice field ecosystem during the study period consisted of 46 species of zooplankton, 81 species of aquatic insects, 5 species of rodents, 7 species of bats, 87 species of birds, 11 species of fishes and 58 species of weeds. A long-term study should be carried out as more species are expected to be recorded when more of the Muda rice agroecosystem area has been sampled to obtain sufficient information on the Muda rice agrobiodiversity.

  12. Special rice in China

    Institute of Scientific and Technical Information of China (English)

    2000-01-01

    @@Shanxi black rice It was originally from Yang County, Hanzhong Region.This rice was a world-famous rice variety developed in 140 BC. It had pitch-black surface with the protein and oil contents being 6.8% and 20% higher than that of common rice, respectively. It had 15 kinds of amino acids and many kinds of vitamins. It was praised as" Black pearl" and "The king of the world riee".DongnianThe other names for Dongnian were "Yellow rice" and "Oil rice". It was grown in E City and Huangmei County,Hubei Province. It was characterized by its long-slim shape, milky yellow in color, oily, solid, and sticky quality, fragrant smell, and easiness for digestion.Guizhou black pearl rice

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

    Science.gov (United States)

    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

  14. Distribution of arthropods in rice grains in Malaysia

    Institute of Scientific and Technical Information of China (English)

    Mariana A; Ho TM; Lau TY; Heah SK; Wong AL

    2009-01-01

    Objective:To determine distribution of arthropods in rice grains obtained from different sources.Methods:Rice samples were randomly collected from public in urban areas,farmers in rice field areas,aborigines in un-developed areas and retailers in commercial premises.Random samples of rice were taken out from each sam-ple for isolation of arthropods using a modified Berlese Tullgren Funnel Method.Mites were mounted prior to i-dentification;weevils were directly identified.Results:Samples of rice from retailers in commercial premises had the highest infestation by arthropods followed by samples from urbanites,aborigines and rice farmers.Two species of weevils,Sitophilus oryzae(S.oryzae)and Sitophilus granarius(S.granarius),were found.Samples from commercial premises had the least percentage of weevils compared to those collected from domestic premi-ses.Depending on the source of samples,densities of S.granarius and S.oryzae ranges from 1 1 -1 03 weevils? kg and 7-80 weevils?kg,respectively.Important species of mites in stored rice identified were mainly members of the families Cheyletidae,Echimyopodidae,Pyroglyphidae,Saproglyphidae and Tenuipalpidae.Among the species of mites identified were Austroglycyphagus malaysiensis,Cheyletus fortis,Cheyletus malaccensis,Der-matophagoides pteronyssinus,Grammolichus malukuensis and Suidasia pontifica.Average density of most of the mites was less than 40 mites?kg of rice grains.In this study,the highest number of mites in rice samples was recovered from commercial premises,followed by samples from urbanites.Samples from farmers and aborigines contained lesser mites.Conclusion:This study demonstrated the presence of 3 allergenic mite species in rice, i.e A.malaysiensis,D.pteronyssinus and S.pontifica.Weevils,S.oryzae and S.granarius that are known to be allergenic,were also found.

  15. Molecular Population Genetics of Rice Domestication

    Institute of Scientific and Technical Information of China (English)

    Tian Tang; Suhua Shi

    2007-01-01

    Domestication is a selection process that genetically modifies species to meet human needs. A most intriguing feature of domestication is the extreme phenotypic diversification among breeds. What could be the ultimate source of such genetic variations? Another notable outcome of artificial selection is the reduction in the fitness of domesticated species when they live in the wild without human assistance. The complete sequences of the two subspecies of rice cultivars provide an opportunity to address these questions. Between the two subspecies, we found much higher rates of non-synonymous (N) than synonymous (S) substitutions and the N/S ratios are higher between cultivars than between wild species. Most interestingly, substitutions of highly dissimilar amino acids that are deleterious and uncommon between natural species are disproportionately common between the two subspecies of rice. We suggest strong selection in the absence of effective recombination may be the driving force, which we called the domestication-associated Hill-Robertson effect. These hitchhiking mutations may contribute to some fitness reduction in cultivars. Comparisons of the two genomes also reveal the existence of highly divergent regions in the genomes. Haplotypes in these regions often form highly polymorphic linkage blocks that are much older than speciation between wild species. Genes from such regions could contribute to the differences between indica and japonica and are likely to be involved in the diversifying selection under domestication. Their existence suggests that the amount of genetic variation within the single progenitor species Oryza ruflpogon may be insufficient to account for the variation among rice cultivars, which may come from a more inclusive gene pool comprising most of the A-genome wild species. Genes from the highly polymorphic regions also provide strong support for the independent domestication of the two subspecies. The genomic variation in rice has revealing

  16. Rice that Filipinos Grow and Eat

    OpenAIRE

    de Leon, John C.

    2005-01-01

    This paper introduces rice to the reader and analyzes the changes it has gone through these past 100 years in the shaping hands of varietal improvement science. Here, the richness of the crop as a genetic material and resource is revealed. Landrace rice, pureline selection rice, crossbred rice, semidwarf rice, hybrid rice, new plant type rice, designer rice - from the traditional to modern to futuristic - rice becomes all of these while traversing time in the Philippines. There is rice for th...

  17. Arsenic biotransformation and volatilization in transgenic rice.

    Science.gov (United States)

    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

  18. Nonhost resistance of rice to rust pathogens.

    Science.gov (United States)

    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.

  19. Malaysian weedy rice shows its true stripes: wild Oryza and elite rice cultivars shape agricultural weed evolution in Southeast Asia.

    Science.gov (United States)

    Song, Beng-Kah; Chuah, Tse-Seng; Tam, Sheh May; Olsen, Kenneth M

    2014-10-01

    Weedy rice is a close relative of domesticated rice (Oryza sativa) that competes aggressively with the crop and limits rice productivity worldwide. Most genetic studies of weedy rice have focused on populations in regions where no reproductively compatible wild Oryza species occur (North America, Europe and northern Asia). Here, we examined the population genetics of weedy rice in Malaysia, where wild rice (O. rufipogon) can be found growing in close proximity to cultivated and weedy rice. Using 375 accessions and a combined analysis of 24 neutral SSR loci and two rice domestication genes (sh4, controlling seed shattering, and Bh4, controlling hull colour), we addressed the following questions: (i) What is the relationship of Malaysian weedy rice to domesticated and wild rice, and to weedy rice strains in the USA? (ii) To what extent does the presence of O. rufipogon influence the genetic and phenotypic diversity of Malaysian weeds? (iii) What do the distributions of sh4 and Bh4 alleles and associated phenotypes reveal about the origin and contemporary evolution of Malaysian weedy rice? Our results reveal the following: independent evolutionary origins for Malaysian weeds and US strains, despite their very close phenotypic resemblance; wild-to-weed gene flow in Malaysian weed populations, including apparent adaptive introgression of seed-shattering alleles; and a prominent role for modern Malaysian cultivars in the origin and recent proliferation of Malaysian weeds. These findings suggest that the genetic complexity and adaptability of weedy crop relatives can be profoundly influenced by proximity to reproductively compatible wild and domesticated populations.

  20. The deposition of radioiodine onto rice plant from atmosphere

    International Nuclear Information System (INIS)

    Radiation dose estimations are usually made with the aid of assessment models in which model parameters such as the transfer factors of radionuclides from one environmental compartment to another are involved. In simple models the parameters are often described as the concentration ratio of a radionuclide between two compartments, when the system is under equilibrium condition. In this paper, the authors introduce the values of the parameters of radioiodine obtained by tracer experiments. Laboratory experiments on the transfer parameters of radionuclides from the atmosphere to rice plant were carried out in the atmosphere-to-crops system (deposition pathway). It is known that the typical chemical species of gaseous iodine in the atmosphere are elemental iodine (I2) and methyliodide (CH3I). The deposition characteristics of both chemical species of gaseous iodine to rice grains were obtained. Mass normalized deposition velocity (VD) and grain number normalized deposition velocity (VS) of gaseous elemental iodine (I2) and also methyliodide (CH3I) on unhulled rice were measured. Both VD and VS of methyliodide were about one percent of those of elemental iodine. Distribution pattern of methyliodide between unhulled rice and brown rice was significantly lower than that of elemental one. For wet deposition, we investigated the retention of radioiodines (iodide [I-] and iodate [IO3-] on rice grains and their translocation from the surface of the grains to brown rice. Though the ears were dipped into the solution containing 125I- or 125IO3- more than 15 min., both iodine species in the solutions were hardly taken up to the rice grains. The transfer rates of iodide and iodate, which are defined as 'the amount of the iodine in brown rice' divided by 'the amount of iodide in unhulled rice' were about 0.015 and 0.04, respectively. The rates were not changed with time after the radioiodine application. (author)

  1. A comparison of spider communities in Bt and non-Bt rice fields.

    Science.gov (United States)

    Lee, Sue Yeon; Kim, Seung Tae; Jung, Jong Kook; Lee, Joon-Ho

    2014-06-01

    To assess the potential adverse effects of a Bt rice line (Japonica rice cultivar, Nakdong) expressing a synthetic cry1Ac1 gene, C7-1-9-1-B, which was highly active against all larval stages of Cnaphalocrocis medinalis (Guenée) (Lepidoptera: Crambidae), we investigated the community structure of spiders in Bt and non-Bt rice fields during the rice-growing season in 2007 and 2008 in Chungcheongnam-do, Korea. Spiders were surveyed with a sweep net and suction device. Suction sampling captured more spiders, measured in terms of species level and abundance, than sweeping. Araneidae and Thomisidae were captured more by sweeping, and certain species were captured only by sweeping. These findings show that both suction and sweep sampling methods should be used because these methods are most likely complementary. In total, 29 species in 23 genera and nine families were identified from the 4,937 spiders collected, and both Bt and non-Bt rice fields showed a typical Korean spider assemblage. The temporal patterns of spider species richness and spider abundance were very similar between Bt and non-Bt rice, although significant differences in species richness were observed on a few occasions. Overall, spider community structure, including diversity, the dominant species, and abundance did not differ between Bt and non-Bt rice. The results of the study indicated that the transgenic Cry1Ac rice lines tested in this study had no adverse effects on the spider community structure of the rice fields.

  2. Genome-wide patterns of nucleotide polymorphism in domesticated rice.

    Directory of Open Access Journals (Sweden)

    Ana L Caicedo

    2007-09-01

    Full Text Available 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.

  3. Determinants for grading Malaysian rice

    Science.gov (United States)

    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.

  4. Variation in arsenic speciation and concentration in paddy rice related to dietary exposure.

    Science.gov (United States)

    Williams, P N; Price, A H; Raab, A; Hossain, S A; Feldmann, J; Meharg, A A

    2005-08-01

    Ingestion of drinking water is not the only elevated source of arsenic to the diet in the Bengal Delta. Even at background levels, the arsenic in rice contributes considerably to arsenic ingestion in subsistence rice diets. We set out to survey As speciation in different rice varieties from different parts of the globe to understand the contribution of rice to arsenic exposure. Pot experiments were utilized to ascertain whether growing rice on As contaminated soil affected speciation and whether genetic variation accounted for uptake and speciation. USA long grain rice had the highest mean arsenic level in the grain at 0.26 microg As g(-1) (n = 7), and the highest grain arsenic value of the survey at 0.40 microg As g(-1). The mean arsenic level of Bangladeshi rice was 0.13 microg As g(-1) (n = 15). The main As species detected in the rice extract were AsIII, DMAV, and AsV. In European, Bangladeshi, and Indian rice 64 +/- 1% (n = 7), 80 +/- 3% (n = 11), and 81 +/- 4% (n = 15), respectively, of the recovered arsenic was found to be inorganic. In contrast, DMAV was the predominant species in rice from the USA, with only 42 +/- 5% (n = 12) of the arsenic being inorganic. Pot experiments show that the proportions of DMAV in the grain are significantly dependent on rice cultivar (p = 0.026) and that plant nutrient status is effected by arsenic exposure. PMID:16124284

  5. Overexpression of BSR1 confers broad-spectrum resistance against two bacterial diseases and two major fungal diseases in rice.

    Science.gov (United States)

    Maeda, Satoru; Hayashi, Nagao; Sasaya, Takahide; Mori, Masaki

    2016-06-01

    Broad-spectrum disease resistance against two or more types of pathogen species is desirable for crop improvement. In rice, Xanthomonas oryzae pv. oryzae (Xoo), the causal bacteria of rice leaf blight, and Magnaporthe oryzae, the fungal pathogen causing rice blast, are two of the most devastating pathogens. We identified the rice BROAD-SPECTRUM RESISTANCE 1 (BSR1) gene for a BIK1-like receptor-like cytoplasmic kinase using the FOX hunting system, and demonstrated that BSR1-overexpressing (OX) rice showed strong resistance to the bacterial pathogen, Xoo and the fungal pathogen, M. oryzae. Here, we report that BSR1-OX rice showed extended resistance against two other different races of Xoo, and to at least one other race of M. oryzae. In addition, the rice showed resistance to another bacterial species, Burkholderia glumae, which causes bacterial seedling rot and bacterial grain rot, and to Cochliobolus miyabeanus, another fungal species causing brown spot. Furthermore, BSR1-OX rice showed slight resistance to rice stripe disease, a major viral disease caused by rice stripe virus. Thus, we demonstrated that BSR1-OX rice shows remarkable broad-spectrum resistance to at least two major bacterial species and two major fungal species, and slight resistance to one viral pathogen. PMID:27436950

  6. MicroRNAs in Rice Innate Immunity.

    Science.gov (United States)

    Baldrich, Patricia; San Segundo, Blanca

    2016-12-01

    MicroRNAs (miRNAs) are short regulatory non-coding RNAs that guide gene silencing in most eukaryotes. They regulate gene expression by triggering sequence-specific cleavage or translational repression of target transcripts. Plant miRNAs are known to play important roles in a wide range of developmental processes. Increasing evidence also supports that the modulation of miRNA levels plays an important role in reprogramming plant responses to abiotic stress (drought, cold, salinity and nutrient deficiency) and biotic stress (antibacterial resistance). Most of these studies were carried out in the model plant Arabidopsis thaliana. During the last years, the adoption of high-throughput sequencing technologies has significantly contributed to uncover multiple miRNAs while allowing miRNA profiling in plants. However, although a plethora of rice miRNAs have been shown to be regulated by pathogen infection, the biological function remains largely unknown for most of them. In this review, we summarize our current understanding on the contribution of miRNAs to rice immunity and discuss their potential applications in rice biotechnology. A better understanding of the miRNA species controlling rice immunity may lead to practical biotechnological applications leading to the development of appropriate strategies for rice protection. PMID:26897721

  7. Super Rice Breeding in China

    Institute of Scientific and Technical Information of China (English)

    2001-01-01

    @@I. Demand for super high yield rice in China   Rice is one of the main staple food in China. The performance of rice sector in production and yield had been very impressive in the last four decades. However, rice production and yield has stagnated since 1990.

  8. Rice Varietal Improvement and International Exchange of Rice Germplasm

    OpenAIRE

    Evenson, Robert E.

    1997-01-01

    Rice is the most important food grain in developing countries. Rapid population growth in developing countries during the 1950s and 1960s presented a massive challenge to rice producers. Rice production would have to be expanded at historically unprecedented rates to maintain per capita rice consumption levels. That challenge was met. Rice production expanded more rapidly than population. The challenge was met primarily by increased yields per hectare of land. This paper documents the role of...

  9. Radioisotopes and rice

    International Nuclear Information System (INIS)

    To stimulate research into problems of rice cultivation, the International Atomic Energy Agency has placed several research contracts with agricultural institutes in some of its Member States. Some of these research projects deal with problems of soil-plant relations and fertilization, and rice is one of the main crops on which studies are being made. A panel of experts convened by the Agency met in Vienna in May this year to discuss some of the outstanding problems in the uses of radioisotopes in soil-plant relations and fertilization studies, and problems concerning rice were among the principal subjects considered. In a paper presented at the panel meeting. Professor S. Mitsui, of the University of Tokyo, reviewed some of the main uses of radioisotopes in studying problems of rice soils and rice cultivation and suggested several specific topics in this field which could be investigated by isotope techniques

  10. A Bayesian Approach for Discriminating Among Alternative Inheritance Hypotheses in Plant Polyploids: The Allotetraploid Origin of Genus Borderea (Dioscoreaceae)

    OpenAIRE

    CATALÁN, PILAR; Segarra-Moragues, José Gabriel; Palop-Esteban, Marisa; Moreno, Carlos; González-Candelas, Fernando

    2006-01-01

    Polyploidy is a common phenomenon occurring in a vast number of land plants. Investigations of patterns of inheritance and the origins of plants (i.e., autopolyploidy vs. allopolyploidy) usually involve cytogenetic and molecular studies of chromosome pairing, chromosome mapping, and marker segregation analysis through experimental crosses and progeny tests. Such studies are missing for most wild species, for which artificial crosses are difficult, not feasible, or unaffordable. We report here...

  11. Orthology between genomes of Brachypodium, wheat and rice

    Directory of Open Access Journals (Sweden)

    Balyan Harindra S

    2009-05-01

    Full Text Available Abstract Background In the past, rice genome served as a good model for studies involving comparative genomics of grass species. More recently, however, Brachypodium distachyon genome has emerged as a better model system for genomes of temperate cereals including wheat. During the present study, Brachypodium EST contigs were utilized to resolve orthologous relationships among the genomes of Brachypodium, wheat and rice. Findings Comparative sequence analysis of 3,818 Brachypodium EST (bEST contigs and 3,792 physically mapped wheat EST (wEST contigs revealed that as many as 449 bEST contigs were orthologous to 1,154 wEST loci that were bin-mapped on all the 21 wheat chromosomes. Similarly 743 bEST contigs were orthologous to specific rice genome sequences distributed on all the 12 rice chromosomes. As many as 183 bEST contigs were orthologous to both wheat and rice genome sequences, which harbored as many as 17 SSRs conserved across the three species. Primers developed for 12 of these 17 conserved SSRs were used for a wet-lab experiment, which resolved relatively high level of conservation among the genomes of Brachypodium, wheat and rice. Conclusion The present study confirmed that Brachypodium is a better model than rice for analysis of the genomes of temperate cereals like wheat and barley. The whole genome sequence of Brachypodium, which should become available in the near future, will further facilitate greatly the studies involving comparative genomics of cereals.

  12. Rice Germplasm Resources in China

    Institute of Scientific and Technical Information of China (English)

    YINGCunshan

    1994-01-01

    China is one of the origin countries in Asia of cultiv ated rice (O. sativaL.), and rice is one of the aged-long food crops in the country. The results of the 14C evaluation on the carbonified rice grains unearthed from Hemudu in Yuyao County and Luojiajiao in Tongxiang County of Zhejiang Province indicated that rice in these area has been planted more than 7,000 yrs and indica (hsien) and japonica (keng) rices coexisted with each other.

  13. A Century of Rice Innovations

    OpenAIRE

    Halos, Saturnina C.

    2005-01-01

    Rice innovations are technologies and practices extensively adopted so as to change production practices and productivity. This paper documents the changes in rice productivity, policy and institutions in the last 100 years and identifies the technological change that may have affected rice productivity. One hundred years has totally changed rice production practices and improved productivity. Technical innovations that helped improved rice productivity include irrigation, pest management not...

  14. Transfer to rice

    International Nuclear Information System (INIS)

    One of the critical foods for the intake of radionuclides by humans is rice (Oryza sativa L.), which is the dominant staple food crop in humid tropical and sub-tropical countries across the globe. Cultivation methods have important effects on plant uptake of radionuclides from soil. Most rice is produced under flooded conditions, i.e. in fields with a water layer of 5-15 cm deep on soil. This is unlike the situation in unsaturated fields where the soil conditions are significantly different, meaning that the soil-to-rice transfer factors (Fvs) need to be discussed separately from Fv values of other cereals grown under unsaturated field conditions. In this section, rice refers to the crop grown on wet paddy fields; since water management is the dominant method for rice cultivation this is the most common type. Rice Fv values were collected from papers in international journals, books and proceedings with peer reviewing processes and Fv values based on dry weight rice grain were summarized here. Fv data for fallout isotopes (e.g. 90Sr and 137Cs), neutron activation products (e.g. 54Mn, 60Co, etc.) or naturally existing radionluclides (e.g. 210Pb, 226Ra, 238U, etc.) and those for naturally existing stable elements under agricultural field conditions were listed. (author)

  15. Diversity of Gram negative bacteria antagonistic against major pathogens of rice from rice seed in the tropic environment

    Institute of Scientific and Technical Information of China (English)

    2003-01-01

    With the use of a seed washing technique, more than 4000 Gram negative bacteria were isolated by two improved isolation methods from 446 batches of 1 kg rice seed samples obtained from 22 provinces in the Philippines. They were initially characterized on the basis of colony morphology and results of biochemical and pathogenicity tests. Six hundred and fifty-two strains were further identified by Biolog, from which 133 were selected for fatty acid methyl ester (FAME) analysis together with 80 standard reference!strains. Sixteen species or types of Pseudomonas and 17 genera of non-pseudomonads were identified, more than one third of which have not been recorded in rice. The most predominant species observed were P. putida and P. fulva. About 17% of the strains of Pseudomonas and 2% of the non-pseudomonads were antagonistic to one or more fungal or bacterial pathogens of rice. Rice seed is an important source of biological control agents.

  16. Studies on the efficacy of herbicides in rice cultures

    International Nuclear Information System (INIS)

    Echinochloa species are commonly found in the rice growing areas of Hungary. Preemrgent herbicides, including thiobencarb, are used more frequently for the control of these weeds. Laboratory experiments were conducted to study the release of thiobencarb from two controlled-release (CR) formulations, and field experiments were conducted to compare the efficacy of several herbicides in the control of weeds and on the growth of rice plants and grain yield in direct seeded as well as transplanted rice. The CR formulations included two corn cob formulations and an alginate formulation. Field experiments were carried out to test the efficacy of a number of herbicides in direct seeded rice. These included CRA and a commercial formulation (SaturnR) of thiobencarb, Stomp 330E formulation of pendimetalin and Molinate 10G. Similarly, the efficacy of CRA and Molinate at 1.5 and 3.0 kg.ha was compared in transplanted rice. In the laboratory tests the release of thiobencarb was faster from TA1 formulation than from TA2. In the field experiments with direct seeded rice Stomp 330E at 1.65 kg/ha was more effective in the control of Echinochloa species than the other herbicides; whereas, the commercial formulation of thiobencarb was somewhat better than the CRA formulation. However, yield of rice grain and total rice biomass was the highest with Molinate used at 5 kg/ha. Grain yield with the CRA formulation was better than with the commercial thiobencarb formulation. Total rice biomass wit the two thiobencarb was the same. When the effect of thiobencarb CRA formulation was compared with that of Molinate in transplanted rice, the rice grain yield for the two herbicides was the same at 1.5 kg/ha, and both treatments resulted in an increased of about 50% rice grain as compared with the control plots. However, when the herbicide rate was increased to 3.0 kg/ha rate, the yield increase was 45% for Molinate and 40% for the CRA formulation. Similar results were obtained with the total rice

  17. The Rice Mitochondria Proteome and its Response During Development and to the Environment

    Directory of Open Access Journals (Sweden)

    Shaobai eHuang

    2013-02-01

    Full Text Available Rice (Oryza sativa L. is both a major crop species and the key model grass for molecular and physiological research. Mitochondria are important in rice, as in all crops, as the main source of ATP for cell maintenance and growth. However, the practical significance of understanding the function of mitochondria in rice is increased by the widespread farming practice of using hybrids to boost rice production. This relies on cytoplasmic male-sterile (CMS lines with abortive pollen caused by dysfunctional mitochondria. We provide an overview of what is known about the mitochondrial proteome of rice seedlings. To date, more than 320 proteins have been identified in purified rice mitochondria using mass spectrometry. The insights from this work include a broad understanding of the major subunits of mitochondrial respiratory complexes and TCA cycle enzymes, carbon and nitrogen metabolism enzymes as well as details of the supporting machinery for biogenesis and the subset of stress-responsive mitochondrial proteins. Many proteins with unknown functions have also been found in rice mitochondria. Proteomic analysis has also revealed the features of rice mitochondrial protein presequences required for mitochondrial targeting, as well as cleavage site features for processing of precursors after import. Changes in the abundance of rice mitochondrial proteins in response to different stresses, especially anoxia and light, are summarized. Future research on quantitative analysis of the rice mitochondrial proteomes at the spatial and developmental level, its response to environmental stresses and recent advances in understanding of basis of rice CMS systems are highlighted.

  18. Advances in Mapping Loci Conferring Resistance to Rice Sheath Blight and Mining Rhizoctonia solani Resistant Resources

    Institute of Scientific and Technical Information of China (English)

    ZENG Yu-xiang; JI Zhi-juan; MA Liang-yong; LI Xi-ming; YANG Chang-deng

    2011-01-01

    Sheath blight (SB) caused by Rhizoctonia solani is one of the three major diseases of rice,and now has become the most severe disease causing rice yield loss in China.Breeding and use of varieties resistant to SB is crucial in controlling the disease,but the advances achieved have been limited due to the lack of highly SB-resistant rice germplasm.Genetic analysis revealed that the SB resistance in rice was a typical quantitative trait controlled by multi-genes.Although many QTLs conferring resistance to SB have been identified in recent years,most of the QTLs only showed small effects and few of them have been evaluated for utilization potential.Many R.solani-resistant resources have been found in wild rice species,microorganisms and other plant species.It is already known that the SB-resistance could be improved in transgenic rice plants by genetic transformation.This paper reviewed the genetic mapping of loci associated with resistance to rice SB,the evaluation of the potential of resistance QTLs,and the resistant resources found in various organisms besides rice.To develop SB-resistant rice varieties,it is important to develop and explore new resistant rice germplasms,fine map and evaluate resistance QTLs,and also to pay attention to various bio-resources showing resistance to R.solani.

  19. Can rice field channels contribute to biodiversity conservation in Southern Brazilian wetlands?

    Science.gov (United States)

    Maltchik, Leonardo; Rolon, Ana Silvia; Stenert, Cristina; Machado, Iberê Farina; Rocha, Odete

    2011-12-01

    Conservation of species in agroecosystems has attracted attention. Irrigation channels can improve habitats and offer conditions for freshwater species conservation. Two questions from biodiversity conservation point of view are: 1) Can the irrigated channels maintain a rich diversity of macrophytes, macroinvertebrates and amphibians over the cultivation cycle? 2) Do richness, abundance and composition of aquatic species change over the rice cultivation cycle? For this, a set of four rice field channels was randomly selected in Southern Brazilian wetlands. In each channel, six sample collection events were carried out over the rice cultivation cycle (June 2005 to June 2006). A total of 160 taxa were identified in irrigated channels, including 59 macrophyte species, 91 taxa of macroinvertebrate and 10 amphibian species. The richness and abundance of macrophytes, macroinvertebrates and amphibians did not change significantly over the rice cultivation cycle. However, the species composition of these groups in the irrigation channels varied between uncultivated and cultivated periods. Our results showed that the species diversity found in the irrigation channels, together with the permanence of water enables these man-made aquatic networks to function as important systems that can contribute to the conservation of biodiversity in regions where the wetlands were converted into rice fields. The conservation of the species in agriculture, such as rice field channels, may be an important alternative for biodiversity conservation in Southern Brazil, where more than 90% of wetland systems have already been lost and the remaining ones are still at high risk due to the expansion of rice production.

  20. Can rice field channels contribute to biodiversity conservation in Southern Brazilian wetlands?

    Science.gov (United States)

    Maltchik, Leonardo; Rolon, Ana Silvia; Stenert, Cristina; Machado, Iberê Farina; Rocha, Odete

    2011-12-01

    Conservation of species in agroecosystems has attracted attention. Irrigation channels can improve habitats and offer conditions for freshwater species conservation. Two questions from biodiversity conservation point of view are: 1) Can the irrigated channels maintain a rich diversity of macrophytes, macroinvertebrates and amphibians over the cultivation cycle? 2) Do richness, abundance and composition of aquatic species change over the rice cultivation cycle? For this, a set of four rice field channels was randomly selected in Southern Brazilian wetlands. In each channel, six sample collection events were carried out over the rice cultivation cycle (June 2005 to June 2006). A total of 160 taxa were identified in irrigated channels, including 59 macrophyte species, 91 taxa of macroinvertebrate and 10 amphibian species. The richness and abundance of macrophytes, macroinvertebrates and amphibians did not change significantly over the rice cultivation cycle. However, the species composition of these groups in the irrigation channels varied between uncultivated and cultivated periods. Our results showed that the species diversity found in the irrigation channels, together with the permanence of water enables these man-made aquatic networks to function as important systems that can contribute to the conservation of biodiversity in regions where the wetlands were converted into rice fields. The conservation of the species in agriculture, such as rice field channels, may be an important alternative for biodiversity conservation in Southern Brazil, where more than 90% of wetland systems have already been lost and the remaining ones are still at high risk due to the expansion of rice production. PMID:22208101

  1. Candida septic arthritis with rice body formation: A case report and review of literature

    Energy Technology Data Exchange (ETDEWEB)

    Jeong, Yu Mi; Cho, Hyun Yee; Lee, Sheen Woo; Hwang, Yun Mi; Kim, Young Kyu [Gachon University, Gil Hospital, Incheon (Korea, Republic of)

    2013-06-15

    Rice body formation in a joint or bursa is a rare condition, and is usually associated with rheumatoid arthritis or tuberculous arthritis. Here we describe a case of multiple rice body formation in a shoulder joint and in adjacent bursae, which was confirmed to be due to septic arthritis by Candida species. To the best of our knowledge, rice body formation in Candida septic arthritis in an immune-competent patient has not been previously reported.

  2. Glutinous Rice in Pineapple

    Institute of Scientific and Technical Information of China (English)

    1998-01-01

    Ingredients: 50 grams glutinous rice, one pineapple, 20 grams dried fruits (raisins, walnuts. Chinese wolfberry, Chinese dates, lotus seeds, lily petals, kidney beans and peanuts) Seasonings: 5 grams rock sugar, 5 grams salad oil. Method:

  3. Construction of a Rice Glvcosvltransferase Phylogenomic Data base and Identification of Rice-Diverged Glvcosvltransferases

    Institute of Scientific and Technical Information of China (English)

    Pei-Jian Cao; Laura E.Bartley; Ki-Hong Jung; Pamela C.Ronald

    2008-01-01

    GlycosyItransferases(GTs;Ec 2.4.x.y)constitute a large group of enzymes that form glycosidic bonds through transfer of sugars from activated donor molecules to acceptor molecules.GTs are critical to the biosynthesis of plant cell walls,among other diverse functions.Based on the Carbohydrate-Active enZymes(CAZy)database and sequence similarity searches,we have identified 609 potentiaI GT genes(loci)corresponding to 769 transcripts(gene models)in rice (Oryza sativa),the reference monocotyledonous species.Using domain composition and sequence similarity,these rice GTs were classified into 40 CAZy families plus an additionaI unknown class.We found that two Pfam domains of unknown function,PF04577 and PF04646,are associated with GT families GT61 and GT31,respectively.To facilitate functional analysis of this important and large gene family,we created a phylogenomic Rice GT Database(http://ricephylogenomics.ucdavis.edu/cellwalls/gt/).Through the database.severaI classes of functionaI genomic data,including mutant lines and gene expression data,can be displayed for each rice GT in the context of a phylogenetic tree,allowing for comparative analysis both within and between GT families.Comprehensive digital expression analysis of public gene expression data revealed that most(~80%)rice GTs are expressed.Based on analysis with Inparanoid,we identified 282'rice-diverged'GTs that lack orthologs in sequenced dicots(Arabidopsis thaliana,Populus tricocarpa,Medicago truncatula.and Ricinus communis).Combining these analyses,we identified 33 rice-diverged GT genes(45 gene models)that are highly expressed in above-ground,vegetative tissues.From the literature and this analysis,21 of these Ioci are excellent targets for functional examination toward understanding and manipuIating grass cell wall qualities.Study of the remainder may reveal aspects of hormone and protein metabolism that are critical for rice biology.This list of 33 genes and the Rice GT Database will facilitate the

  4. The Stay-Green Rice like (SGRL) gene regulates chlorophyll degradation in rice.

    Science.gov (United States)

    Rong, Hong; Tang, Yongyan; Zhang, Hua; Wu, Pingzhi; Chen, Yaping; Li, Meiru; Wu, Guojiang; Jiang, Huawu

    2013-10-15

    The Stay-Green Rice (SGR) protein is encoded by the SGR gene and has been shown to affect chlorophyll (Chl) degradation during natural and dark-induced leaf senescence. An SGR homologue, SGR-like (SGRL), has been detected in many plant species. We show that SGRL is primarily expressed in green tissues, and is significantly downregulated in rice leaves undergoing natural and dark-induced senescence. As the light intensity increases during the natural photoperiod, the intensity of SGRL expression declines while that of SGR expression increases. Overexpression of SGRL reduces the levels of Chl and Chl-binding proteins in leaves, and accelerates their degradation in dark-induced senescence leaves in rice. Our results suggest that the SGRL protein is also involved in Chl degradation. The relationship between SGRL and SGR and their effects on the degradation of the light-harvesting Chl a/b-binding protein are also discussed.

  5. Comparative Proteomic Analysis of Rice Shoots Exposed to High Arsenate

    Institute of Scientific and Technical Information of China (English)

    Yanli Liu; Ming Li; Chao Han; Fengxia Wu; Bingkun Tu; Pingfang Yang

    2013-01-01

    Consumption of arsenic contaminated water and cereals is a serious threat to humans all over the world. Rice (Oryza sativa“Nipponbare”), as a main cereal crop, can accumulate arsenic more than 10-fold that of in other cereals. To gain a comprehensive understanding of the response of rice subjected to 100 mM arsenate stress, a comparative proteomic analysis of rice shoots in combination with morphological and biochemical investigations have been performed in this study. The results demonstrated that arsenate suppressed the growth of rice seedlings, destroyed the cellular ultra-structure and changed the homeostasis of reactive oxygen species. Moreover, a total of 38 differentially displayed proteins, which were mainly involved in metabolism, redox and protein-metabolism, were identified. The data suggest the arsenic can inhibit rice growth through negatively affecting chloroplast structure and photosynthesis. In addition, upregulation of the proteins involved in redox and protein metabolism might help the rice to be resistant or tolerant to arsenic toxicity. In general, this study improves our understanding about the rice arsenic responsive mechanism.

  6. The Power of Inbreeding: NGS-Based GWAS of Rice Reveals Convergent Evolution during Rice Domestication.

    Science.gov (United States)

    Wang, Hongru; Xu, Xun; Vieira, Filipe Garrett; Xiao, Yunhua; Li, Zhikang; Wang, Jun; Nielsen, Rasmus; Chu, Chengcai

    2016-07-01

    Low-coverage whole-genome sequencing is an effective strategy for genome-wide association studies in humans, due to the availability of large reference panels for genotype imputation. However, it is unclear whether this strategy can be utilized in other species without reference panels. Using simulations, we show that this approach is even more relevant in inbred species such as rice (Oryza sativa L.), which are effectively haploid, allowing easy haplotype construction and imputation-based genotype calling, even without the availability of large reference panels. We sequenced 203 rice varieties with well-characterized phenotypes from the United States Department of Agriculture Rice Mini-Core Collection at an average depth of 1.5× and used the data for mapping three traits. For the first two traits, amylose content and seed length, our approach leads to direct identification of the previously identified causal SNPs in the major-effect loci. For the third trait, pericarp color, an important trait underwent selection during domestication, we identified a new major-effect locus. Although known loci can explain color variation in the varieties of two main subspecies of Asian domesticated rice, japonica and indica, the new locus identified is unique to another domesticated rice subgroup, aus, and together with existing loci, can fully explain the major variation in pericarp color in aus. Our discovery of a unique genetic basis of white pericarp in aus provides an example of convergent evolution during rice domestication and suggests that aus may have a domestication history independent of japonica and indica.

  7. The Power of Inbreeding: NGS-Based GWAS of Rice Reveals Convergent Evolution during Rice Domestication.

    Science.gov (United States)

    Wang, Hongru; Xu, Xun; Vieira, Filipe Garrett; Xiao, Yunhua; Li, Zhikang; Wang, Jun; Nielsen, Rasmus; Chu, Chengcai

    2016-07-01

    Low-coverage whole-genome sequencing is an effective strategy for genome-wide association studies in humans, due to the availability of large reference panels for genotype imputation. However, it is unclear whether this strategy can be utilized in other species without reference panels. Using simulations, we show that this approach is even more relevant in inbred species such as rice (Oryza sativa L.), which are effectively haploid, allowing easy haplotype construction and imputation-based genotype calling, even without the availability of large reference panels. We sequenced 203 rice varieties with well-characterized phenotypes from the United States Department of Agriculture Rice Mini-Core Collection at an average depth of 1.5× and used the data for mapping three traits. For the first two traits, amylose content and seed length, our approach leads to direct identification of the previously identified causal SNPs in the major-effect loci. For the third trait, pericarp color, an important trait underwent selection during domestication, we identified a new major-effect locus. Although known loci can explain color variation in the varieties of two main subspecies of Asian domesticated rice, japonica and indica, the new locus identified is unique to another domesticated rice subgroup, aus, and together with existing loci, can fully explain the major variation in pericarp color in aus. Our discovery of a unique genetic basis of white pericarp in aus provides an example of convergent evolution during rice domestication and suggests that aus may have a domestication history independent of japonica and indica. PMID:27179918

  8. Genomic patterns of nucleotide diversity in divergent populations of U.S. weedy rice

    Directory of Open Access Journals (Sweden)

    Olsen Kenneth M

    2010-06-01

    Full Text Available Abstract Background Weedy rice (red rice, a conspecific weed of cultivated rice (Oryza sativa L., is a significant problem throughout the world and an emerging threat in regions where it was previously absent. Despite belonging to the same species complex as domesticated rice and its wild relatives, the evolutionary origins of weedy rice remain unclear. We use genome-wide patterns of single nucleotide polymorphism (SNP variation in a broad geographic sample of weedy, domesticated, and wild Oryza samples to infer the origin and demographic processes influencing U.S. weedy rice evolution. Results We find greater population structure than has been previously reported for U.S. weedy rice, and that the multiple, genetically divergent populations have separate origins. The two main U.S. weedy rice populations share genetic backgrounds with cultivated O. sativa varietal groups not grown commercially in the U.S., suggesting weed origins from domesticated ancestors. Hybridization between weedy groups and between weedy rice and local crops has also led to the evolution of distinct U.S. weedy rice populations. Demographic simulations indicate differences among the main weedy groups in the impact of bottlenecks on their establishment in the U.S., and in the timing of divergence from their cultivated relatives. Conclusions Unlike prior research, we did not find unambiguous evidence for U.S. weedy rice originating via hybridization between cultivated and wild Oryza species. Our results demonstrate the potential for weedy life-histories to evolve directly from within domesticated lineages. The diverse origins of U.S. weedy rice populations demonstrate the multiplicity of evolutionary forces that can influence the emergence of weeds from a single species complex.

  9. Structure, Function, and Evolution of Rice Centromeres

    Energy Technology Data Exchange (ETDEWEB)

    Jiang, Jiming

    2010-02-04

    The centromere is the most characteristic landmark of eukaryotic chromosomes. Centromeres function as the site for kinetochore assembly and spindle attachment, allowing for the faithful pairing and segregation of sister chromatids during cell division. Characterization of centromeric DNA is not only essential to understand the structure and organization of plant genomes, but it is also a critical step in the development of plant artificial chromosomes. The centromeres of most model eukaryotic species, consist predominantly of long arrays of satellite DNA. Determining the precise DNA boundary of a centromere has proven to be a difficult task in multicellular eukaryotes. We have successfully cloned and sequenced the centromere of rice chromosome 8 (Cen8), representing the first fully sequenced centromere from any multicellular eukaryotes. The functional core of Cen8 spans ~800 kb of DNA, which was determined by chromatin immunoprecipitation (ChIP) using an antibody against the rice centromere-specific H3 histone. We discovered 16 actively transcribed genes distributed throughout the Cen8 region. In addition to Cen8, we have characterized eight additional rice centromeres using the next generation sequencing technology. We discovered four subfamilies of the CRR retrotransposon that is highly enriched in rice centromeres. CRR elements are constitutively transcribed and different CRR subfamilies are differentially processed by RNAi. These results suggest that different CRR subfamilies may play different roles in the RNAi-mediated pathway for formation and maintenance of centromeric chromatin.

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

    Science.gov (United States)

    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.

  11. Symbiont-mediated adaptation by planthoppers and leafhoppers to resistant rice varieties

    NARCIS (Netherlands)

    Ferrater, J.B.; Jong, de P.W.; Dicke, M.; Chen, Y.H.; Horgan, F.G.

    2013-01-01

    For over 50 years, host plant resistance has been the principal focus of public research to reduce planthopper and leafhopper damage to rice in Asia. Several resistance genes have been identified from native varieties and wild rice species, and some of these have been incorporated into high-yielding

  12. EVALUATION OF BARLEY STRAW AS AN ALTERNATIVE ALGAE CONTROL METHOD IN A NORTHERN CALIFORNIA RICE FIELD

    Science.gov (United States)

    California rice fields are shallow water systems with depths usually less than 15 cm. Excessive algal growth often characterizes a significant proportion of them. Especially troublesome are species of green algae and cyanobacteria which interfere with rice growth by becoming entangled with the seed...

  13. Control of Echinochloa sp. in the Irrigated Rice Crop

    Directory of Open Access Journals (Sweden)

    Luís Eduardo Panozzo

    2014-01-01

    Full Text Available The species of Echinochloa (barnyardgrass stand out among major weeds infesting rice cropping and damages are variable depending on the weed population, rice cultivar, and management practices adopted by rice farmers. The objective of this work was to measure the control of barnyardgrass in rice cropping, cultivar Qualimax 1, due to the early times of flood irrigation, application times, and doses of penoxsulam. The experiment was conducted in the field, where the experimental design used a randomized block design with a split plot design with four replications. The treatments consisted of two application periods (early and late of penoxsulam three times of irrigation start (1, 15 and 30 days after treatment application—(DAT and herbicide doses (0, 24, 36, 48 and 60 g ha−1. The herbicide penoxsulam revealed that combined with irrigation starting 15 days after herbicide application promoted efficient control of barnyardgrass.

  14. Modeling moisture movement in rice

    Science.gov (United States)

    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...

  15. Recent Advances in Cloning and Characterization of Disease Resistance Genes in Rice

    Institute of Scientific and Technical Information of China (English)

    Liang-Ying Dai; Xiong-Lun Liu; Ying-Hui Xiao; Guo-Liang Wang

    2007-01-01

    Rice diseases caused by fungi, bacteria and viruses are one of the major constraints for sustainable rice (Oryza sativa L.) production worldwide. The use of resistant cultivars is considered the most economical and effective method to control rice diseases. In the last decade, a dozen resistance genes against the fungal pathogen Magnaporthe grisea and the bacterial pathogen Xanthomonas oryzae pv. oryzae have been cloned. Approximately half of them encode nuclear binding site (NBS) and leucine rich repeat (LRR)-containing proteins, the most common type of cloned plant resistance genes. Interestingly, four of them encode novel proteins which have not been identified in other plant species, suggesting that unique mechanisms might be involved in rice defense responses. This review summarizes the recent advances in cloning and characterization of disease resistance genes in rice and presents future perspectives for in-depth molecular analysis of the function and evolution of rice resistance genes and their interaction with avirulence genes in pathogens.

  16. Diversity of malaria in rice growing areas of the Afrotropical region.

    Science.gov (United States)

    Carnevale, P; Guillet, P; Robert, V; Fontenille, D; Doannio, J; Coosemans, M; Mouchet, J

    1999-09-01

    It is well known that 'in many instances the rice agrosystem perfectly fits the ecological requirements of pathogens or vectors' and in fact 'malaria, schistosomiasis and Japanese encephalitis are important vector-borne diseases associated with rice production in developing countries' (IRRI, 1987). In spite of these fears, rice cultivation has been on the increase in the African region in response to demographic and economic pressures. However, although rice fields provide suitable breeding places for Anopheles mosquitoes and rice cultivation leads to an increase in the biting rates, the species which are adapted to these sites are not the same in all parts of Africa. Several examples illustrate this phenomenon: An. funestus in the rice fields of Madagascar, An. pharoensis in saline water rice fields in the delta of the Senegal river, An. arabiensis in northern Cameroon and Burundi, An. gambiae Mopti form in the Kou Valley (Burkina Faso) and An. gambiae Savanna form in the rice fields of Kafine near Bouaké (Côte d'Ivoire). The vectorial capacities of these species are not the same and malaria inoculation rates are not necessarily increased in the riceland agroecosystem. The consequences for malaria of introducing rice cultivation depend on the situation before its introduction: it could be worsened in unstable malaria areas but not in stable malaria areas. Therefore, sound epidemiological and entomological knowledge are needed before causing any environmental modifications for agricultural purposes and there should be regular monitoring to avoid any outbreak.

  17. 三种稻飞虱翅型分化的遗传分析%Genetic analysis of wing-form determination in three species of rice planthoppers ( Hemiptera: Delphacidae)

    Institute of Scientific and Technical Information of China (English)

    彭娟; 张超; 安志芳; 于居龙; 刘向东

    2012-01-01

    为了明确褐飞虱Nilaparvata lugens、白背飞虱Sogatella furcifera和灰飞虱Laodelphax striatellus3种稻飞虱翅型分化的遗传规律与差异,采用翅型筛选与杂交遗传的实验方法,研究了 3种飞虱在秧苗期水稻上的翅型选择响应与杂交遗传规律.结果表明:3种稻飞虱的翅型具有较强的选择响应,并且.长翅型纯系在白背飞虱中最易筛选得到,灰飞虱的次之,而褐飞虱的最难.3种稻飞虱的长翅(M)雄虫与短翅(B)雌虫配对(M♂×B♀)筛选3~5代后,95%~ 100%的雄虫和雌虫分别稳定为长翅型和短翅型.筛选和杂交实验结果表明,褐飞虱的翅型决定基本符合常染色体上的一对等位基因调控的从性性状遗传规律,雄虫中长翅为显性,而雌虫中短翅为显性.翅型的表型还受除基因型外的其他条件的影响,利用长翅雄虫与长翅雌虫后代中出现的极少数的短翅雄虫与短翅雌虫进行配对,其后代中各翅型出现的比率与长翅雌虫和长翅雄虫配对的无显著差异;同样,在短翅雄虫与短翅雌虫配对的后代中也有相同的结果.白背飞虱和灰飞虱在该筛选条件下很少有短翅雄虫出现,两者翅型的遗传调控较为相似,可用由两对等位基因控制的性状来解释筛选和杂交实验的结果,其中一对等位基因位于性染色体上,调控雄性的翅型,且长翅为显性;另一对位于常染色体上,调控雌性的翅型,且短翅为显性.据此认为,3种飞虱翅型决定基因的显隐性在不同性别间的差异,以及翅表型与基因型的不一致性,是稻飞虱种群在不同条件下均可灵活调控翅型的重要遗传机制.%In order to clarify the inheritance of wing forms in three species of rice planthoppers including Nilaparvata lugens, Sogatella furcifera and Laodelphax striatellus, selection and cross breeding experiments were carried out using rice seedlings under the same condition (25℃ , 14L: 10D). The results

  18. Efficient indica and japonica rice identification based on the InDel molecular method: Its implication in rice breeding and evolutionary research

    Institute of Scientific and Technical Information of China (English)

    Bao-Rong Lu; Xingxing Cai; Xin Jin

    2009-01-01

    An efficient molecular method for the accurate and efficient identification of indica and japonica rice was created based on the poly-morphisms of insertion/deletion (InDel) DNA fragments obtained from the basic local alignment search tool (BLAST) to the entire genomic sequences of indica (93-11) and japonica rice (Nipponbare). The 45 InDel loci were validated experimentally by the polymerase chain reaction (PCR) and polyacrylamide gel electrophoresis (PAGE) in 44 typical indica and japonica rice varieties, including 93-11 and Nipponbare. A neutrality test of the data matrix generated from electrophoretic banding patterns of various InDel loci indicated that 34 InDel loci were strongly associated with the differentiation of indica and japonica rice. More extensive analyses involving cultivated rice varieties from 11 Asian countries, and 12 wild Oryza species with various origins confirmed that indica and japonica characteristics could accurately be determined via calculating the average frequency of indica- or japonica-specific alleles on different InDel loci across the rice genome. This method was named as the "InDel molecular index" that combines molecular and statistical methods in determining the indica and japonica characteristics of rice varieties. Compared with the traditional methods based essentially on morphology, the InDel molecular index provides a very accurate, rapid, simple, and efficient method for identifying indica and japonica rice. In addition, the InDel index can be used to determine indica or japonica characteristics of wild Oryza species, which largely extends the utility of this method. The InDel molecular index provides a new tool for the effective selection of appropriate indica or japonica rice germplasm in rice breeding. It also offers a novel model for the study of the origin, evolution, and genetic differentiation of indica and japonica rice adapted to various environmental changes.

  19. Rice Quality Improvement in China

    Institute of Scientific and Technical Information of China (English)

    2002-01-01

    @@ 1. Demand for high quality rice in China Rice is the leading cereal crop that contributes about 40% of the national grain production in China. The total output and areas rank the first and the second position in the world, respectively. In recent years, rice production grows steadily, but the quality improvement has been lagged and the quality becomes a limiting factor. As the grain supply exceeding the demand and the grain price plummeted, the State Council put forward expanding China′ s ongoing reform of the grain distribution system in 1998. Along with the foodstuff circulating system reform and market driving, the structure of rice production is adjusted,the planting acreage of early indica rice with poor quality decreased, and that of japonica rice in north China with good quality increased. With the challenge of China joining the WTO, Chinese government starts to pay premium on good quality rice.

  20. Effects of As levels on radial oxygen loss and As speciation in rice.

    Science.gov (United States)

    Wu, Chuan; Li, Hui; Ye, Zhihong; Wu, Fuyong; Wong, Ming Hung

    2013-12-01

    Greenhouse experiment was conducted to examine effects of arsenic (As) on iron plaque formation, radial oxygen loss, As accumulation, and speciation in rice. Three genotypes were grown in soil with three different concentrations of As. The stress of As caused a slight increase of iron plaque formation (P>0.05) and a decrease in the rates of radial oxygen loss (ROL; Psoil As concentrations, indicating a strong environmental influence on As species in rice grain. The present study showed that elevated soil As may induce As toxicity towards rice plants, leading to the decrease of ROL; environmental factors could influence As methylation or As species transportation. Our study provided useful information on As tolerance and accumulation in rice which may contribute to reducing the health risk posed by As contamination in rice. PMID:24006158

  1. Microbial community structure in the rhizosphere of rice plants

    Directory of Open Access Journals (Sweden)

    Björn eBreidenbach

    2016-01-01

    Full Text Available The microbial community in the rhizosphere environment is critical for the health of land plants and the processing of soil organic matter. The objective of this study was to determine the extent to which rice plants shape the microbial community in rice field soil over the course of a growing season. Rice (Oryza sativa was cultivated under greenhouse conditions in rice field soil from Vercelli, Italy and the microbial community in the rhizosphere of planted soil microcosms was characterized at four plant growth stages using quantitative PCR and 16S rRNA gene pyrotag analysis and compared to that of unplanted bulk soil. The abundances of 16S rRNA genes in the rice rhizosphere were on average twice that of unplanted bulk soil, indicating a stimulation of microbial growth in the rhizosphere. Soil environment type (i.e. rhizosphere versus bulk soil had a greater effect on the community structure than did time (e.g. plant growth stage. Numerous phyla were affected by the presence of rice plants, but the strongest effects were observed for Gemmatimonadetes, Proteobacteria and Verrucomicrobia. With respect to functional groups of microorganisms, potential iron reducers (e.g. Geobacter, Anaeromyxobacter and fermenters (e.g. Clostridiaceae, Opitutaceae were notably enriched in the rhizosphere environment. A Herbaspirillum species was always more abundant in the rhizosphere than bulk soil and was enriched in the rhizosphere during the early stage of plant growth.

  2. [Genome-wide analysis and functional prediction of the Trihelix transcription factor family in rice].

    Science.gov (United States)

    Jianhui, Ji; Yingjun, Zhou; Hehe, Wu; Liming, Yang

    2015-12-01

    The Trihelix transcription factor family plays an essential role in plant growth, development and stress response. However, the studies about identification and analysis of this gene family in rice on the genome-wide level have not been reported. In this study, 31 members of the Trihelix family, which contain highly conserved and characteristic trihelix domain through sequence clustering and functional domains analysis, were identified in rice genome database using bioinformatic tools. These members could be classified into 5 subfamilies (I~V) based on the evolutionary relationship and domain characteristics. Clustering analyses of the Trihelix family in rice, Arabidopsis, Brachypodium distachyom and Sorghum bicolor showed that each species contained different members of subfamily although the classification of the Trihelix family were consistent in these four species, which indicated that the differentiation of the Trihelix gene family occur earlier than that of these species. The conserved motifs in the Trihelix family of rice analyzed using the MEME program were highly consistent with the results of clustering analyses. Intraspecific and interspecific chromosomal replication in partial Trihelix family members were found to exist in rice and between rice and other species through chromosome replication analysis. Microarray data analysis revealed diverse expression patterns of Trihelix family genes in different tissues of rice or in response to six different phytohormones. Moreover, 20 members of the Trihelix transcription factor family were found to interact with other proteins in rice using RiceFRIEND online database analysis. Therefore, our results preliminarily identified the evolution, chromosome distribution and replication, expression patterns, phytohormones response of the Trihelix transcription factor family and the interaction between trihelix family proteins and other proteins in rice, which will provide a basis to further reveal the molecular evolution

  3. Workshop on hybrid rice

    Institute of Scientific and Technical Information of China (English)

    TANZhijun

    1994-01-01

    FAO, in collaboration with FEDEARROZ in Colombia and EMBRAPA / CNPAF in Brail, organized a workshop on the Establishment of a Coorperative Research Network on Hybrid Rice in Latin America and the Caribbean held from Mar 16 to 18, 1994 at EMBRAPA/CNPAF in Brazil. Dr MAO Changxiang,

  4. Glutinous Rice Cakes

    Institute of Scientific and Technical Information of China (English)

    1997-01-01

    CELEBRATING Spring Festival includes making glutinous rice cakes, or niangao in Chinese. Traditional and new methods of making niangao vary in taste according to different areas. No matter poor or rich. niangao is a must for every family during Spring Festival as it symbolizes auspiciousness. In Beijing, both northern and southernstyle niangao are available. After the Beginning of Autumn (13th solar term), the

  5. BASIS RISK FOR RICE

    OpenAIRE

    Lord, Yoshie Saito; Turner, Steven C.

    1998-01-01

    The objective of this paper is to develop a cross hedging model for rice that minimizes basis risk and accounts for the existence of the nonstationary nature of basis. Basis is treated as an endogenous variable and model for basis risk are developed.

  6. Rice: chemistry and technology.

    Science.gov (United States)

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

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

    Science.gov (United States)

    2010-01-01

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

  8. Study on red rice%赤米考

    Institute of Scientific and Technical Information of China (English)

    俞为洁

    2005-01-01

    'The red rice grain' recorded in the Chinese ancient books is neither a kind of good rice variety nor old rice grain or rotten rice grain, they are some rice varieties which have red-color grains and poor taste.

  9. Unravelling the proteomic profile of rice meiocytes during early meiosis

    Science.gov (United States)

    Collado-Romero, Melania; Alós, Enriqueta; Prieto, Pilar

    2014-01-01

    Transfer of genetic traits from wild or related species into cultivated rice is nowadays an important aim in rice breeding. Breeders use genetic crosses to introduce desirable genes from exotic germplasms into cultivated rice varieties. However, in many hybrids there is only a low level of pairing (if existing) and recombination at early meiosis between cultivated rice and wild relative chromosomes. With the objective of getting deeper into the knowledge of the proteins involved in early meiosis, when chromosomes associate correctly in pairs and recombine, the proteome of isolated rice meiocytes has been characterized by nLC-MS/MS at every stage of early meiosis (prophase I). Up to 1316 different proteins have been identified in rice isolated meiocytes in early meiosis, being 422 exclusively identified in early prophase I (leptotene, zygotene, or pachytene). The classification of proteins in functional groups showed that 167 were related to chromatin structure and remodeling, nucleic acid binding, cell-cycle regulation, and cytoskeleton. Moreover, the putative roles of 16 proteins which have not been previously associated to meiosis or were not identified in rice before, are also discussed namely: seven proteins involved in chromosome structure and remodeling, five regulatory proteins [such as SKP1 (OSK), a putative CDK2 like effector], a protein with RNA recognition motifs, a neddylation-related protein, and two microtubule-related proteins. Revealing the proteins involved in early meiotic processes could provide a valuable tool kit to manipulate chromosome associations during meiosis in rice breeding programs. The data have been deposited to the ProteomeXchange with the PXD001058 identifier. PMID:25104955

  10. Evidence and evolutionary analysis of ancient whole-genome duplication in barley predating the divergence from rice

    Directory of Open Access Journals (Sweden)

    Grosse Ivo

    2009-08-01

    Full Text Available Abstract Background Well preserved genomic colinearity among agronomically important grass species such as rice, maize, Sorghum, wheat and barley provides access to whole-genome structure information even in species lacking a reference genome sequence. We investigated footprints of whole-genome duplication (WGD in barley that shaped the cereal ancestor genome by analyzing shared synteny with rice using a ~2000 gene-based barley genetic map and the rice genome reference sequence. Results Based on a recent annotation of the rice genome, we reviewed the WGD in rice and identified 24 pairs of duplicated genomic segments involving 70% of the rice genome. Using 968 putative orthologous gene pairs, synteny covered 89% of the barley genetic map and 63% of the rice genome. We found strong evidence for seven shared segmental genome duplications, corresponding to more than 50% of the segmental genome duplications previously determined in rice. Analysis of synonymous substitution rates (Ks suggested that shared duplications originated before the divergence of these two species. While major genome rearrangements affected the ancestral genome of both species, small paracentric inversions were found to be species specific. Conclusion We provide a thorough analysis of comparative genome evolution between barley and rice. A barley genetic map of approximately 2000 non-redundant EST sequences provided sufficient density to allow a detailed view of shared synteny with the rice genome. Using an indirect approach that included the localization of WGD-derived duplicated genome segments in the rice genome, we determined the current extent of shared WGD-derived genome duplications that occurred prior to species divergence.

  11. Development of Gene-Based SSR Markers in Rice Bean (Vigna umbellata L.) Based on Transcriptome Data

    OpenAIRE

    Honglin Chen; Xin Chen; Jing Tian; Yong Yang; Zhenxing Liu; Xiyu Hao; Lixia Wang; Suhua Wang; Jie Liang; Liya Zhang; Fengxiang Yin; Xuzhen Cheng

    2016-01-01

    Rice bean (Vigna umbellata (Thunb.) Ohwi & Ohashi) is a warm season annual legume mainly grown in East Asia. Only scarce genomic resources are currently available for this legume crop species and no simple sequence repeat (SSR) markers have been specifically developed for rice bean yet. In this study, approximately 26 million high quality cDNA sequence reads were obtained from rice bean using Illumina paired-end sequencing technology and assembled into 71,929 unigenes with an average length o...

  12. Geographical variation in inorganic arsenic in paddy field samples and commercial rice from the Iberian Peninsula.

    Science.gov (United States)

    Signes-Pastor, Antonio J; Carey, Manus; Carbonell-Barrachina, Angel A; Moreno-Jiménez, Eduardo; Green, Andy J; Meharg, Andrew A

    2016-07-01

    This study investigated total arsenic and arsenic speciation in rice using ion chromatography with mass spectrometric detection (IC-ICP-MS), covering the main rice-growing regions of the Iberian Peninsula in Europe. The main arsenic species found were inorganic and dimethylarsinic acid. Samples surveyed were soil, shoots and field-collected rice grain. From this information soil to plant arsenic transfer was investigated plus the distribution of arsenic in rice across the geographical regions of Spain and Portugal. Commercial polished rice was also obtained from each region and tested for arsenic speciation, showing a positive correlation with field-obtained rice grain. Commercial polished rice had the lowest i-As content in Andalucia, Murcia and Valencia while Extremadura had the highest concentrations. About 26% of commercial rice samples exceeded the permissible concentration for infant food production as governed by the European Commission. Some cadmium data is also presented, available with ICP-MS analyses, and show low concentration in rice samples. PMID:26920305

  13. Physical mapping, expression analysis and polymorphism survey of resistance gene analogues on chromosome 11 of rice

    Indian Academy of Sciences (India)

    Irfan A Ghazi; Prem S Srivastava; Vivek Dalal; Kishor Gaikwad; Ashok K Singh; Tilak R Sharma; Nagendra K Singh; Trilochan Mohapatra

    2009-06-01

    Rice is the first cereal genome with a finished sequence and a model crop that has important syntenic relationships with other cereal species. The objectives of our study were to identify resistance gene analogue (RGA) sequences from chromosome 11 of rice, understand their expression in other cereals and dicots by in silico analysis, determine their presence on other rice chromosomes, and evaluate the extent of polymorphism and actual expression in a set of rice genotypes. A total of 195 RGAs were predicted and physically localised. Of these, 91.79% expressed in rice, and 51.28% expressed in wheat, which was the highest among other cereals. Among monocots, sugarcane showed the highest (78.92%) expression, while among dicots, RGAs were maximally expressed in Arabidopsis (11.79%). Interestingly, two of the chromosome 11-specific RGAs were found to be expressing in all the organisms studied. Eighty RGAs of chromosome 11 had significant homology with chromosome 12, which was the maximum among all the rice chromosomes. Thirty-one per cent of the RGAs used in polymerase chain reaction (PCR) amplification showed polymorphism in a set of rice genotypes. Actual gene expression analysis revealed post-inoculation induction of one RGA in the rice line IRBB-4 carrying the bacterial blight resistance gene Xa-4. Our results have implications for the development of sequence-based markers and functional validation of specific RGAs in rice.

  14. Evolutionary Genomics of Weedy Rice in the USA

    Institute of Scientific and Technical Information of China (English)

    Kenneth M. Olsen; Ana L. Caicedo; Yulin Jia

    2007-01-01

    Red rice is an interfertile, weedy form of cultivated rice (Oryza sativa L.) that competes aggressively with the crop in the southern US, reducing yields and contaminating harvests. No wild Oryza species occur in North America and the weed has been proposed to have evolved through multiple mechanisms, including "de-domestication" of US crop cultivars, accidental introduction of Asian weeds, and hybridization between US crops and Asian wild/weedy Oryza strains. The phenotype of US red rice ranges from "crop mimics", which share some domestication traits with the crop, to strains closely resembling Asian wild Oryza species. Assessments of genetic diversity have indicated that many weed strains are closely related to Asian taxa (including indica and aus rice varieties, which have never been cultivated in the US, and the Asian crop progenitor O. rufipogon), whereas others show genetic similarity to the tropical japonlca varieties cultivated in the southern US. Herein, we review what is known about the evolutionary origins and genetic diversity of US red rice and describe an ongoing research project to further characterize the evolutionary genomics of this aggressive weed.

  15. Survey of Recent Innovations in Aromatic Rice

    OpenAIRE

    Napasintuwong, Orachos

    2012-01-01

    This paper provides situations of aromatic rice demand, and international standards. The history and recent developments of traditional and evolved aromatic rice varieties, namely Basmati rice and Jasmine rice, are reviewed. The emerging aromatic rice innovations from developed countries such as the U.S. and other Asian countries generate a threat to these traditional aromatic rice producers such as India, Pakistan, and Thailand. Under WTO Trade Related Aspects of Intellectual Property Rights...

  16. Study of Rice Marketing System in Iran

    OpenAIRE

    Feizabadi, Yaser

    2011-01-01

    Rice comes second after wheat in Iran`s food consumption economy. Rising population and recent growth in GDP has made Iran one of the greatest rice importer countries all over the world. That is why rice marketing has always been a controversial issue in Iran`s agricultural economics. To study rice marketing system in Iran, this paper aims to calculate rice marketing margin, market efficiency and marketing cost coefficient in seaside Mazandaran province( where 70 percent of domestic rice prod...

  17. Rice: The First Crop Genome.

    Science.gov (United States)

    Jackson, Scott A

    2016-12-01

    Rice was the first sequenced crop genome, paving the way for the sequencing of additional and more complicated crop genomes. The impact that the genome sequence made on rice genetics and breeding research was immediate, as evidence by citations and DNA marker use. The impact on other crop genomes was evident too, particularly for those within the grass family. As we celebrate 10 years since the completion of the rice genome sequence, we look forward to new empowering tool sets that will further revolutionize research in rice genetics and breeding and result in varieties that will continue to feed a growing population. PMID:27003180

  18. Nicaragua - Rice and Banana Farmers

    Data.gov (United States)

    Millenium Challenge Corporation — This report is an impact evaluation of two components of the Rural Business Development Program (RBD) in Nicaragua, specifically the components benefitting rice and...

  19. Amended final report on the safety assessment of Oryza Sativa (rice) Bran Oil, Oryza Sativa (rice) Germ Oil, Rice Bran Acid,Oryza Sativa (rice) Bran Wax, Hydrogenated Rice Bran Wax, Oryza Sativa (rice)Bran Extract, Oryza Sativa (rice) Extract, Oryza Sativa (rice) Germ Powder, Oryza Sativa (rice) Starch, Oryza Sativa (rice) Bran, Hydrolyzed Rice Bran Extract, Hydrolyzed Rice Bran Protein, Hydrolyzed Rice Extract, and Hydrolyzed Rice Protein.

    Science.gov (United States)

    2006-01-01

    This report addresses the safety of cosmetic ingredients derived from rice, Oryza sativa. Oils, Fatty Acids, and Waxes: Rice Bran Oil functions in cosmetics as a conditioning agent--occlusive in 39 formulations across a wide range of product types. Rice Germ Oil is a skin-conditioning agent--occlusive in six formulations in only four product categories. Rice Bran Acid is described as a surfactant-cleansing agent, but was not in current use. Rice Bran Wax is a skin-conditioning agent--occlusive in eight formulations in five product categories. Industry did not directly report any use of Rice Bran Wax. Hydrogenated Rice Bran Wax is a binder, skin-conditioning agent--occlusive, and viscosity-increasing agent--nonaqueous in 11 formulations in six product categories. Rice Bran Oil had an oral LD50 of > 5 g/kg in white rats and Rice Wax had an oral LD50 of > 24 g/kg in male mice. A three-generation oral dosing study reported no toxic or teratologic effects in albino rats fed 10% Rice Bran Oil compared to a control group fed Peanut Oil. Undiluted Rice Bran Oil, Rice Germ Oil, and Hydrogenated Rice Bran Wax were not irritants in animal skin tests. Rice Bran Oil was not a sensitizer. Rice Bran Oil, Rice Germ Oil, Rice Wax, and Hydrogenated Rice Bran Wax were negative in ocular toxicity assays. A mixture of Rice Bran Oil and Rice Germ Oil had a ultraviolet (UV) absorption maximum at 315 nm, but was not phototoxic in a dermal exposure assay. Rice Bran Oil was negative in an Ames assay, and a component, gamma-oryzanol, was negative in bacterial and mammalian mutagenicity assays. Rice oils, fatty acids, and waxes were, at most, mildly irritating in clinical studies. Extracts: Rice Bran Extract is used in six formulations in four product categories. Rice Extract is a hair-conditioning agent, but was not in current use. Hydrolyzed Rice Extract is used in four formulations and current concentration of use data were provided for other uses. Hydrolyzed Rice Bran Extract, described

  20. Rice and Philippine Politics

    OpenAIRE

    Intal, Ponciano S.; Garcia, Marissa C.

    2008-01-01

    Rice has been a pivotal political commodity since the Commonwealth because of its importance as a staple food and calorie source for majority of the population, especially in the low-income groups, as well as a source of employment and income to a wide range of people that comprise the demand and supply chain. As a result, food security and price stability continue as twin priority objectives of the government regimes in the Philippines. Using a political economy perspective, this paper estab...

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

    Science.gov (United States)

    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

  2. Genome-wide patterns of nucleotide polymorphism in domesticated rice

    DEFF Research Database (Denmark)

    Caicedo, Ana L; Williamson, Scott H; Hernandez, Ryan D;

    2007-01-01

    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...

  3. [Exposure degree of important non-target arthropods to Cry2Aa in Bt rice fields].

    Science.gov (United States)

    Zhang, Qing-Ling; Li, Yun-He; Hua, Hong-Xia; Yang, Chang-Ju; Wu, Hong-Jin; Peng, Yu-Fa

    2013-06-01

    Based on the principle of "risk = hazard x exposure", the selected representative nontarget organisms in the assessment of the potential effects of insect-resistant genetically modified (GM) crops on non-target arthropods in laboratory are generally the arthropod species highly exposed to the insecticidal proteins expressed by the GM crops in farmland ecosystem. In order to understand the exposure degree of the important arthropod species to Cry proteins in Bt rice fields, and to select the appropriate non-target arthropods in the risk assessment of insect-resistant GM crops, the enzyme-linked immunosorbent assay (ELISA) was conducted to measure the Cry2Aa protein concentration in the arthropods collected from the cry2Aa rice fields at different rice growth stages. The results showed that there was a significant difference in the Cry2Aa content protein concentration in different arthropod species. Some species did not contain Cry2Aa protein, while some species contained larger amounts of Cry2Aa protein. Relative to the arthropods colleted after rice anthesis, the arthropods colleted in rice anthesis contained relative higher concentrations of Cry2Aa protein, especially for the predacious arthropods. No Cry proteins were detected in parasitic arthropods. This study provided references for the laboratory assessment of the effects of GM rice on nontarget arthropods.

  4. Phosphorus Use Efficiency by Brazilian Upland Rice Genotypes Evaluated by the 32P Dilution Technique

    International Nuclear Information System (INIS)

    The objectives of this work were to identify the most efficient upland rice genotypes in phosphorus (P) utilization, and to verify if P from the seed affects the classification of upland rice genotypes on P uptake efficiency. The experiment was conducted in a greenhouse of the Center for Nuclear Energy in Agriculture (CENA/USP), Piracicaba, Sao Paulo, Brazil, using the 32P isotope technique, and plants were grown in pots with samples of dystrophic Typic Haplustox (Oxisol). The experimental design was completely randomized with four replications. The treatments consisted of 47 upland rice genotypes and two standard plant species, efficient or inefficient in P uptake. The results were assessed through correlation and cluster analysis (multivariate). The Carisma upland rice genotype was the most efficient in P uptake, and Caripuna was the most efficient on P utilization. The P derived from seed does not influence the identification of upland rice genotypes in P uptake efficiency. (author)

  5. Characterization and Identification of Two Opportunistic Human Bacterial Pathogens in Rice

    Institute of Scientific and Technical Information of China (English)

    LUO Yuan-chan; XIE Guan-lin; ZHANG Li-xin; AN Gilmyong; FANG Yuan; LUO Jin-yan; HAO Xiao-juan; ZHAO Si-feng

    2006-01-01

    Burkholderia cepacia (Bc) and Pseudomonas aeruginosa (Pa) are both biocontrol agents in agriculture and opportunistic human pathogens in hospitals. Effective management and utilization practice is needed to understand their characteristics and distribution in rice. During the last decade, the two opportunistic human pathogens were detected in 631 samples of rice seed and 117 samples of rice plant in plain, highland and mountainous rice growing areas of China. Bc and Pa were primarily differentiated by common bacteriological characteristics and pathogenic tests and then identified into species by Biolog and FAME tests. However,the genotypes of Bc still could not be distinguished. It has been noted that the Bc and Pa mainly existed in rice root with the highest distribution frequency in plain areas ( 6.1% and 16.1%) and lowest in the mountainous areas (1.0% and 7.8%).

  6. Agrobacterium-mediated transformation: rice transformation.

    Science.gov (United States)

    Slamet-Loedin, Inez H; Chadha-Mohanty, Prabhjit; Torrizo, Lina

    2014-01-01

    Agrobacterium is a common soil bacterium with natural capacity for trans-kingdom transfer of genetic information by transferring its T-DNA into the eukaryotic genome. In agricultural plant biotechnology, combination of non-phytopathogenic strain of Agrobacterium tumefaciens with modified T-DNA and vir-genes in a binary vector system is the most widely utilized system for genetic improvement in diverse plant species and for gene function validation. Here we have described a highly efficient A. tumefaciens-mediated transformation system for indica and japonica rice cultivars based on an immature embryo system.

  7. Uptake, translocation and transformation of antimony in rice (Oryza sativa L.) seedlings.

    Science.gov (United States)

    Cai, Fei; Ren, Jinghua; Tao, Shu; Wang, Xilong

    2016-02-01

    Antimony (Sb), as a toxic metalloid, has been gaining increasing research concerns due mainly to its severe pollution in many places. Rice has been identified to be the dominant intake route of Sb by residents close to the Sb mining areas. A hydroponic experiment was conducted to investigate the difference in uptake, translocation and transformation of Sb in rice seedlings of four cultivars exposed to 0.2 or 1.0 mg/L of Sb(V). The results showed that mass concentration of iron plaque (mg/kg FW) formed at the root surfaces of cultivar N was the highest among all tested cultivars at both low and high exposure levels of Sb(V). The accumulated Sb concentration in iron plaque significantly increased with an increase in mass concentration of iron plaque formed at the rice root. The total amount of iron plaque (mg/pot) at rice root generally increased with increasing exposed Sb(V) concentration, which was closely associated with the increasing lipid peroxidation in roots. Concentration percentage of Sb in rice root significantly reduced as the corresponding value in the iron plaque increased, suggesting that iron plaque formation strongly suppressed uptake of Sb by rice root. Sb concentration in rice tissues followed an order: root > stem, leaf. The japonica rice (cultivars N and Z) exhibited a stronger translocation tendency of Sb from root to stem than indica hybrid rice (cultivars F and G). Translocation of Sb from root of cultivar F to its stem and leaf was sharply enhanced with increasing Sb exposure concentration. Sb(V) could be reduced to Sb(III) in rice tissues, especially in stems (10-26% of the total Sb). For the sake of food safety, the difference in uptake, translocation and transformation of Sb in rice species planted in Sb-contaminated soils should be taken into consideration.

  8. Localization and speciation of mercury in brown rice with implications for pan-Asian public health.

    Science.gov (United States)

    Meng, Bo; Feng, Xinbin; Qiu, Guangle; Anderson, Christopher W N; Wang, Jianxu; Zhao, Lei

    2014-07-15

    Cultivation of paddy rice for human consumption is a dominant agricultural activity throughout Asia. High levels of mercury (Hg) in rice grain pose a potential threat to human health, although the extent of risk is dependent on the chemical speciation of Hg inside the grain. We have investigated the speciation and localization of Hg in three fractions of rice grain (hull, bran, and white rice) collected from a Hg-contaminated region in China. On a mass basis, the majority of inorganic mercury (IHg) in a rice grain is found in hull and bran. However, the majority of the more toxic species methyl mercury (MeHg) is found in edible white rice. Our data show that during grain processing, most of the IHg (∼78%) is eliminated, but the majority of the MeHg remains in the food product (∼80%). Synchrotron radiation microscopic X-ray fluorescence (SR-μXRF) mapping shows strong localization of Hg at the surface of brown rice grains, corresponding to the pericarp and aleurone layer. We infer that this Hg is predominantly IHg absorbed from the atmosphere. Based on X-ray absorption near-edge spectroscopy (XANES) data we propose that IHg in bran is primarily bound to cysteine, and is associated with phytochelatins. Consequently, IHg is largely immobile and restricted to the outer layers of rice grain. MeHg in bran is primarily bound to cysteine and is associated with proteins. However, this MeHg-cysteine association behaves like a mobile nutrient and is actively transported to the endosperm during seed ripening. Concentration of MeHg-cysteine in white rice has implications for public health. There is growing evidence for Hg contamination of rice throughout Asia due to point and diffuse sources of Hg pollution. The magnitude of the associated risk must be quantified through better understanding of the localization and speciation of mercury in rice. Our work makes an effort to contribute to this understanding. PMID:24925231

  9. Genome-wide transcription analyses in rice using tiling microarrays

    DEFF Research Database (Denmark)

    Li, Lei; Wang, Xiangfeng; Stolc, Viktor;

    2006-01-01

    Sequencing and computational annotation revealed several features, including high gene numbers, unusual composition of the predicted genes and a large number of genes lacking homology to known genes, that distinguish the rice (Oryza sativa) genome from that of other fully sequenced model species....... We report here a full-genome transcription analysis of the indica rice subspecies using high-density oligonucleotide tiling microarrays. Our results provided expression data support for the existence of 35,970 (81.9%) annotated gene models and identified 5,464 unique transcribed intergenic regions...... activity between duplicated segments of the genome. Collectively, our results provide the first whole-genome transcription map useful for further understanding the rice genome. Udgivelsesdato: 2006-Jan...

  10. Hybrid Rice for Dry Regions

    Institute of Scientific and Technical Information of China (English)

    2005-01-01

    Luo Lijun, director of the Shanghai Agrobiological Gene Center, recently announced that Hanyou No. 3 - a genetically modified rice capable of producing high yields in dry areas - has been developed at the center.The hybrid yields 7,571 kilograms per hectare, about the same as ordinary rice.

  11. Structure and expression of a rice hsp70 gene

    Institute of Scientific and Technical Information of China (English)

    王群; 方荣祥

    1996-01-01

    A genomic hsp70 gene was isolated from a rice IR36 genomic library and 4 794 bp of the gene have been sequenoed. The 5’ flanking region of the gene contained a putative TATA box and a typical heat shock element sequence 5’-CTcgGAAccTTCgAG-3’. The amino acid sequence of the rice HSP70 deduced from the coding region shared 84%-92% homologies with those of HSP70s from other plant species. An intron 1939bp long was identified in the coding region at the codon specifying amino acid 72 (Asp), the similar position introns occurring in other intron-containing hsp70 genes. In addition, another intron of 57 bp was found in the 3’-untranslated region in the rice hsp70 gene. Southern blot hybridization showed that rice hsp70 gene family contained at least three members. Analysis of the RNA leveis with the gene-specific and non-specific probes revealed that the rice hsp70 gene expressed at normal temperature and the expression was enhanced by heat shock treatment.

  12. 21 CFR 137.350 - Enriched rice.

    Science.gov (United States)

    2010-04-01

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

  13. Development of hybrid rice in China

    Institute of Scientific and Technical Information of China (English)

    Yuan Longping; Wu Xiaojin

    2004-01-01

    @@ Introduction The success achieved in development of hybrid rice isa great breakthrough in rice breeding which provides aneffective way to markedly enhance rice yield on a largescale. China is the first country in the world to exploit riceheterosis commercially. Research on hybrid rice was initiatedin 1964.

  14. Effect of N level on rice yield, nitrogen accumulation and rice blast occurrence under rice intercropping system

    OpenAIRE

    Tang, Li; Lu, Guoli; Cu, Yiou; Zhang, Chaochun; Zhang, Fusuo; Zheng, Yi

    2009-01-01

    Abstract: Plant N nutrition plays an important role on plant metabolisms and crop diseases resistance. Intercropping can increase grain yields greatly and provide an ecological approach to disease control. Field trails of using two rice varieties with different resistance to rice blast, Huangkenuo (HKN) and Hexi-41(HX41), was carried out to investigate the effect of nitrogen fertilizer rate on rice yield, nitrogen accumulation and rice blast occurrence under rice mono-cropping and intercroppi...

  15. The Chinese Market and Thai Fragrant Jasmine Rice: Why does China, the world's largest rice producer, import rice from Thailand? (Japanese)

    OpenAIRE

    Miyata, Toshiyuki

    2011-01-01

    In 2008, the world experienced a sharp increase in rice prices due to destabilization of international rice demand and supply. Under these circumstances, rice exports from Thailand—the world's top rice exporter—and Thai rice export prices increased dramatically, but the amount of high-quality fragrant Jasmine rice exported to China decreased by some 30% over the previous year. This paper examines why, amidst increasing world rice prices and expansion of the Thai rice export market overall, th...

  16. Speciation and Localization of Arsenic in White and Brown Rice Grains

    Energy Technology Data Exchange (ETDEWEB)

    Meharg, Andrew A.; Lombi, Enzo; Williams, Paul N.; Scheckel, Kirk G.; Feldmann, Joerg; Raab, Andrea; Zhu, Yongguan; Islam, Rafiql (EPA); (Bangladesh); (UCopenhagen); (Aberdeen); (Chinese Aca. Sci.)

    2008-06-30

    Synchrotron-based X-ray fluorescence (S-XRF) was utilized to locate arsenic (As) in polished (white) and unpolished (brown) rice grains from the United States, China, and Bangladesh. In white rice As was generally dispersed throughout the grain, the bulk of which constitutes the endosperm. In brown rice As was found to be preferentially localized at the surface, in the region corresponding to the pericarp and aleurone layer. Copper, iron, manganese, and zinc localization followed that of arsenic in brown rice, while the location for cadmium and nickel was distinctly different, showing relatively even distribution throughout the endosperm. The localization of As in the outer grain of brown rice was confirmed by laser ablation ICP?MS. Arsenic speciation of all grains using spatially resolved X-ray absorption near edge structure (?-XANES) and bulk extraction followed by anion exchange HPLC?ICP?MS revealed the presence of mainly inorganic As and dimethylarsinic acid (DMA). However, the two techniques indicated different proportions of inorganic:organic As species. A wider survey of whole grain speciation of white (n = 39) and brown (n = 45) rice samples from numerous sources (field collected, supermarket survey, and pot trials) showed that brown rice had a higher proportion of inorganic arsenic present than white rice. Furthermore, the percentage of DMA present in the grain increased along with total grain arsenic.

  17. Rice industrial economy and its development strategy

    Institute of Scientific and Technical Information of China (English)

    Qing Xianguo

    2003-01-01

    On the basis of the analysis of the present situation of food grain and rice production in China,countering the beginning tendency to neglect rice production because of rice grain structural surplus and low market price after China's agriculture entering the new development stage,this paper putsforward the concept of rice industrial economy,explains its attribute,connotation,key factors,etc,forms the basic idea of developing the rice industrial economy,and suggests some strategic measures such as regionalized layout of rice production,etc.to develop the rice industrial economy.

  18. The Puzzle of Rice Domestication

    Institute of Scientific and Technical Information of China (English)

    Tao Sang; Song Ge

    2007-01-01

    The origin of cultivated rice has puzzled plant biologists for decades. This is due, at least in part, to the complex evolutionary dynamics in rice cultivars and wild progenitors, particularly rapid adaptive differentiation and continuous gene flow within and between cultivated and wild rice. The long-standing controversy over single versus multiple and annual versus perennial origins of cultivated rice has been brought into shaper focus with the rapid accumulation of genetic and phylogenetic data. Molecular phylogenetic analyses revealed ancient genomic differentiation between rice cultivars, suggesting that they were domesticated from divergent wild populations. However, the recently cloned domestication gene sh4, responsible for the reduction of grain shattering from wild to cultivated rice, seems to have originated only once. Herein, we propose two models to reconcile apparently conflicting evidence regarding rice domestication. The snow-balling model considers a single origin of cultivated rice. In this model, a core of critical domestication alleles was fixed in the founding cultivar and then acted to increase the genetic diversity of cultivars through hybridization with wild populations. The combination model considers multiple origins of cultivated rice. In this model, initial cultivars were domesticated from divergent wild populations and fixed different sets of domestication alleles. Subsequent crosses among these semi-domesticated cultivars resulted in the fixation of a similar set of critical domestication alleles in the contemporary cultivars. In both models, introgression has played an important role in rice domestication. Recent and future introgression of beneficial genes from the wild gene pool through conventional and molecular breeding programs can be viewed as the continuation of domestication.

  19. Analysis of Active Components and Proteomics of Chinese Wild Rice (Zizania latifolia (Griseb) Turcz) and Indica Rice (Nagina22).

    Science.gov (United States)

    Jiang, Ming-Xia; Zhai, Li-Jie; Yang, Hua; Zhai, Shu-Menghui; Zhai, Cheng-Kai

    2016-08-01

    The ancient Chinese wild rice (Zizania latifolia (Griseb) Turcz) (CWR) has valuable biological and medicinal functions. To assess the advantages lost in modern cultivated rice after domestication, we compared the composition of bioactive compounds and the results of proteomic analysis with those of Indica rice (N22). We used routine methods to determine the protein, total dietary fiber, amino acid, mineral substance, plant secondary metabolites, and amino acid composition of CWR and N22. The protein and mineral contents of CWR were two times that of N22, and the levels of calcium, potassium, magnesium, chromium, iron, and zinc were significantly higher than those of N22 (P sterols, respectively. The amino acid score of CWR was 66.6, which was significantly higher than N22. Sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE) indicated that the main seed proteins of CWR were glutelins, including both acid and alkaline subunits, which were approximately twice those of N22. To investigate the differences in protein profiles between CWR and N22, we conducted two-dimensional electrophoresis (2-DE) analysis of the total proteins in the seeds of the two rice species. 2-DE gels revealed 19 differentially expressed proteins. Information obtained from peptide mass fingerprinting indicates that glutelin precursor caffeoyl coenzyme A (CoA) O-methyltransferase and putative bithoraxoid-like protein can provide good gene sources for improving rice quality. PMID:27533651

  20. CURRENT STATUS AND POTENTIAL OF BIOTECHNOLOGICAL APPROACHES FOR RICE BLAST DISEASE IN THE RICE CULTIVATION TECHNOLOGY

    Directory of Open Access Journals (Sweden)

    Petenko A. I.

    2014-09-01

    Full Text Available Rice blast caused by Pyricularia oryzae is a major disease affecting rice production grown in upland and wetland rice. Application of biotechnological approach to protect against the disease may be an alternative strategy to chemical control

  1. CURRENT STATUS AND POTENTIAL OF BIOTECHNOLOGICAL APPROACHES FOR RICE BLAST DISEASE IN THE RICE CULTIVATION TECHNOLOGY

    OpenAIRE

    Petenko A. I.; Volkova S. A.

    2014-01-01

    Rice blast caused by Pyricularia oryzae is a major disease affecting rice production grown in upland and wetland rice. Application of biotechnological approach to protect against the disease may be an alternative strategy to chemical control

  2. Competition Reform in the Philippine Rice Sector

    OpenAIRE

    Briones, Roehlano M.; Dela Pena, Beulah

    2015-01-01

    The rice sector is regulated by the National Food Authority, with imports under a statutory monopoly. Consistent with previous studies done on the rice supply chain, a rapid appraisal finds that the domestic paddy and rice supply chain is highly competitive. Entry into import business is however severely curtailed. Welfare analysis indicates that in 2013, if quantitative restrictions were eliminated and rice imports were allowed to freely enter the country, rice imports would have increased t...

  3. Rice in the Filipino Diet and Culture

    OpenAIRE

    Filomeno V. Aguilar; Jr.,

    2005-01-01

    This paper deals with a basic question : How central is rice to the Filipino, what are its implications for understanding the way we approach and regard rice, and what do they indicate about Filipino culture? To answer this question, the paper focuses on the structural position of most Filipinos vis--vis rice. The paper argues that, at present, most Filipinos relate to rice as consumers rather than as producers of rice. From that perspective, the paper explores certain cultural practices that...

  4. Rice in the Filipino Diet and Culture

    OpenAIRE

    Filomeno V. Aguilar

    2005-01-01

    This paper deals with a basic question: How central is rice to the Filipino, what are its implications for understanding the way we approach and regard rice, and what do they indicate about Filipino culture? To answer this question, the paper focuses on the structural position of most Filipinos vis-à-vis rice. The paper argues that, at present, most Filipinos relate to rice as consumers rather than as producers of rice. From that perspective, the paper explores certain cultural practices that...

  5. Price relations between international rice markets

    OpenAIRE

    John, Adam

    2014-01-01

    International rice markets are seen as volatile due to the thin nature of the market which is believed to be exacerbated by a low level of substitution between major rice export markets. In other words, this perceived lack of price transmission amongst international rice markets is believed to further thin out an already thin world rice market. The paper tests for price transmission between five major rice exporting markets representing Asia and the Americas over the past decade. It uses a ve...

  6. Fenton process-affected transformation of roxarsone in paddy rice soils: Effects on plant growth and arsenic accumulation in rice grain.

    Science.gov (United States)

    Qin, Junhao; Li, Huashou; Lin, Chuxia

    2016-08-01

    Batch and greenhouse experiments were conducted to examine the effects of Fenton process on transformation of roxarsone in soils and its resulting impacts on the growth of and As uptake by a rice plant cultivar. The results show that addition of Fenton reagent markedly accelerated the degradation of roxarsone and produced arsenite, which was otherwise absent in the soil without added Fenton reagent. Methylation of arsenate was also enhanced by Fenton process in the earlier part of the experiment due to abundant supply of arsenate from Roxarsone degradation. Overall, addition of Fenton reagent resulted in the predominant presence of arsenate in the soils. Fenton process significantly improved the growth of rice in the maturity stage of the first crop, The concentration of methylated As species in the rice plant tissues among the different growth stages was highly variable. Addition of Fenton reagent into the soils led to reduced uptake of soil-borne As by the rice plants and this had a significant effect on reducing the accumulation of As in rice grains. The findings have implications for understanding As biogeochemistry in paddy rice field receiving rainwater-borne H2O2 and for development of mitigation strategies to reduce accumulation of As in rice grains.

  7. Deciphering Community Structure of Methanotrophs Dwelling in Rice Rhizospheres of an Indian Rice Field Using Cultivation and Cultivation-Independent Approaches.

    Science.gov (United States)

    Pandit, Pranitha S; Rahalkar, Monali C; Dhakephalkar, Prashant K; Ranade, Dilip R; Pore, Soham; Arora, Preeti; Kapse, Neelam

    2016-04-01

    Methanotrophs play a crucial role in filtering out methane from habitats, such as flooded rice fields. India has the largest area under rice cultivation in the world; however, to the best of our knowledge, methanotrophs have not been isolated and characterized from Indian rice fields. A cultivation strategy composing of a modified medium, longer incubation time, and serial dilutions in microtiter plates was used to cultivate methanotrophs from a rice rhizosphere sample from a flooded rice field in Western India. We compared the cultured members with the uncultured community as revealed by three culture-independent methods. A novel type Ia methanotroph (Sn10-6), at the rank of a genus, and a putative novel species of a type II methanotroph (Sn-Cys) were cultivated from the terminal positive dilution (10(-6)). From lower dilution (10(-4)), a strain of Methylomonas spp. was cultivated. All the three culture-independent analyses, i.e., pmoA clone library, terminal restriction fragment length polymorphism (T-RFLP), and metagenomics approach, revealed the dominance of type I methanotrophs. Only metagenomic analysis showed significant presence of type II methanotrophs, albeit in lower proportion (37 %). All the three isolates showed relevance to the methanotrophic community as depicted by uncultured methods; however, the cultivated members might not be the most dominant ones. In conclusion, a combined cultivation and cultivation-independent strategy yielded us a broader picture of the methanotrophic community from rice rhizospheres of a flooded rice field in India. PMID:26547567

  8. Differentiation of Indica-Japonica rice revealed by insertion/deletion (InDel) fragments obtained from the comparative genomic study of DNA sequences between 93-11 (Indica) and Nipponbare (Japonica)

    Institute of Scientific and Technical Information of China (English)

    CAI Xingxing; LIU Jing; QIU Yinqiu; ZHAO Wei; SONG Zhiping; LU Baorong

    2007-01-01

    DNA polymorphisms from nucleotide insertion/deletions (InDels) in genomic sequences are the basis for developing InDel molecular markers.To validate the InDel primer pairs on the basis of the comparative genomic study on DNA sequences between an Indica rice 93-11 and a Japonica rice Nipponbare for identifying Indica and Japonica rice varieties and studying wild Oryza species,we studied 49 Indica,43 Japonica,and 24 wild rice accessions collected from ten Asian countries using 45 InDel primer pairs.Results indicated that of the 45 InDel primer pairs,41 can accurately identify Indica and Japonica rice varieties with a reliability of over 80%.The scatter plotting data of the principal component analysis (PCA) indicated that:(i) the InDel primer pairs can easily distinguish Indica from Japonica rice varieties,in addition to revealing their genetic differentiation;(ii) the AA-genome wild rice species showed a relatively close genetic relationship with the Indica rice varieties;and (iii)the non-AA genome wild rice species did not show evident differentiation into the Indica and Japonica types.It is concluded from the study that most of the InDel primer pairs obtained from DNA sequences of 93-11 and Nipponbare can be used for identifying lndica and Japonica rice varieties,and for studying genetic relationships of wild rice species,particularly in terms of the Indica-Japonica differentiation.

  9. Response of rice yields in Ghana: some prescriptions for future rice policy

    OpenAIRE

    Boansi, David

    2013-01-01

    With local rice production lagging well behind demand as a result of low productivity of farmers’ fields, this study analyzed the response of rice yields in Ghana to major internal and external factors which have direct and indirect effects on production and to producers. Yield of rice was found to increase with producer price of rice, irrigated area, labor availability and world price of rice to producer price of rice ratio. It however decreases with increases in harvested area and price of ...

  10. Fipronil application on rice paddy fields reduces densities of common skimmer and scarlet skimmer

    OpenAIRE

    Atsushi Kasai; Hayashi, Takehiko I; Hitoshi Ohnishi; Kazutaka Suzuki; Daisuke Hayasaka; Koichi Goka

    2016-01-01

    Several reports suggested that rice seedling nursery-box application of some systemic insecticides (neonicotinoids and fipronil) is the cause of the decline in dragonfly species noted since the 1990s in Japan. We conducted paddy mesocosm experiments to investigate the effect of the systemic insecticides clothianidin, fipronil and chlorantraniliprole on rice paddy field biological communities. Concentrations of all insecticides in the paddy water were reduced to the limit of detection within 3...

  11. Molecular Cloning and Characterization of OsCDase, a Ceramidase Enzyme from Rice

    OpenAIRE

    Pata, Mickael O.; Wu, Bill X.; Bielawski, Jacek; Xiong, Tou Cheu; Hannun, Yusuf A.; Ng, Carl K. -Y.

    2008-01-01

    Sphingolipids are a structurally diverse group of molecules based on long-chain sphingoid bases found in animal, fungal and plant cells. In contrast to the situation in animals and yeast, we know much less about the spectrum of sphingolipid species in plants and the roles they play in mediating cellular processes. Here, we report the cloning and characterization of a plant ceramidase from rice (Oryza sativa spp. Japonica cv. Nipponbare). Sequence analysis suggests that the rice ceramidase (Os...

  12. The genetic and molecular basis of cytoplasmic male sterility and fertility restoration in rice

    Institute of Scientific and Technical Information of China (English)

    GUO JingXin; LIU YaoGuang

    2009-01-01

    Cytoplasmic male sterility (CMS) is a maternally inherited characteristic found in many (>150) plant species. CMS/restoration systems are useful tools for hybrid seed production, and are ideal models for study of the interactions between nuclear and mitochondrial genomes. CMS/restoration systems in rice have been widely used for hybrid seed production, greatly contributing to the food supply. This article reviews the progress of the studies on the genetic and molecular basis of cytoplasmic male sterility and fertility restoration in rice.

  13. Azolla as a nitrogen fertilizer in sustainable rice production

    International Nuclear Information System (INIS)

    Alternatives to the use of commercial N fertilizers must therefore be sought if we are to sustain crop production. Plant species such as Azolla which in symbiosis with the blue-green alga Anabena azollae are capable of converting atmospheric N2 into usable forms through the microbial process of biological N2 fixation. Such nitrogen fixing systems offer an attractive and ecologically sound means of reducing external inputs of chemical N fertilizers in cropping systems. Azolla is a free-floating water fern widely distributed in aquatic habitats of the tropics and sub-tropics. Because of its aquatic nature, Azolla is of particular value to flooded rice. Several methods have been used to estimate biological N2 fixation of Azolla. In a Co-ordinated Research Programme on Azolla executed by the Joint FAO/IAEA Division of Nuclear Techniques in Food and Agriculture, quantitative integrated values for biological N2 fixation by Azolla have been obtained through use of the 15N isotope. Azolla can derive as much as 70% or more of its N from N2 fixation, yielding 22-24 kg N/ha in about one month. Differences however in N2 fixation are common depending on the Azolla species or strain and the environmental conditions. In this research programme, we also used 15N as a tracer to assess the N recovery by rice from Azolla and N balance in the rice cropping system. Incorporation of 15N labelled Azolla into soil gave an 15N recovery by rice of 40-50%. On an overall basis under a wide range of environmental conditions in six countries, the percentage 15N recovery by rice as well as the rice yield increases from Azolla application were similar to those obtained from urea. The general conclusion from this programme is that Azolla is as good as urea as a source of N for rice. There is no more important crop in the world today than rice. It occupies 90% of the area under cereals in the Asia and Pacific region. Research aimed at developing improved integrated fertilizer management practices

  14. Zinc fertilization of flooded rice

    International Nuclear Information System (INIS)

    Local scientists studied Zn fertilization of flooded rice soils in Bangladesh, India, Indonesia, the Republic of Korea, Egypt, the Philippines, Thailand and Turkey. Diagnosis of Zn deficiency was carried out for submerged rice soils. Soil maps were prepared, designating areas as low, medium and high in Zn, based on Zn extraction with DTPA and HCl solutions and on rice leaf analysis. The effectiveness of various Zn fertilizer sources and methods of application in field and greenhouse experiments was measured, using 65Zn. The percent Zn derived from fertilizer was shown to be a much more sensitive measure of efficiency than yield or total uptake

  15. Absorption and Cooked Rice Quality

    Institute of Scientific and Technical Information of China (English)

    LinJialianetal

    2001-01-01

    Abstract: Using glucono-8-1actone, sodiumcyclodextrin and proteinase as mainrice under different conditions and theadditivepolyphosphate, emulsifier, 13-the water-absorbing quality ofmethods to improve the edible quality ofcooked rice are systematically investigated. The experimental result indicatesthat the water-absorbing ability of rice at room temperature can be increasedsignificantly by soaking it in a 1:2 mixture of sodium polyphosphate andglucono-8-1actone. The cooked rice quality can be apparently improved bysoaking in a mixture of sodium polyphosphate, glucono-8-1actone, emulsifier, 13-cyclodextrin and protease.

  16. Development of Novel Glyphosate-Tolerant Japonica Rice Lines: A Step Toward Commercial Release

    Science.gov (United States)

    Cui, Ying; Huang, Shuqing; Liu, Ziduo; Yi, Shuyuan; Zhou, Fei; Chen, Hao; Lin, Yongjun

    2016-01-01

    Glyphosate is the most widely used herbicide for its low cost and high efficiency. However, it is rarely applied directly in rice field due to its toxicity to rice. Therefore, glyphosate-tolerant rice can greatly decrease the cost of rice production and provide a more effective weed management strategy. Although, several approaches to develop transgenic rice with glyphosate tolerance have been reported, the agronomic performances of these plants have not been well evaluated, and the feasibility of commercial production has not been confirmed yet. Here, a novel glyphosate-tolerant gene cloned from the bacterium Isoptericola variabilis was identified, codon optimized (designated as I. variabilis-EPSPS*), and transferred into Zhonghua11, a widely used japonica rice cultivar. After systematic analysis of the transgene integration via PCR, Southern blot and flanking sequence isolation, three transgenic lines with only one intact I. variabilis-EPSPS* expression cassette integrated into intergenic regions were identified. Seed test results showed that the glyphosate tolerance of the transgenic rice was about 240 times that of wild type on plant medium. The glyphosate tolerance of transgenic rice lines was further evaluated based on comprehensive agronomic performances in the field with T3 and T5generations in a 2-year assay, which showed that they were rarely affected by glyphosate even when the dosage was 8400 g ha−1. To our knowledge, this is the first demonstration of the development of glyphosate-tolerant rice lines based on a comprehensive analysis of agronomic performances in the field. Taken together, the results suggest that the selected glyphosate-tolerant rice lines are highly tolerant to glyphosate and have the possibility of commercial release. I. variabilis-EPSPS* also can be a promising candidate gene in other species for developing glyphosate-tolerant crops. PMID:27625652

  17. Development of Novel Glyphosate-Tolerant Japonica Rice Lines: A Step Toward Commercial Release.

    Science.gov (United States)

    Cui, Ying; Huang, Shuqing; Liu, Ziduo; Yi, Shuyuan; Zhou, Fei; Chen, Hao; Lin, Yongjun

    2016-01-01

    Glyphosate is the most widely used herbicide for its low cost and high efficiency. However, it is rarely applied directly in rice field due to its toxicity to rice. Therefore, glyphosate-tolerant rice can greatly decrease the cost of rice production and provide a more effective weed management strategy. Although, several approaches to develop transgenic rice with glyphosate tolerance have been reported, the agronomic performances of these plants have not been well evaluated, and the feasibility of commercial production has not been confirmed yet. Here, a novel glyphosate-tolerant gene cloned from the bacterium Isoptericola variabilis was identified, codon optimized (designated as I. variabilis-EPSPS (*)), and transferred into Zhonghua11, a widely used japonica rice cultivar. After systematic analysis of the transgene integration via PCR, Southern blot and flanking sequence isolation, three transgenic lines with only one intact I. variabilis-EPSPS (*) expression cassette integrated into intergenic regions were identified. Seed test results showed that the glyphosate tolerance of the transgenic rice was about 240 times that of wild type on plant medium. The glyphosate tolerance of transgenic rice lines was further evaluated based on comprehensive agronomic performances in the field with T3 and T5generations in a 2-year assay, which showed that they were rarely affected by glyphosate even when the dosage was 8400 g ha(-1). To our knowledge, this is the first demonstration of the development of glyphosate-tolerant rice lines based on a comprehensive analysis of agronomic performances in the field. Taken together, the results suggest that the selected glyphosate-tolerant rice lines are highly tolerant to glyphosate and have the possibility of commercial release. I. variabilis-EPSPS (*) also can be a promising candidate gene in other species for developing glyphosate-tolerant crops.

  18. Allelopathic influence of rice extracts on phenology of various crops and weeds

    International Nuclear Information System (INIS)

    In order to study the allelopathic effects of rice straw on different weeds and crops, a lab experiment was conducted at the Weed Science Laboratory, Institute of Plant Environmental Protection, National Agricultural Research Center, Islamabad during 2007 with a factorial arrangement (species and extract concentration) to evaluate the allelopathic effect of various concentrations of rice straw extract on germination percent, mortality percent, and days to germination of different test plants. The rice plants (Basmati super) were collected from experimental fields of National Agricultural Research Center, Islamabad. The samples were put into water for 48 hours after getting them cleaned, dried, and ground for obtaining the extract. The rice stems and leaves were used for the extraction and concentrations of 0, 50 and 100% rice straw extracts were used for the bioassay. A total of 90 Petri dishes were sterilized in autoclave at 110 -120 degree C for 1 hour. Two filter papers were kept in each Petri dish and ten seeds of each test plant were placed in each Petri dish. All the experimental Petri dishes were kept at room temperature of 20 degree C for 15 days. The results uncovered that 100% rice straw extract convincingly decreased the germination and growth of the test plants, in comparison with the 0 and 50% rice straw extracts. Among the crop plants, Gossypium hirsutum; and among the weeds, Ipomoea batatas, Rumex dentatus and Convolvulus arvensis were mostly affected by the rice straw extracts whereas Helianthus annuus, Zea mays, Oryza sativa and Vigna radiata were somewhat resistant to rice straw extract concentrations. Hence, it has been concluded from the results that rice straw can prove to be a good alternative and environment friendly bio-herbicide for weed management in crops. (author)

  19. Development of Novel Glyphosate-Tolerant Japonica Rice Lines: A Step Toward Commercial Release.

    Science.gov (United States)

    Cui, Ying; Huang, Shuqing; Liu, Ziduo; Yi, Shuyuan; Zhou, Fei; Chen, Hao; Lin, Yongjun

    2016-01-01

    Glyphosate is the most widely used herbicide for its low cost and high efficiency. However, it is rarely applied directly in rice field due to its toxicity to rice. Therefore, glyphosate-tolerant rice can greatly decrease the cost of rice production and provide a more effective weed management strategy. Although, several approaches to develop transgenic rice with glyphosate tolerance have been reported, the agronomic performances of these plants have not been well evaluated, and the feasibility of commercial production has not been confirmed yet. Here, a novel glyphosate-tolerant gene cloned from the bacterium Isoptericola variabilis was identified, codon optimized (designated as I. variabilis-EPSPS (*)), and transferred into Zhonghua11, a widely used japonica rice cultivar. After systematic analysis of the transgene integration via PCR, Southern blot and flanking sequence isolation, three transgenic lines with only one intact I. variabilis-EPSPS (*) expression cassette integrated into intergenic regions were identified. Seed test results showed that the glyphosate tolerance of the transgenic rice was about 240 times that of wild type on plant medium. The glyphosate tolerance of transgenic rice lines was further evaluated based on comprehensive agronomic performances in the field with T3 and T5generations in a 2-year assay, which showed that they were rarely affected by glyphosate even when the dosage was 8400 g ha(-1). To our knowledge, this is the first demonstration of the development of glyphosate-tolerant rice lines based on a comprehensive analysis of agronomic performances in the field. Taken together, the results suggest that the selected glyphosate-tolerant rice lines are highly tolerant to glyphosate and have the possibility of commercial release. I. variabilis-EPSPS (*) also can be a promising candidate gene in other species for developing glyphosate-tolerant crops. PMID:27625652

  20. Systematic Identification of Rice ABC1 Gene Family and Its Response to Abiotic Stress

    Institute of Scientific and Technical Information of China (English)

    GAO Qing-song; ZHANG Dan; Xu Liang; XU Chen-wu

    2011-01-01

    Members of the activity of bc1 complex (ABC1) family are protein kinases that are widely found in prokaryotes and eukaryotes.Previous studies showed that several plant ABC1 genes participated in the abiotic stress response.Here,we present the systematic identification of rice and Arabidopsis ABC1 genes and the expression analysis of rice ABC1 genes.A total of 15 and 17 ABC1 genes from the rice and Arabidopsis genomes,respectively,were identified using a bioinformatics approach.Phylogenetic analyses of these proteins suggested that the divergence of this family had occurred and their main characteristics were established before the monocot-dicot split.Indeed,species-specific expansion contributed to the evolution of this family in rice and Arabidopsis after the monocot-dicot split.Intron/exon structure analysis indicated that most of the orthologous genes had similar exon sizes,but diverse intron sizes,and the rice genes contained larger introns,moreover,intron gain was an important event accompanying the recent evolution of the rice ABC1 family.Multiple sequence alignment revealed one conserved amino acid segment and four conserved amino acids in the ABC1 domain.Online subcellular localization predicted that nine rice ABC1 proteins were localized in chloroplasts.Real-time RT-PCR established that the rice ABC1 genes were primarily expressed in leaves and the expression could be modulated by a broad range of abiotic factors such as H2O2,abscisic acid,low temperature,drought,darkness and high salinity.These results reveal that the rice ABC1 gene family plays roles in the environmental stress response and specific biological processes of rice.

  1. The Use of Rice Varietal Diversity for Rice Blast Control

    Institute of Scientific and Technical Information of China (English)

    ZHU You-yong; LI Zuo-shen; LU Bao-rong; CHEN Hai-ru; FAN Jing-hua; WANG Yun-yue; LI Yan; FAN Jin-xiang; YANG Shi-sheng; MA Guan-liang; CHEN Jian-bin

    2003-01-01

    Field experiments of mixed- (intercropping) and pure-planting (monoculture) of four rice vari-eties, representing improved hybrid varieties (Shanyou63 and Shanyou22) and high-quality traditional varie-ties (Huangkenuo and Zigu) from Yunnan Province, were conducted based on their differences in genetic back-ground and agro-economical characteristics. The results demonstrated that the mixed-planting of the hybridrice and high-quality traditional rice varieties had a significantly greater effect on controlling rice blast diseasethan the monocuiture of these varieties, particularly the traditional ones. It is evident for the highly suscepti-ble traditional varieties in mixed-planting to achieve disease control, with significant decreases in blast inci-dences and severity indexes. The blast control efficiency reached up to 83 - 98 % under such planting model.This suggests that an appropriate mixed-planting of rice varieties with diverse genetic background and agro-e-conomical characteristics is an effective approach for rice blast control. In addition, resistance of the tradi-tional rice varieties to lodging was considerably increased in the plots with mixed-planting, compared with theplots with monoculture. The average rate of grain-yield increase ranged from 6.5 to 9.7 % in the plots withmixed-planting.

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

    Directory of Open Access Journals (Sweden)

    Benjamin Schwessinger

    2015-03-01

    Full Text Available 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.

  3. Functional Analysis of Jasmonates in Rice through Mutant Approaches

    Directory of Open Access Journals (Sweden)

    Rohit Dhakarey

    2016-03-01

    Full Text Available 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.

  4. Comparative analysis of two emerging rice seed bacterial pathogens.

    Science.gov (United States)

    Fory, P A; Triplett, L; Ballen, C; Abello, J F; Duitama, J; Aricapa, M G; Prado, G A; Correa, F; Hamilton, J; Leach, J E; Tohme, J; Mosquera, G M

    2014-05-01

    Seed sterility and grain discoloration limit rice production in Colombia and several Central American countries. In samples of discolored rice seed grown in Colombian fields, the species Burkholderia glumae and B. gladioli were isolated, and field isolates were compared phenotypically. An artificial inoculation assay was used to determine that, although both bacterial species cause symptoms on rice grains, B. glumae is a more aggressive pathogen, causing yield reduction and higher levels of grain sterility. To identify putative virulence genes differing between B. glumae and B. gladioli, four previously sequenced genomes of Asian and U.S. strains of the two pathogens were compared with each other and with two draft genomes of Colombian B. glumae and B. gladioli isolates generated for this study. Whereas previously characterized Burkholderia virulence factors are highly conserved between the two species, B. glumae and B. gladioli strains are predicted to encode distinct groups of genes encoding type VI secretion systems, transcriptional regulators, and membrane-sensing proteins. This study shows that both B. glumae and B. gladioli can threaten grain quality, although only one species affects yield. Furthermore, genotypic differences between the two strains are identified that could contribute to disease phenotypic differences. PMID:24261408

  5. Occurrence and Population Dynamics of Chironomids in Early-Season Rice Fields

    Institute of Scientific and Technical Information of China (English)

    LI Zhi-yu; YANG Hong; LAI Feng-xiang; FU Qiang; HU Yang

    2011-01-01

    The chironomid is one of the world wide distributed insects and normally occurs in a great abundance among many kinds of water bodies.Currently,our knowledge about the chironomid in rice fields is limited to the species survey,and it is considered as a group insect at the family level,termed as a kind of the neutral insects.By using the specially designed emergence traps,the species richness and the occurrence of the chironomid in rice fields were studied throughout the early season in Fuyang City,Zhejiang Province,China.There were four species,namely,Tanytarsus formosanus,Chironomus sinicus,Polypedilum nubifer and Tanypus punctipennis of chironomids collected from rice fields.All of them are widely distributed species.T.formosanus and C.sinicus were the most dominant species in rice fields.The succession of chironomids in the early season could be divided into two phases,the early and the late phases.The abundance of the chironomid was higher in the early phase than that in the late phase.It was estimated that there were around 3 million individuals of chironomids emerged from 667 m2 rice field throughout the early season.It was also found that the sex ratio of T.formosanus was female-biased during the early phase,whereas male-biased during the late phase.In contrast,the sex ratio of C.sinicus was male-biased throughout the early season.

  6. Rice Reoviruses in Insect Vectors.

    Science.gov (United States)

    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

  7. Rice vaikib salavanglaist / Tõnis Erilaid

    Index Scriptorium Estoniae

    Erilaid, Tõnis, 1943-

    2005-01-01

    Euroopasse visiidile sõitev USA välisminister Condoleezza Rice külastab Saksamaad, Rumeeniat, Ukrainat ja Belgiat. Süüdistusi CIA lennukite maandumiste ja salavanglate kohta ei olevat tal kavas kommenteerida

  8. Physiological and morphological responses of Ischaemum rugosum Salisb. (wrinkled grass to different nitrogen rates and rice seeding rates.

    Directory of Open Access Journals (Sweden)

    Tahir Hussain Awan

    Full Text Available Ischaemum rugosum is a competitive weed in direct-seeded rice systems. Developing integrated weed management strategies that promote the suppression of weeds by crop density, cultivar selection, and nutrition requires better understanding of the extent to which rice interferes with the growth of this weed and how it responds to resource limitation due to rice interference. The growth of I. rugosum was studied when grown with four rice seeding rates (0, 25, 50, and 100 kg ha(-1 and four nitrogen (N rates (0, 50, 100, and 150 kg ha(-1. Compared to the weed plants grown alone, weed tiller number was reduced by 63-80%, leaf number by 68-77%, leaf area by 69-77%, leaf biomass by 72-84%, and inflorescence biomass by 81-93% at the rice seeding rates of 25-100 kg ha(-1. All these parameters increased with increasing rates of N from 0 to 150 kg ha(-1. At weed maturity, I. rugosum plants were 100% taller than rice at 0 kg N ha(-1, whereas, with added N, the weeds were only 50% taller than rice. Weed biomass increased by 82-160%, whereas rice biomass increased by 92-229%, with the application of 50-150 kg N ha(-1. Added N favored rice biomass production more than it did the weed. Rice interference reduced the height and biomass of I. rugosum, but did not suppress its growth completely. I. rugosum showed the ability to reduce the effects of rice interference by increasing leaf area, leaf weight ratio, and specific leaf area, and by decreasing the root-shoot weight ratio in comparison to the weed plants grown alone. The results suggest that rice crop interference alone may reduce I. rugosum growth but may not provide complete control of this weed. The need for integrated weed management practices to effectively control this weed species is highlighted.

  9. Physiological and morphological responses of Ischaemum rugosum Salisb. (wrinkled grass) to different nitrogen rates and rice seeding rates.

    Science.gov (United States)

    Awan, Tahir Hussain; Chauhan, Bhagirath Singh; Cruz, Pompe C Sta

    2014-01-01

    Ischaemum rugosum is a competitive weed in direct-seeded rice systems. Developing integrated weed management strategies that promote the suppression of weeds by crop density, cultivar selection, and nutrition requires better understanding of the extent to which rice interferes with the growth of this weed and how it responds to resource limitation due to rice interference. The growth of I. rugosum was studied when grown with four rice seeding rates (0, 25, 50, and 100 kg ha(-1)) and four nitrogen (N) rates (0, 50, 100, and 150 kg ha(-1)). Compared to the weed plants grown alone, weed tiller number was reduced by 63-80%, leaf number by 68-77%, leaf area by 69-77%, leaf biomass by 72-84%, and inflorescence biomass by 81-93% at the rice seeding rates of 25-100 kg ha(-1). All these parameters increased with increasing rates of N from 0 to 150 kg ha(-1). At weed maturity, I. rugosum plants were 100% taller than rice at 0 kg N ha(-1), whereas, with added N, the weeds were only 50% taller than rice. Weed biomass increased by 82-160%, whereas rice biomass increased by 92-229%, with the application of 50-150 kg N ha(-1). Added N favored rice biomass production more than it did the weed. Rice interference reduced the height and biomass of I. rugosum, but did not suppress its growth completely. I. rugosum showed the ability to reduce the effects of rice interference by increasing leaf area, leaf weight ratio, and specific leaf area, and by decreasing the root-shoot weight ratio in comparison to the weed plants grown alone. The results suggest that rice crop interference alone may reduce I. rugosum growth but may not provide complete control of this weed. The need for integrated weed management practices to effectively control this weed species is highlighted. PMID:24910995

  10. Massive gene losses in Asian cultivated rice unveiled by comparative genome analysis

    Directory of Open Access Journals (Sweden)

    Itoh Takeshi

    2010-02-01

    Full Text Available Abstract Background Rice is one of the most important food crops in the world. With increasing world demand for food crops, there is an urgent need to develop new cultivars that have enhanced performance with regard to yield, disease resistance, and so on. Wild rice is expected to provide useful genetic resources that could improve the present cultivated species. However, the quantity and quality of these unexplored resources remain unclear. Recent accumulation of the genomic information of both cultivated and wild rice species allows for their comparison at the molecular level. Here, we compared the genome sequence of Oryza sativa ssp. japonica with sets of bacterial artificial chromosome end sequences (BESs from two wild rice species, O. rufipogon and O. nivara, and an African rice species, O. glaberrima. Results We found that about four to five percent of the BESs of the two wild rice species and about seven percent of the African rice could not be mapped to the japonica genome, suggesting that a substantial number of genes have been lost in the japonica rice lineage; however, their close relatives still possess their counterpart genes. We estimated that during evolution, O. sativa has lost at least one thousand genes that are still preserved in the genomes of the other species. In addition, our BLASTX searches against the non-redundant protein sequence database showed that disease resistance-related proteins were significantly overrepresented in the close relative-specific genomic portions. In total, 235 unmapped BESs of the three relatives matched 83 non-redundant proteins that contained a disease resistance protein domain, most of which corresponded to an NBS-LRR domain. Conclusion We found that the O. sativa lineage appears to have recently experienced massive gene losses following divergence from its wild ancestor. Our results imply that the domestication process accelerated large-scale genomic deletions in the lineage of Asian

  11. Gibberellin Signal Transduction in Rice

    Institute of Scientific and Technical Information of China (English)

    Liu-Min Fan; Xiaoyan Feng; Yu Wang; Xing Wang Deng

    2007-01-01

    In the past decade, significant knowledge has accumulated regarding gibberellin (GA) signal transduction in rice as a result of studies using multiple approaches, particularly molecular genetics. The present review highlights the recent developments in the identification of GA signaling pathway components, the discovery of GA-induced destruction of GA signaling represser (DELLA protein), and the possible mechanism underlying the regulation of GA-responsive gene expression in rice.

  12. Quantitative understanding of the performance of upland rice – cover legume cropping systems in West Africa

    NARCIS (Netherlands)

    Akanvou, R.K.

    2001-01-01

    Keywords: upland rice, relay intercropping, modelling, cover crops, improved fallow.Reducing the long fallow period by replacing the natural fallow with fast growing legume species to improve soil fertility, control weeds or to grow additional forage necessitate selection of suitable species for tho

  13. Realistic Simulation of Rice Plant

    Institute of Scientific and Technical Information of China (English)

    DING Wei-long; ZHANG Yu-ping; ZHANG Qian-yuan; ZHU De-feng; CHEN Qi

    2011-01-01

    The existing research results of virtual modeling of rice plant,however,is far from perfect compared to that of other crops due to its complex structure and growth process.Techniques to visually simulate the architecture of rice plant and its growth process are presented based on the analysis of the morphological characteristics at different stages.Firstly,the simulations of geometrical shape,the bending status and the structural distortion of rice leaves are conducted.Then,by using an improved model for bending deformation,the curved patterns of panicle axis and various types of panicle branches are generated,and the spatial shape of rice panicle is therefore created.Parametric L-system is employed to generate its topological structures,and finite-state automaton is adopted to describe the development of geometrical structures.Finally,the computer visualization of three-dimensional morphologies of rice plant at both organ and individual levels is achieved.The experimental results showed that the proposed methods of modeling the three-dimensional shapes of organs and simulating the growth of rice plant are feasible and effective,and the generated three-dimensional images are realistic.

  14. 75 FR 56911 - Request for Public Comment on the United States Standards for Rough Rice, Brown Rice for...

    Science.gov (United States)

    2010-09-17

    ..., Brown Rice for Processing, and Milled Rice standards were last revised in 1993 (58 FR 68015) and appear... Comment on the United States Standards for Rough Rice, Brown Rice for Processing, and Milled Rice AGENCY... Administration (GIPSA) is reviewing the United States Standards and grading procedures for Rough Rice, Brown...

  15. A spectrum of genes expressed during early stages of rice panicle and flower development

    Indian Academy of Sciences (India)

    Kumuda M. Kushalappa; Autar K. Mattoo; Usha Vijayraghavan

    2000-08-01

    To unravel gene expression patterns during rice inflorescence development, particularly at early stages of panicle and floral organ specification, we have characterized random cloned cDNAs from developmental-stage-specific libraries. cDNA libraries were constructed from rice panicles at the stage of branching and flower primordia specification or from panicles undergoing floral organogenesis. Partial sequence analysis and expression patterns of some of these random cDNA clones from these two rice panicle libraries are presented. Sequence comparisons with known DNA sequences in databases reveal that approximately sixtyeight per cent of these expressed rice genes show varying degrees of similarity to genes in other species with assigned functions. In contrast, thirtytwo per cent represent uncharacterized genes. cDNAs reported here code for potential rice homologues of housekeeping molecules, regulators of gene expression, and signal transduction molecules. They comprise both single-copy and multicopy genes, and genes expressed differentially, both spatially and temporally, during rice plant development. New rice cDNAs requiring specific mention are those with similarity to COP1, a regulator of photomorphogenesis in Arabidopsis; sequence-specific DNA binding plant proteins like AP2-domain-containing factors; genes that specify positional information in shoot meristems like leucine-rich-repeat-containing receptor kinases; regulators of chromatin structure like Polycomb domain protein; and also proteins induced by abiotic stresses.

  16. The role of the rice aquaporin Lsi1 in arsenite efflux from roots.

    Science.gov (United States)

    Zhao, Fang-Jie; Ago, Yukiko; Mitani, Namiki; Li, Ren-Ying; Su, Yu-Hong; Yamaji, Naoki; McGrath, Steve P; Ma, Jian Feng

    2010-04-01

    *When supplied with arsenate (As(V)), plant roots extrude a substantial amount of arsenite (As(III)) to the external medium through as yet unidentified pathways. The rice (Oryza sativa) silicon transporter Lsi1 (OsNIP2;1, an aquaporin channel) is the major entry route of arsenite into rice roots. Whether Lsi1 also mediates arsenite efflux was investigated. *Expression of Lsi1 in Xenopus laevis oocytes enhanced arsenite efflux, indicating that Lsi1 facilitates arsenite transport bidirectionally. *Arsenite was the predominant arsenic species in arsenate-exposed rice plants. During 24-h exposure to 5 mum arsenate, rice roots extruded arsenite to the external medium rapidly, accounting for 60-90% of the arsenate uptake. A rice mutant defective in Lsi1 (lsi1) extruded significantly less arsenite than the wild-type rice and, as a result, accumulated more arsenite in the roots. By contrast, Lsi2 mutation had little effect on arsenite efflux to the external medium. *We conclude that Lsi1 plays a role in arsenite efflux in rice roots exposed to arsenate. However, this pathway accounts for only 15-20% of the total efflux, suggesting the existence of other efflux transporters.

  17. The anti-photooxidation of anthocyanins-rich leaves of a purple rice cultivar

    Institute of Scientific and Technical Information of China (English)

    PENG; Changlian; LIN; Guizhu; LIN; Zhifang; CHEN; Shaowei

    2006-01-01

    In the leaf of rice (Oryza sativa L.) cultivar Yunnan purple rice, the anthocyanins with an obvious absorption peak at 530nm were distributed in the cells of upper and lower epidermis, bulliform tissue and bristle. The maximal photosynthetic oxygen evolution rate and chlorophyll content in flag leaves were 28% and 23%, respectively, more than the common green leaf rice cultivar Chijiaoruanzhan. Higher chlorophyll content is probably one of the physiological adaptations for enhancing light harvesting capacity of the antenna in photosystems in this cyanic leaves species. Upon the photooxidation of leaf segments mediated by methyl viologen in weak light for 3 days, the distinct bleaching of anthocyanins in purple rice was associated with the reduction of scavenging ability to DPPH· free radical ability and the increase in membrane leakage rate. But almost no changes in contents of flavonoids and total phenolics were observed. Chlorophyll fluorescence parameters Fv/Fo, qP and фPSII decreased with the increase in NPQ and DES of xanthophylls cycle after photooxidation treatment. Green rice leaves showed more decrease in DPPH· scavenging rate and more increase in cell membrane leakage rate but showed a trace of anthocyanins during photooxidation. It is suggested that anthocyanin may be a beneficial and primary antioxidant in sun cyanic rice leaves against oxidative stress induced by environmental adversity. And photooxidation could induce different changing patterns of anthocyanins between the tested purple and green rice leaves.

  18. Use of Radiation Disinfestation in the Control of Rice Insect Pests during Storage

    International Nuclear Information System (INIS)

    Rice weevil (Sitophilus oryzae), red flour beetle (Tribolium castaeneum), saw-toothed grain beetle (Oryzaephilus surinamensis), and flour moth (Ephestia kuehniella) are commonly found in Egyptian stored rice. The aim of this project is to carry out a study of a pilot-scale radiation disinfestation of these rice insect pests in an amount large enough to extrapolate data for later commercial practice. Fumigation treatments with phostoxin, methyl bromide and a combination treatment (methyl bromide + 7.5 krad) were also performed as a comparison to reveal the most effective way to control these rice pests. The most effective of all treatments tested was the 50-krad treatment. Complete sterility for the adults of these pests was obtained after treating rice directly, while complete mortality was reached within 30-60 days. Regarding fumigation treatments — phostoxin, methylbromide and combined treatment (methylbromide + 7.5 krad), the living stages of the four insect pests in rice varied during the storage period. However, the combination treatment gave the best results. Adults of the three Coleopteran species appeared in rice after four months because the 7.5-krad dose was not enough to kill the eggs which might have been laid by young females before being killed by fumigants. (author)

  19. Arsenic bioavailability to rice is elevated in Bangladeshi paddy soils.

    Science.gov (United States)

    Khan, K Asaduzzaman; Stroud, Jacqueline L; Zhu, Yong-Guan; McGrath, Steve P; Zhao, Fang-Jie

    2010-11-15

    Some paddy soils in the Bengal delta are contaminated with arsenic (As) due to irrigation of As-laden groundwater, which may lead to yield losses and elevated As transfer to the food chain. Whether these soils have a higher As bioavailability than other soils containing either geogenic As or contaminated by mining activities was investigated in a pot experiment. Fourteen soils varying in the source and the degree (4-138 mg As kg 1⁻¹) of As contamination were collected, 10 from Bangladeshi paddy fields (contaminated by irrigation water) and two each from China and the UK (geogenic or mining impacted), for comparison. Bangladeshi soils had higher percentages of the total As extractable by ammonium phosphate (specifically sorbed As) than other soils and also released more As into the porewater upon flooding. Porewater As concentrations increased with increasing soil As concentrations more steeply in Bangladeshi soils, with arsenite being the dominant As species. Rice growth and grain yield decreased markedly in Bangladeshi soils containing > 13 mg As kg 1⁻¹, but not in the other soils. Phosphate-extractable or porewater As was a better indicator of As bioavailability than total soil As. Rice straw As concentrations increased with increasing soil As concentrations; however, As phytotoxicity appeared to result in lower grain As concentrations. The relative proportions of inorganic As and dimethylarsinic acid (DMA) in grain varied among soils, and the percentage DMA was larger in greenhouse-grown plants than grain samples collected from the paddy fields of the same soil and the same rice cultivar, indicating a strong environmental influence on As species found in rice grain. This study shows that Bangladeshi paddy soils contaminated by irrigation had a higher As bioavailability than other soils, resulting in As phytotoxicity in rice and substantial yield losses. PMID:20977268

  20. Processing Conditions, Rice Properties, Health and Environment

    Directory of Open Access Journals (Sweden)

    Nobutaka Nakamura

    2011-06-01

    Full Text Available 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.

  1. Soil tillage, rice straw and flooded irrigated rice yield

    Directory of Open Access Journals (Sweden)

    Amauri Nelson Beutler

    2014-06-01

    Full Text Available The objective of this study was evaluate the effect of management systems and straw in flooded irrigated rice yield. The experimental design was a completely randomized with three experiments and, 10 replications in experiment 1 and 2 and, 6 replications in experiment 3. The experiments were: E1 – no-till system (E1PD and conventional system with two harrowings at 0.0–0.07 m layer and leveling with remaplam (E1PC, after three years of sowing rice, after fallow of rice tillage, with sowing of rye grass in winter and grazing; E2 – no-till system (E2PD and conventional system after native field (E2PC; E3 – no-till without straw on soil surface (E30P, current straw on soil surface of 3,726 kg ha-1 (E31P, two times current straw of 7,452 kg ha-1 (E32P and three times current straw of 11,178 kg ha-1 (E33P. In soil, were evaluated the average geometric diameter of aggregates, soil bulk density, soil porosity, macro and microporosity, in 0.0-0.05 and 0.05-0.10 m layer. In harvest were evaluated the panicles number in 0,25 m2 area, number of filled, empty an total grains in 10 panicles, mass of one thousand seeds and rice grains yield in 2 m2. The conventional system presented greater macroporosity and total porosity, compared with no-till system, however, does not result in differences in production components and rice grains yield. Soil tillage in no-till, with rice straw on soil surface up to 11,178 kg ha-1, before sowing, not reduces flooded irrigated rice grains yield.

  2. BREEDING FOR TOLERANCE TO STRESS TRIGGERED BY SALINITY IN RICE

    Directory of Open Access Journals (Sweden)

    M. Amaranatha Reddy

    2014-02-01

    Full Text Available Rice is one of the world’s most important staple crops. Although rice is considered as a sensitive crop to salinity, it is one of the most widely grown crops in coastal areas. In the present, salinity is the second most widespread soil problem in rice growing countries next to drought and considers as a serious constraint to increased rice production worldwide. Genetic Evaluation and Utilization (GEU Program at IRRI in 1969 have been screened 138,000 rice genotypes. Of these, 17% had acceptable tolerance at electrical conductivity (EC of 10 dS/m at the seedling stage. Traditional cultivars are the most tolerant to abiotic stresses. Cultivars Pokkali, Cheriveruppu, Nona Bokra, SR26B, Damodar and Getu are tolerant of salinity but possess poor agronomic characters. There exists tremendous variation for salt tolerance within species in rice, providing opportunities to improve crop salt-stress tolerance through genetic means. Some attempts to develop salt-tolerant genotypes were based on highly tolerant traditional rice cultivars i.e. Pokkali and Nona-Bokra (Akbar et al., 1985. Mahsuri which is saline tolerant and introduced from Malaysia. Damodar (CSR 1, Dasal (CSR 2, Getu (CSR 3, Pokkali, Vytilla 1, Vytilla 2, Vytilla 3, Vytilla 4, Vytilla 5 etc were developed through pureline selection. CSR 10, CSR13, CSR23, CSR27, CSR30, CSR36, CR Dhan 402, CR Dhan 403, TRY 1, TRY 2, TRY 3, White ponni, CO 43 etc. were developed through recombinant varieties. CORH 2 is developed through three line breeding method. Somaclonal variants of Pokkali with improved agronomic traits were identified. The variant (TCCP 266-2-49-B-B-3 had desirable levels of all tested characteristics and retained salinity tolerance equal to Pokkali. The variant is semidwarf and has vigorous growth and high yield potential without lodging. TCCP 266-2-49-B-B-3 had a white pericarp and also improved cooking quality, with medium gel consistency. High-yielding salt-tolerant AC-derived lines

  3. Genetic diversity of rice sheath blight isolates (Rhizoctonia solani AG-1 IA) from different rice cultivars

    Institute of Scientific and Technical Information of China (English)

    2002-01-01

    Rhizoctonia solani AG 1 IA, the non specific, soil borne, and plant casual agent of rice sheath blight, occurring world widely in rice fields, has become a major disease to rice. In this study,relationships among R. solani AG 1 IA isolates, collected from different rice cultivars were reported.

  4. Combined Mass Spectrometry-Based Metabolite Profiling of Different Pigmented Rice (Oryza sativa L. Seeds and Correlation with Antioxidant Activities

    Directory of Open Access Journals (Sweden)

    Ga Ryun Kim

    2014-09-01

    Full Text Available 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.

  5. Genomovars of Burkholderia cepacia Complex from Rice Rhizosphere and Clinic in China

    Institute of Scientific and Technical Information of China (English)

    2007-01-01

    Burkholderia cepacia is regarded as a genetically distinct but phenotypically similar bacteria group referring to Burkholderia cepacia complex (Bcc), which is found not only in clinic but also in rice growing environment. It is very important in microbial safety of rice for us to understand the genomovar status of Bcc. Genomovar analysis was performed among 87 Bcc isolates by means of Hae Ⅲ-recA RFLP assays and species-specific PCR tests. Three genomovars were found from the rice rhizosphere including Ⅰ, ⅢB and Ⅴ, and genomovar Ⅴ was predominant. Genomovars Ⅰ, ⅢA and ⅢB existed in the clinical samples, and genomovar ⅢA was the most popular. It showed that genomovar composition was different between the Bcc strains from the rice rhizosphere and clinical environment. Simultaneously, the results revealed the genetic diversity of Bcc strains from the rice rhizosphere, and genomovar Ⅲ referred as virulent species in clinic also existed in the rice rhizosphere.

  6. Biodiversity and Dynamics of Planthoppers and Their Natural Enemies in Rice Fields with Different Nitrogen Regimes

    Institute of Scientific and Technical Information of China (English)

    LU Zhong-xian; S.VILLAREAL; YU Xiao-ping; K.L.HEONG; HU Cui

    2006-01-01

    A field experiment was conducted to study the effect of different nitrogen fertilizer rates I.e. 200, 100 and 0 kg N/ha in paddy fields at International Rice Research Institute, Manila, Philippines. Biodiversity of arthropods sampled by Blower-Vac, and dynamics of planthoppers, egg parasitoids of Homoptera trapped by rice plants with eggs of brown planthoppers (BPH) Nilaparvata lugens (St(ā)l), and web spiders on rice canopy collected by sweeping net, were analyzed at different rice growth stages. The most abundant arthropods were sampled at the milking stage of rice, totalling 116 species identified into 14 insect orders and 15 species of spider in all samples. Meanwhile the number of arthropod species significantly increased with rice growth and the diversity indices increased with the increase of nitrogen rate at the booting stage. On the other hand, in the dominant predators, Pardosa pseudoannulata, Callitrichi formosana, Micraspis sp., Cyrtorhinus lividipennis, Veliidae sp. And Mesoveliidae sp., only C. Lividipennis and Micraspis sp. Were increased significantly in abundance following the application of nitrogen at the milking stage of rice. The egg parasitoids of plant-hoppers were predominated by Anagrus flaveolus and Oligosita sp. And their densities in the field without nitrogen fertilizer were markedly higher than those in fields with 100 and 200 kg N/ha at both booting and milking stages of rice. The number and web area of dominant residential spiders Tetragnatha sp. And Araneus sp. In rice canopy significantly reduced with the increase of nitrogen fertilizer. The population density of planthoppers, included BPH and the white-backed planthoppers (WBPH) Sogatella furcifera Horváth, peaked during the booting stage, however, the number of BPH in rice field with 200 kg N/ha was considerably higher than those in other two rice fields with 100 kg N/ha and 0 kg N/ha at the booting as well as the milking stage. These results indicated that the rapid growth in

  7. Rice_Phospho 1.0: a new rice-specific SVM predictor for protein phosphorylation sites

    OpenAIRE

    Lin, Shoukai; Song, Qi; Tao, Huan; Wang, Wei; Wan, Weifeng; Huang, Jian; Xu, Chaoqun; Chebii, Vivien; Kitony, Justine; Que, Shufu; Harrison, Andrew; He, Huaqin

    2015-01-01

    Experimentally-determined or computationally-predicted protein phosphorylation sites for distinctive species are becoming increasingly common. In this paper, we compare the predictive performance of a novel classification algorithm with different encoding schemes to develop a rice-specific protein phosphorylation site predictor. Our results imply that the combination of Amino acid occurrence Frequency with Composition of K-Spaced Amino Acid Pairs (AF-CKSAAP) provides the best description of r...

  8. Field performance and genetic makeup of RU1001161, a good quality selection from crosses between weed-suppressive indica rice and commercial U.S. southern long grains

    Science.gov (United States)

    Sustainable, economically viable weed control is an ongoing challenge in U.S. rice production, particularly in light of increased resistance to herbicides in populations of Echinochloa crus-galli (barnyardgrass) and other weed species. Indica rice lines such as PI 312777 and PI 338046 have been sho...

  9. BGI-RIS: an integrated information resource and comparative analysis workbench for rice genomics

    DEFF Research Database (Denmark)

    Zhao, Wenming; Wang, Jing; He, Ximiao;

    2004-01-01

    . In addition to comprehensive data from Oryza sativa L. ssp. indica sequenced by BGI, BGI-RIS also hosts carefully curated genome information from Oryza sativa L. ssp. japonica and EST sequences available from other cereal crops. In this resource, sequence contigs of indica (93-11) have been further assembled......Rice is a major food staple for the world's population and serves as a model species in cereal genome research. The Beijing Genomics Institute (BGI) has long been devoting itself to sequencing, information analysis and biological research of the rice and other crop genomes. In order to facilitate...... the application of the rice genomic information and to provide a foundation for functional and evolutionary studies of other important cereal crops, we implemented our Rice Information System (BGI-RIS), the most up-to-date integrated information resource as well as a workbench for comparative genomic analysis...

  10. Small-Scale Duplications Play a Significant Role in Rice Genome Evolution

    Institute of Scientific and Technical Information of China (English)

    GUO Xin-yi; XU Guo-hua; ZHANG Yang; HU Wei-min; FAN Long-jiang

    2005-01-01

    Genes are continually being created by the processes of genome duplication (ohnolog) and gene duplication (paralog)Whole-genome duplications have been found to be widespread in plant species and play an important role in plant evolution. Clearly un-overlapping duplicated blocks of whole-genome duplications can be detected in the genome of sequenced rice (Oryza sativa).Syntenic ohnolog pairs (ohnologues) of the whole-genome duplications in rice were identified based on their syntenic duplicate lines.The paralogs of ohnologues were further scanned using multi-round reciprocal BLAST best-hit searching (E<e-14). The results indicated that an average of 0.55 sister paralogs could be found for every ohnologue in rice. These results suggest that small-scale duplications, as well as whole-genome duplications, play a significant role in the two duplicated rice genomes.

  11. Overexpression of receptor-like kinase ERECTA improves thermotolerance in rice and tomato.

    Science.gov (United States)

    Shen, Hui; Zhong, Xiangbin; Zhao, Fangfang; Wang, Yanmei; Yan, Bingxiao; Li, Qun; Chen, Genyun; Mao, Bizeng; Wang, Jianjun; Li, Yangsheng; Xiao, Guoying; He, Yuke; Xiao, Han; Li, Jianming; He, Zuhua

    2015-09-01

    The detrimental effects of global warming on crop productivity threaten to reduce the world's food supply. Although plant responses to changes in temperature have been studied, genetic modification of crops to improve thermotolerance has had little success to date. Here we demonstrate that overexpression of the Arabidopsis thaliana receptor-like kinase ERECTA (ER) in Arabidopsis, rice and tomato confers thermotolerance independent of water loss and that Arabidopsis er mutants are hypersensitive to heat. A loss-of-function mutation of a rice ER homolog and reduced expression of a tomato ER allele decreased thermotolerance of both species. Transgenic tomato and rice lines overexpressing Arabidopsis ER showed improved heat tolerance in the greenhouse and in field tests at multiple locations in China during several seasons. Moreover, ER-overexpressing transgenic Arabidopsis, tomato and rice plants had increased biomass. Our findings could contribute to engineering or breeding thermotolerant crops with no growth penalty. PMID:26280413

  12. IMPLICATIONS OF RICE BIOTECHNOLOGY ON OPTIMAL RICE CROP ROTATION IN THE MISSISSIPPI RIVER DELTA REGION

    OpenAIRE

    Annou, Mamane Malam; Thomsen, Michael R.; Hansen, James M.; Wailes, Eric J.; Cramer, Gail L.

    2001-01-01

    Availability of new herbicide-resistant biotech rice varieties may affect traditional rice rotation practices to control red rice and enhance yields. This research evaluates the adoption of biotech rice and its effects on the current practice of crop rotation in the Mississippi River Delta region. The optimal utilization of biotech rice rotation is analyzed using a nonlinear mathematical programming model with mixed integers. Optimal rotation was found to be sensitive to the technology fee, r...

  13. Perspective Rice 2020:A Call For An I nternational Coordinated Effort In Rice Fu nctional Genomics

    Institute of Scientific and Technical Information of China (English)

    Qifa Zhang; Jiayang Li; Yongbiao Xue; Bin Han; Xing Wang Deng

    2008-01-01

    We describe a call for an international coordinated effort in rice functional genomics in the form of a project named RICE2020.The mission of the project will be:to determine the function of every gene in the rice genome by the year 2020,to identify functional diversity of alleles for agriculturally useful genes from the primary gene pool of rice,and to apply the findings of functional genomics research to rice genetic improvement.

  14. Bioethanol production from rice straw residues

    OpenAIRE

    Elsayed B. Belal

    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 ...

  15. Stuies on histological changing rice during aging

    Institute of Scientific and Technical Information of China (English)

    Qian haifeng; Houyiming; Yao huiyuan

    2001-01-01

    The changing of rice endosperm cell during aging was inspected and analyzed by tissue section method in this paper, which was considered as the main causation of the descending of the eating quality of aged rice. A new effective method of improving the eating quality of aged rice was also carried out through enzymatic treatment which was based on the changing of histological structure of aged rice.

  16. The Volatility of Thai Rice Price

    OpenAIRE

    A. H. Baharom; Radam, Alias; Habibullah, M.S.; Hirnissa, M.T

    2009-01-01

    This study was conducted to explore the varying volatility of world rice price for the period 1961 to 2008 using monthly data. The paper provides estimates of two GARCH models, namely, GARCH and EGARCH which were used to capture the stochastic variation and asymmetries in the world rice price. The results indicate that EGARCH model gives better estimate of the volatility of world rice price. Furthermore the EGARCH model was able to describe the asymmetric volatility in the world price of rice...

  17. IRRI/ADB Project on hybrid rice

    Institute of Scientific and Technical Information of China (English)

    Peng; Jiming

    2006-01-01

    @@ Hybrid rice technology has made a significant progress in recent years in more than twenty rice-growing countries. The Asian Development Bank (ADB) provided funds for International Rice Research Institute (IRRI) to support the project of Sustaining Food Security in Asia through Development of Hybrid Rice Technology 2002-2004 mainly practiced in nine countries, such as Bangladesh, India, Indonesia, Korea, Myanmar, Philippines, Sri Lanka, Thailand and Vietnam.

  18. The Effect of Dietary Replacement of Ordinary Rice with Red Yeast Rice on Nutrient Utilization, Enteric Methane Emission and Rumen Archaeal Diversity in Goats

    Science.gov (United States)

    Wang, L. Z.; Zhou, M. L.; Wang, J. W.; Wu, D.; Yan, T.

    2016-01-01

    Twenty castrated Boer crossbred goats were used in the present study with two treatments to examine the effect of dietary replacement of ordinary rice with red yeast rice on nutrient utilization, enteric methane emission and ruminal archaea structure and composition. Two treatment diets contained (DM basis) 70.0% of forage, 21.8% of concentrates and 8.2% of either ordinary rice (control) or red yeast rice (RYR). Nutrient utilization was measured and enteric methane emissions were determined in respiration chambers. Results showed that RYR had significantly lower digestibility of N and organic matter compared to control group. However, feeding red yeast rice did not affect N retention as g/d or a proportion of N intake, and reduced heat production as MJ/d or as a proportion of metabolizable energy intake, thus leading to a higher proportion of metabolizable energy intake to be retained in body tissue. RYR also had significantly lower methane emissions either as g/d, or as a proportion of feed intake. Although feeding red yeast rice had no negative effect on any rumen fermentation variables, it decreased serum contents of total cholesterol, triglycerides, HDL-cholesterol and LDL-cholesterol. In the present study, 75616 archaeal sequences were generated and clustered into 2364 Operational Taxonomic Units. At the genus level, the predominant archaea in the rumen of goats was Methanobrevibacter, which was significantly inhibited with the supplementation of red yeast rice. In conclusion, red yeast rice is a potential feed ingredient for mitigation of enteric methane emissions of goats. However, caution should be taken when it is used because it may inhibit the digestibility of some nutrients. Further studies are required to evaluate its potential with different diets and animal species, as well as its effects on animal health and food safety. PMID:27467559

  19. The Effect of Dietary Replacement of Ordinary Rice with Red Yeast Rice on Nutrient Utilization, Enteric Methane Emission and Rumen Archaeal Diversity in Goats.

    Science.gov (United States)

    Wang, L Z; Zhou, M L; Wang, J W; Wu, D; Yan, T

    2016-01-01

    Twenty castrated Boer crossbred goats were used in the present study with two treatments to examine the effect of dietary replacement of ordinary rice with red yeast rice on nutrient utilization, enteric methane emission and ruminal archaea structure and composition. Two treatment diets contained (DM basis) 70.0% of forage, 21.8% of concentrates and 8.2% of either ordinary rice (control) or red yeast rice (RYR). Nutrient utilization was measured and enteric methane emissions were determined in respiration chambers. Results showed that RYR had significantly lower digestibility of N and organic matter compared to control group. However, feeding red yeast rice did not affect N retention as g/d or a proportion of N intake, and reduced heat production as MJ/d or as a proportion of metabolizable energy intake, thus leading to a higher proportion of metabolizable energy intake to be retained in body tissue. RYR also had significantly lower methane emissions either as g/d, or as a proportion of feed intake. Although feeding red yeast rice had no negative effect on any rumen fermentation variables, it decreased serum contents of total cholesterol, triglycerides, HDL-cholesterol and LDL-cholesterol. In the present study, 75616 archaeal sequences were generated and clustered into 2364 Operational Taxonomic Units. At the genus level, the predominant archaea in the rumen of goats was Methanobrevibacter, which was significantly inhibited with the supplementation of red yeast rice. In conclusion, red yeast rice is a potential feed ingredient for mitigation of enteric methane emissions of goats. However, caution should be taken when it is used because it may inhibit the digestibility of some nutrients. Further studies are required to evaluate its potential with different diets and animal species, as well as its effects on animal health and food safety. PMID:27467559

  20. Development of a simple, sensitive and inexpensive ion-pairing cloud point extraction approach for the determination of trace inorganic arsenic species in spring water, beverage and rice samples by UV-Vis spectrophotometry.

    Science.gov (United States)

    Gürkan, Ramazan; Kır, Ufuk; Altunay, Nail

    2015-08-01

    The determination of inorganic arsenic species in water, beverages and foods become crucial in recent years, because arsenic species are considered carcinogenic and found at high concentrations in the samples. This communication describes a new cloud-point extraction (CPE) method for the determination of low quantity of arsenic species in the samples, purchased from the local market by UV-Visible Spectrophotometer (UV-Vis). The method is based on selective ternary complex of As(V) with acridine orange (AOH(+)) being a versatile fluorescence cationic dye in presence of tartaric acid and polyethylene glycol tert-octylphenyl ether (Triton X-114) at pH 5.0. Under the optimized conditions, a preconcentration factor of 65 and detection limit (3S blank/m) of 1.14 μg L(-1) was obtained from the calibration curve constructed in the range of 4-450 μg L(-1) with a correlation coefficient of 0.9932 for As(V). The method is validated by the analysis of certified reference materials (CRMs).

  1. Arsenic in rice: A cause for concern

    DEFF Research Database (Denmark)

    Hojsak, Iva; Braegger, Christian; Bronsky, Jiri;

    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 rice products, stri...

  2. Studies on Nutritive Food from Rice Bran

    Institute of Scientific and Technical Information of China (English)

    ChenZhengxing; YaoHuiyuan

    2000-01-01

    Rice bran has high nutritive value and good prospects on developing new foods from it.The paper described preparation of a new functional food from stabilized rice bran and provided new technical ways to utillize rice bran in the area of healthy foods.

  3. Studies on Nutritive Food from Rice Bran

    Institute of Scientific and Technical Information of China (English)

    Chen Zhengxing; Yao Huiyuan

    2000-01-01

    Rice bran has high nutritive value and good prospects on developing new foods from it .The paper described preparation of a new functional food from stabilized rice bran and provided new technical ways to utilize rice bran in the area of healthy foods.

  4. Farmers acquire skills in paddy rice cultivation

    Institute of Scientific and Technical Information of China (English)

    2011-01-01

    Huye- A joint initiative that brings Rwanda and China to deepen technology transfer into the economy within agriculture has embarked on training rice farmers for the purposes of boosting rice production. China-Rwanda Agriculture Technology Demonstration Center (RATDC) has trained 43 rice farmers in agricultural technology as a way of helping them improve their productivity.

  5. Studies on the Stable Rice Flavoring Agent

    Institute of Scientific and Technical Information of China (English)

    Mao Jinsheng; Yao Huiyuan; Zhang Hui

    2000-01-01

    The reaction flavor as the stabilized rice flavor enhancer, whice is in initial stage at home presently, was made by studying the essence of forming aromatic rice scented and imitating ways to form process flavor in natural foods .The steam volatile of flavoring rice was determined by sensory evaluation and GC-MS analysis.

  6. Studies on the Stable Rice Flavoring Agent

    Institute of Scientific and Technical Information of China (English)

    MaoJinsheng; YaoHuiyuan; 等

    2000-01-01

    The reaction flavor as the stabilized rice flavor enhancer,whice is in initial stage at home presently,was made by studying the essence of forming aromatic rice scented and imitating ways to form process flavor in natural foods.The steam volatile of flavoring rice was determined by sensory evaluation and GC-MS analysis.

  7. Consumer preference mapping for rice product concepts

    NARCIS (Netherlands)

    Suwannaporn, P.; Linnemann, A.R.; Chaveesuk, R.

    2008-01-01

    Purpose - Rice consumption per capita in many Asian countries is decreasing constantly, but American and European citizens are eating more rice nowadays. A preference study among consumers was carried out with the aim of determining new rice product characteristics in order to support export of Thai

  8. Retative Factovs for Rice Crackle Duing Drying

    Institute of Scientific and Technical Information of China (English)

    Wang Jihuan

    2001-01-01

    The crackle of rice emerges frequently during drying from heating power. Various factors affecting rice crackle were analysed and discussed. It showed that the effective way to reduce the rice drying crackle should be proper drying temperature and speed as well as rational drying technology.

  9. Relative Factors for Rice Crackle During Drying

    Institute of Scientific and Technical Information of China (English)

    WangJihuan

    2001-01-01

    Abstract: The crackle of rice emerges frequently during drying from heatingpower. Various factors affecting rice crackle were analysed and discussed. Itshowed that the effective way to reduce the rice drying crackle should beproper drying temperature and speed as well as rational drying technology.

  10. Screening of Exist Genetically Modified Elements in Local and Commercial Rice Available in Baghdad Markets Using PCR and Real-time PCR

    Directory of Open Access Journals (Sweden)

    Hayba Q. Younan

    2013-11-01

    Full Text Available Rice is one of the staple foods of the Iraqi population; therefore large amounts of rice cultivated and imported in Iraq. Because of increasing the production of GM crops especially rice crop, it was necessary to investigate if there is any genetically modified rice (GM rice in Baghdad markets. Conventional PCR and Real-Time PCR used to create this investigation. Genomic DNA extracted from 7 samples of rice seeds that cultivated in Iraq; 31 samples of commercial rice seeds and 4 samples of kids' food, where rice is one of their ingredients. The primers RM 171 selected to amplify the Rice Microsatellite Region (RM for the DNA integrity inspection and rice species detection especially samples of kids' food, as well as, the primers P35S selected to amplify the CaMV35S promoter region (P35S for Genetically Modified elements (GM elements detection. There was no existence of GM elements in all samples except one, which was one of kids' food samples. These results indicate that the ability to produce GM crops and monitoring of the GM food entry are limitable in Iraq. Moreover, no commitment in the labeling regulations of genetically modified food.

  11. STRUCTURE AND CONDUCT OF THE WORLD RICE MARKET

    OpenAIRE

    Kang, Hyunsoo; Kennedy, P. Lynn; Hilbun, Brian M.

    2009-01-01

    The purpose of this paper is to analyze the world rice market through a Structure-Conduct-Performance (SCP) framework utilizing annual data from 1970 to 2007. Since World War Two, the world rice market has been very unstable, with rice prices experiencing volatile swings in both rice price and rice availability. Therefore, a SCP framework can provide crucial insight into the world rice market for policy makers. Also, this paper describes the effects of total production, export rice price, and...

  12. Oxylipin Pathway in Rice and Arabidopsis

    Institute of Scientific and Technical Information of China (English)

    E. Wassim Chehab; John V. Perea; Banu Gopalan; Steve Theg; Katayoon Dehesh

    2007-01-01

    Plants have evolved complex signaling pathways to coordinate responses to developmental and environmental information. The oxylipin pathway is one pivotal lipid-based signaling network, composed of several competing branch pathways, that determines the plant's ability to adapt to various stimuli. Activation of the oxylipin pathway induces the de novo synthesis of biologically active metabolltes called "oxylipins". The relative levels of these metabolltes are a distinct indicator of each plant species and determine the ability of plants to adapt to different stimuli. The two major branches of the oxylipln pathway, allene oxide synthase (AOS) and hydroperoxide lyase (HPL) are responsible for production of the signaling compounds,jasmonates and aldehydes respectively. Here, we compare and contrast the regulation of AOS and HPL branch pathways in rice and Arabidopsis as model monocotyledonous and dicotyledonous systems. These analyses provide new Insights into the evolution of JAs and aldehydes signaling pathways, and the complex network of processes responsible for stress adaptations in monocots and dicots.

  13. Gram-Positive Bacteria Associated with Rice in China and Their Antagonists Against the Pathogens of Sheath Blight and Bakanae Disease in Rice

    Institute of Scientific and Technical Information of China (English)

    LUO Jin-yan; XIE Guan-lin; LI Bin; LUO Yuan-chan; ZHAO Li-han; WANG Xiao; LIU Bo; LI Wen

    2005-01-01

    It is necessary to understand the bacterial populations associated with rice so as to provide more information and natural resources for effective management of major diseases in rice. A survey on screening and identification of gram-positive bacteria was conducted during 1998-2004. Seven hundred and fifty-six rice samples were collected from Zhejiang, Jiangsu, Fujian and Yunnan Provinces, China. Over 1000 bacterial isolates were isolated and tested for colony morphology, pathogenicity, and some characteristics of bacteriology including Gram staining, fluorescent pigment on Kings medium B and microscopic observation for endospore. Together with five standard reference strains, 74 representative gram-positive bacterial isolates were confirmed by Biolog and gas chromatographic analysis of fatty acid methyl esters. Five bacterial species of Bacillus and other three genera were identified and isolates from Bacillus sublitis and Bacillus megaterium, exhibited the most effective inhibition against the pathogens of sheath blight and bakanae disease of rice. A few isolates from Bacillus pumilus and Bacillus megaterium showed weak virulent on rice together with some virulent isolates, dsk should be considered when isolates from these species were screened for biocontrol agents.

  14. Rice bran proteins: properties and food uses.

    Science.gov (United States)

    Prakash, J

    1996-07-01

    Rice bran, a good source of protein and fat, is at present underutilized as a food material. The potential of producing rice bran at the global level is 27.3 million t. The presence of enzyme lipase in rice bran causes rapid deterioration of oil to free fatty acids and glycerol. Various stabilization techniques involving heat treatment, low-temperature storage, chemical treatment, control of relative humidity during storage, and simultaneous milling and extraction were evolved to inactivate lipase. Multiple forms of rice bran lipase have been identified. Fractional classification of proteins reveals a high percentage of albumins and globulins. Proteins can be extracted from full-fat or defatted rice bran by alkaline extraction and acid or heat precipitation. Extraction procedures influence the protein content of concentrates, which ranged from 19.4 to 76.1% in concentrates from full-fat rice bran and 17.5 to 85.0% in concentrates from defatted rice bran. The PER of rice bran ranges from 1.59 to 2.04 and that of protein concentrates from 1.99 to 2.19. Available lysine contents of protein concentrates ranged from 54 to 58.8%. The essential amino acid profiles of protein concentrates indicate that threonine and isoleucine are limiting amino acids. Various functional properties of rice bran protein concentrates have also been investigated that are known to be influenced by drying technique and stabilization treatment of rice bran. Rice bran has been used in food as full-fat rice bran, defatted rice bran, and in the form of rice bran oil and protein concentrates. Full-fat and defatted rice bran have been used in bakery products, breakfast cereals, wafers, as a protein supplement, binder ingredients for meats and sausages, and as a beverage base. Incorporation of protein concentrates have been studied in bread, beverages, confections, and weaning foods. PMID:8841730

  15. Different time and energy budgets of Lesser Snow Geese in rice-prairies and coastal marshes in southwest Louisiana

    Science.gov (United States)

    Jonsson, J.E.; Afton, A.D.

    2006-01-01

    Many bird species use human-made habitats and an important issue is whether these are equally suitable foraging habitats as are historical, natural habitats. Historically, Lesser Snow Geese (Chen caerulescens caerulescens, hereafter Snow Geese) wintered in coastal marshes in Louisiana but began using rice-prairies within the last 60 years. Time spent feeding was used as an indicator of habitat suitability and time and energy budgets of Snow Geese were compared between rice-prairies and coastal marshes in southwest Louisiana. Composite diets of Snow Geese have a lower energy density in the rice-prairies than in coastal marshes; thus, we predicted that Snow Geese would spend relatively more time feeding in rice-praires to obtain existence energy. However, time spent feeding was higher in coastal marshes and thus, not proportional to energy density of composite diets. Snow Geese in coastal marshes ingested less apparent metabolizable energy than did Snow Geese in rice-prairies. In rice-prairies, juveniles spent more time feeding than did adults; however, time spent feeding was similar between age classes in coastal marshes. Undeveloped foraging skills probably cause juvenile Snow Geese to forage less efficiently in coastal marshes than in rice-prairies. These findings are consistent with recent trends in Snow Goose numbers, which increased in rice-prairies but remained stable in coastal marshes.

  16. Utilization Of Rice Husk Ash

    Directory of Open Access Journals (Sweden)

    S. D. Nagrale

    2012-07-01

    Full Text Available India is a major rice producing country, and the husk generated during milling is mostly used as a fuel in the boilers for processing paddy, producing energy through direct combustion and / or by gasification. About 20 million tones of Rice Husk Ash (RHA is produced annually. This RHA is a great environment threat causing damage to the land and the surrounding area in which it is dumped. Lots of ways are being thought of for disposing them by making commercial use of this RHA. RHA can be used as a replacement for concrete (15 to 25%.This paper evaluates how different contents of Rice Husk Ash added to concrete may influence its physical and mechanical properties. Sample Cubes were tested with different percentage of RHA and different w/c ratio, replacing in mass the cement. Properties like Compressive strength, Water absorption and Slump retention were evaluated.

  17. Genetic analysis of rice allelopathy

    Institute of Scientific and Technical Information of China (English)

    2003-01-01

    A double haploid population derived from anther culture of ZYQ8/JX17, a typical indica and japonica hybrid, was used in this study. The inhibited effect of water-soluble extract of 123 DH pure lines leaves on the lettuce roots growth was investigated, and the QTLs analysis of rice allelopathy was carried out. Totally, four QTLs related to rice allelopathy were detected, and they were on chromosomes 3, 9, 10 and 12, respectively. The LOD scores were 3.40, 2.68. 2.75 and 3.08, respectively. Among them, additive effects of the QTLs on chromosomes 3 and 10 were 1.65 and 1.43, on chromosomes 9 and 12 were ?1.44 and ?1.58, respectively. Allelopathy characteristics of another three common rice varieties were also studied.

  18. FEASIBILITY OF EXPORT OF RICE BY BANGLADESH

    OpenAIRE

    Chowdhury, Nurun Nabi; Aziz, Abdul

    1992-01-01

    The paper has examined the feasibility of rice export as a dual trade with the import of wheat. It has indicated that the need for such a trade arises from the likely surplus of rice that might be generated in the future due to higher growth of production of rice than its consumption, and deficit of wheat from the stagnancy of production against higher growth rate of its consumption. At the current self sufficiency of rice production, the export of rice is desirable from two stand points: fir...

  19. Iron biofortification of Myanmar rice

    Directory of Open Access Journals (Sweden)

    May Sann Aung

    2013-05-01

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

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

    Science.gov (United States)

    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

  1. Rice price instability in Bangladesh

    OpenAIRE

    Mili, Jobaida Yeasmin

    2012-01-01

    In the 2000s, the global attention was concentrated at the food price stability because of the rapid increase in cereal and other food prices. This rapid increase of food price has become a burden for the developing countries as well as for Bangladesh where households spend a large share of their income on food. Among the cereals rice has a strategic importance because it is the central to food security and economic and political stability of the country. Fluctuation in rice prices is not rar...

  2. Rice-Traditional Medicinal Plant in India

    Directory of Open Access Journals (Sweden)

    M. Umadevi

    2012-05-01

    Full Text Available Rice is rich in genetic diversity, with thousands of varieties grown throughout the world. Rice cultivation is the principal activity and source of income for about 100 million households in Asia and Africa. Rice has potential in a wide range of food categories. Besides having nutritional and medicinal benefits, the by-products of rice are equally important and beneficial. By-products from growing rice create many valuable and worthwhile products. The unedible parts, that are discarded through the milling process, and the edible part could be transformed into some of the following suggested products. Rice can be used to treat skin conditions. The rice is boiled, drained and allowed to cool and mashed. The rice is made into a paste or moulded into balls and these can be applied to boils, sores, swellings and skin blemishes. Other herbs are sometimes added to the rice balls to increase their medicinal effects. Sticky glutinous rice is often taken to treat stomach upsets, heart-burn and indigestion. Extracts from brown rice have been used to treat breast and stomach cancer and warts. They have also been used to treat indigestion, nausea and diarrhoea.

  3. Resistance study of packaging materials to rice insects pest

    International Nuclear Information System (INIS)

    The resistance of several packaging materials to penetration by 4 species of rice insect pests was determined. Five insects of adult or larval stage were confined in pouches made from 9 different packaging materials with or without irradiated rice. It was observed that both adults and larvae of species Tribolium castaneum Herbst., Sitophilus zeamais L., Oryzaephilus surinamensis L. and Cocyra cephalonica Stainton, were incapable of penetrating pouches made from white polyvinychloride of 0.175mm thickness, low density polyethylene of 0.130mm thickness and 0.150mm thick low density polyethylene. However, penetrations marks were found in pouches made from hard paper with a thickness of 0.155mm, clear polivinylchloride of 0.130mm thickness, low density polyethylene of 0.085mm thickness, low density polyethylene 0.100mm thick, high density polyethylene of 0.06mm thickness and 0.080mm thick polypropylene. Tribolium castaneum could be considered as a weak penetrator whilst Cocyra cephalonica was the main pouch penetrator. Penetrations of pouches mostly occured within the first week. This study showed that gamma irradiation at a dose of 1.0 kGy was effective in inhibiting egg development and killing larvae of insects found in rice within this study period

  4. The influences of cropping systems on weed communities of rice in Côte d'Ivoire, West Africa

    OpenAIRE

    Kent, R.; Johnson, D E; Becker, M

    2001-01-01

    In West Africa agricultural land use for rice production is changing rapidly with increased cropping intensity in some areas. Studies were conducted to examine how the different cropping systems are reflected in rice weed populations. Weed species were surveyed on 126 rice farms in the humid forest to the moist savannah zones of Côte d'Ivoire. Two additional surveys were undertaken in a peri-urban area of the savannah zone to examine the effects water control and cropping diversification on w...

  5. Analysis on Rice Production and International Trade in Vietnam

    Institute of Scientific and Technical Information of China (English)

    RUAN Liu-qing; JIANG Yun-zhu; LU Li-xiang; LIN Hai; PANG Qian-lin

    2011-01-01

    This paper introduces Vietnam’s climate condition,main rice production regions and analyses the expansion of rice planting area,rice cropping system during the last decades.The result from the change of rice production,planting area,yield,and rice trade indicates that the economic reforms in Vietnam from 1986 have contributed to a spectacular rise in rice production and exports.However,there are still problems and opportunities for rice production and export in Vietnam.The paper suggests that Vietnam should make the most use of the advanced international rice cultivars and technology to improve irrigation and water conservancy facilities to benefit rice farmer and consolidate Vietnam to be the major exporter of rice in the world market.%This paper introduces Vietnam's climate condition,main rice production regions and analyses the expansion of rice planting area,rice cropping system during the last decades.The result from the change of rice production,planting area,yield,and rice trade indicates that the economic reforms in Vietnam from 1986 have contributed to a spectacular rise in rice production and exports.However,there are still problems and opportunities for rice production and export in Vietnam.The paper suggests that Vietnam should make the most use of the advanced international rice cultivars and technology to improve irrigation and water conservancy facilities to benefit rice farmer and consolidate Vietnam to be the major exporter of rice in the world market.

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

    Science.gov (United States)

    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...

  7. The genetics analysis of rice mutant R917 with resistance to rice blast (pyricularia oryza)

    International Nuclear Information System (INIS)

    Rice mutant R917 with resistance to rice blast was selected by induced mutation with irradiation. The F2 segregation of R917/NF6, XS11, XS861 crosses with resistance to rice blast ZB15, ZC13, ZE3 showed that the rice blast resistance is controlled by one dominant gene. The identification of the disease resistance for the progenies of R917 crosses with XS11, XS861 showed that R917 could be used as a good material for resistance to rice blast in rice breeding

  8. Sodium accumulation in rice and quinoa

    International Nuclear Information System (INIS)

    Full text: Sensitivity to salinity is often attributed to excessive accumulation of Na+ ions in leaf cells. This implies that screening for low Na+ accumulation should result in enhanced tolerance to salt. While this is generally true, there are a number of examples where Na+ accumulation is not the only factor. In rice (Oryza sativa) there is good evidence linking genetically-determined Na+ accumulation with tolerance to salinity, but there are other factors that should be considered, including Cl- accumulation and the inter- and intra-cellular distribution of solutes. In quinoa (Chenopodium quinoa) There are large varietal differences in Na+ accumulation, but smaller differences in salt tolerance. We have studied the genetics of salinity responses in two cultivars of rice, Co39 and Moroberekan. The latter accumulates more Na+ than Co39 and many other rice varieties. Experiments at a range of salt concentrations and with varying Na: Ca ratios showed that Na+ accumulation was initially quite low, but increased with time of exposure to salt. Part of the increase in Na+, and all of the observed increase in K+ concentrations, could be attributed to dehydration of the leaves. Measurements of leaf solute and water potentials indicated that solutes accumulated in the leaf apoplast. This resulted in reduced turgor and increased leaf rolling. Concentrations of Cl- in the leaves were several times higher than those of Na+. QTL analysis of a hybrid population derived from these varieties revealed a major QTL for leaf Na+ accumulation on chromosome 1 at a position where QTL for salt tolerance and Na+ uptake have been identified by other groups. No QTL were identified for Cl- accumulation. Is rice relatively salt sensitive because it accumulates low concentrations of Na+ under genetic control, or is Cl- (present at much higher concentrations) responsible for salt damage. We are looking for rice accessions that differ in Cl- accumulation to find Cl- QTL. Perhaps it does not

  9. Identiifcation and validation of root-speciifc promoters in rice

    Institute of Scientific and Technical Information of China (English)

    HUANG Li-yu; ZHANG Fan; QIN Qiao; WANG Wen-sheng; ZHANG Ting; FU Bin-ying

    2015-01-01

    Novel promoters that confer root-speciifc expression would be useful for engineering resistance against problems of nutrient and water absorption by roots. In this study, the reverse transcriptase polymerase chain reaction was used to identify seven genes with root-speciifc expression in rice. The isolation and characterization of upstream promoter regions of ifve selected genes rice root-speciifc promoter (rRSP) 1 to 5 (rRSP1-rRSP5) and A2P (the promoter ofOsAct2) revealed that rRSP1, rRSP3, and rRSP5 are particularly important with respect to root-speciifc activities. Furthermore, rRSP1, rRSP3, and rRSP5 were observed to make different contributions to root activities in various species. These three promoters could be used for root-speciifc enhancement of target gene(s).

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

    Science.gov (United States)

    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.

  11. Delivery of roxarsone via chicken diet→chicken→chicken manure→soil→rice plant.

    Science.gov (United States)

    Yao, Lixian; Huang, Lianxi; He, Zhaohuan; Zhou, Changmin; Lu, Weisheng; Bai, Cuihua

    2016-10-01

    Roxarsone (ROX), a widely used feed additive, occurs as itself and its metabolites in animal manure. Rice is prone to accumulate As than other staple food. Four diets with 0, 40, 80 and 120mgROXkg(-1) were fed in chickens, and four chicken manures (CMs) were collected to fertilize rice plants in a soil culture experiment. Linear regression analysis shows that the slopes of As species including 4-hydroxy-phenylarsonic acid, As(V), As(III), monomethylarsonic acid (MMA) and dimethylarsinic acid (DMA) in CM versus dietary ROX were 0.033, 0.314, 0.033, 0.054 and 0.138, respectively. Both As(III) and DMA were determined in all rice grains, and As(III), As(V), MMA and DMA in rice hull, but detectable As forms in rice straws and soils increased with increasing ROX dose. Grain As(III) was unrelated to ROX dose but exceeded the Chinese rice As limit (0.15mgAs(III)kg(-1)). Dietary ROX enhanced straw As(III) mostly, with the slope of 0.020, followed by hull DMA (0.006) and grain DMA (0.002). The slopes of soil As(V) and As(III) were 0.003 and 0.001. This is the first report illustrating the quantitative delivery of ROX via food chain, which helps to evaluate health and environmental risks caused by ROX use in animal production. PMID:27265740

  12. Local mat-forming cyanobacteria effectively facilitate decontamination of radioactive cesium in rice fields

    International Nuclear Information System (INIS)

    The most effective and widespread method to decontaminate radioactive cesium from the Fukushima Daiichi Nuclear Power Plant Disaster was peeling topsoil. But the method had problems, such as large amounts of discarded soil and large-scale work. In nature, cyanobacteria formed biomats on the ground surface and facilitated peeling topsoil when the biomats dried. The cyanobacteria-facilitating peeling decontamination method utilized these cyanobacterial properties. Cyanobacteria are located all over Japan and 'local' cyanobacteria could be used for decontamination without introducing new species. Utilizing cyanobacteria could decrease the amount of discarded soil to about 30% and downsize the execution-scale to individual locations. Cyanobacterial biomats were easily cultivated, especially in rice fields, by maintaining wet conditions and exposure to 100 - 83% solar radiation. Shading by a thin net was helpful in maintaining an environment suitable for cyanobacteria. Nowadays, to prevent uptake of radioactive cesium into rice, K+ is usually added to fertilizer in rice fields. The K+ fertilization in rice fields might also enhance cyanobacterial capture of radioactive cesium, because high concentrations of K+ enhanced cyanobacterial uptake of Cs+. Cyanobacteria could also mitigate the risk of radioactive cesium moving away from a decontaminating rice field. Therefore, the cyanobacteria-facilitating peeling decontamination method was proposed as an easy and safe 'D.I.Y.' method for both farmers and the environment. Besides, plowing rice fields with water before peeling improved the efficiency of this method, because plowing increased the radioactive cesium concentration in the topsoil. (author)

  13. Biochar amendment immobilizes lead in rice paddy soils and reduces its phytoavailability

    Science.gov (United States)

    Li, Honghong; Liu, Yuting; Chen, Yanhui; Wang, Shanli; Wang, Mingkuang; Xie, Tuanhui; Wang, Guo

    2016-08-01

    This study aimed to determine effects of rice straw biochar on Pb sequestration in a soil-rice system. Pot experiments were conducted with rice plants in Pb-contaminated paddy soils that had been amended with 0, 2.5, and 5% (w/w) biochar. Compared to the control treatment, amendment with 5% biochar resulted in 54 and 94% decreases in the acid soluble and CaCl2-extractable Pb, respectively, in soils containing rice plants at the maturity stage. The amount of Fe-plaque on root surfaces and the Pb concentrations of the Fe-plaque were also reduced in biochar amended soils. Furthermore, lead species in rice roots were determined using Pb L3-edge X-ray absorption near edge structure (XANES), and although Pb-ferrihydrite complexes dominated Pb inventories, increasing amounts of organic complexes like Pb-pectins and Pb-cysteine were found in roots from the 5% biochar treatments. Such organic complexes might impede Pb translocation from root to shoot and subsequently reduce Pb accumulation in rice with biochar amendment.

  14. Upland rice under no-tillage preceded by crops for soil cover and nitrogen fertilization

    Directory of Open Access Journals (Sweden)

    Edemar Moro

    2013-12-01

    Full Text Available The grain yield of upland rice under no-tillage has been unsatisfactory and one reason could be the nitrate/ammonium balance in the soil. Cover crops and nitrogen fertilization can be used to change the nitrate/ammonium relation in the soil and improve conditions for the development of upland rice in the no-tillage (NT system. The aim was to study the effect of cover crops and nitrogen sources on grain yield of upland rice under no tillage. The study was carried out on the Fazenda Experimental Lageado, in Botucatu, State of São Paulo, Brazil, in an Oxisol area under no-tillage for six years. The experiment was arranged in a randomized block split-plot design with four replications. The plots consisted of six cover crop species (Brachiaria brizantha, B. decumbens, B. humidicola, B. ruziziensis, Pennisetum americanum, and Crotalaria spectabilis and the split-plots of seven forms of N fertilizer management. Millet is the best cover crop to precede upland rice under NT. The best form of N application, as nitrate, is in split rates or total rate at topdressing or an ammonium source with or without a nitrification inhibitor, in split doses. When the cover crops C. spectabilis, B. brizantha, B. decumbens, B. humidicola, and B. ruziziensis preceded rice, they induced the highest grain yield when rice was fertilized with N as ammonium sulfate source + nitrification inhibitor in split rates or total dose at topdressing.

  15. Biochar amendment immobilizes lead in rice paddy soils and reduces its phytoavailability.

    Science.gov (United States)

    Li, Honghong; Liu, Yuting; Chen, Yanhui; Wang, Shanli; Wang, Mingkuang; Xie, Tuanhui; Wang, Guo

    2016-01-01

    This study aimed to determine effects of rice straw biochar on Pb sequestration in a soil-rice system. Pot experiments were conducted with rice plants in Pb-contaminated paddy soils that had been amended with 0, 2.5, and 5% (w/w) biochar. Compared to the control treatment, amendment with 5% biochar resulted in 54 and 94% decreases in the acid soluble and CaCl2-extractable Pb, respectively, in soils containing rice plants at the maturity stage. The amount of Fe-plaque on root surfaces and the Pb concentrations of the Fe-plaque were also reduced in biochar amended soils. Furthermore, lead species in rice roots were determined using Pb L3-edge X-ray absorption near edge structure (XANES), and although Pb-ferrihydrite complexes dominated Pb inventories, increasing amounts of organic complexes like Pb-pectins and Pb-cysteine were found in roots from the 5% biochar treatments. Such organic complexes might impede Pb translocation from root to shoot and subsequently reduce Pb accumulation in rice with biochar amendment. PMID:27530495

  16. Biochar amendment immobilizes lead in rice paddy soils and reduces its phytoavailability

    Science.gov (United States)

    Li, Honghong; Liu, Yuting; Chen, Yanhui; Wang, Shanli; Wang, Mingkuang; Xie, Tuanhui; Wang, Guo

    2016-01-01

    This study aimed to determine effects of rice straw biochar on Pb sequestration in a soil-rice system. Pot experiments were conducted with rice plants in Pb-contaminated paddy soils that had been amended with 0, 2.5, and 5% (w/w) biochar. Compared to the control treatment, amendment with 5% biochar resulted in 54 and 94% decreases in the acid soluble and CaCl2-extractable Pb, respectively, in soils containing rice plants at the maturity stage. The amount of Fe-plaque on root surfaces and the Pb concentrations of the Fe-plaque were also reduced in biochar amended soils. Furthermore, lead species in rice roots were determined using Pb L3-edge X-ray absorption near edge structure (XANES), and although Pb-ferrihydrite complexes dominated Pb inventories, increasing amounts of organic complexes like Pb-pectins and Pb-cysteine were found in roots from the 5% biochar treatments. Such organic complexes might impede Pb translocation from root to shoot and subsequently reduce Pb accumulation in rice with biochar amendment. PMID:27530495

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

    Science.gov (United States)

    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. PMID:25603722

  18. Heavy metal toxicity in rice and soybean plants cultivated in contaminated soil

    Directory of Open Access Journals (Sweden)

    Maria Lígia de Souza Silva

    2014-04-01

    Full Text Available Heavy metals can accumulate in soil and cause phytotoxicity in plants with some specific symptoms. The present study evaluated the specific symptoms on rice and soybeans plants caused by excess of heavy metals in soil. Rice and soybean were grown in pots containing soil with different levels of heavy metals. A completely randomized design was used, with four replications, using two crop species and seven sample soils with different contamination levels. Rice and soybean exhibited different responses to the high concentrations of heavy metals in the soil. Rice plants accumulated higher Cu, Mn, Pb and Zn concentrations and were more sensitive to high concentrations of these elements in the soil, absorbing them more easily compared to the soybean plants. However, high available Zn concentrations in the soil caused phytotoxicity symptoms in rice and soybean, mainly chlorosis and inhibited plant growth. Further, high Zn concentrations in the soil reduced the Fe concentration in the shoots of soybean and rice plants to levels considered deficient.

  19. Review paper on the production trials of rice-cum fish culture - a transferable concept into Niger State, Nigeria

    OpenAIRE

    Yaro, I.

    1999-01-01

    This paper reviews the production trials of rice-cum-fish culture. Rice and various fish species using rotation and concurrent methods of cultivation are used. The farming system is mostly practiced and researched in to in Southeast Asian countries. It addresses the problems of high external inputs, sustainable aquaculture, poverty and nutrition in the rural population, insect pests, use of insecticides, weeds control and under-utilization of agricultural lands. The production trials yields a...

  20. Evidence for the Emergence of New Rice Types of Interspecific Hybrid Origin in West African Farmers' Fields

    OpenAIRE

    Edwin Nuijten; Robbert van Treuren; Struik, Paul C.; Alfred Mokuwa; Florent Okry; Béla Teeken; Paul Richards

    2009-01-01

    In West Africa two rice species (Oryza glaberrima Steud. and Oryza sativa L.) co-exist. Although originally it was thought that interspecific hybridization is impossible without biotechnological methods, progenies of hybridization appear to occur in farmer fields. AFLP analysis was used to assess genetic diversity in West Africa (including the countries The Gambia, Senegal, Guinea Bissau, Guinea Conakry, Sierra Leone, Ghana and Togo) using 315 rice samples morphologically classified prior to ...

  1. Effects of P-Glycoprotein Inhibitor and Elicitor on the Salt Tolerance of Rice Seedlings

    Institute of Scientific and Technical Information of China (English)

    Liang-Jun Fang; Xiao-Qin Fu; Qun-Shan Ye; Tian Wu; Zheng-Chao Wang; Xiao Chen; Zhi-Kai Zhu; Xing-Fu Zhang; Chui-Kang Fu

    2007-01-01

    Hymexazol (3-Hydroxy-5-methylisoxazole) as the main ingredients of HI (elicitor) was used to screen salt-tolerant species from 122 salt-tolerant rice (Oryza sativa L.) cultivars under specific inducement. The results showed that the local species R6 is highly induce-sensitive. R6 showed salt tolerance during the whole growth period by using 1.0% NaCl solution after HI treatment.Cyclosporin A (CsA) and verapamil (VP) as P-glycoprotein (PGP) inhibitors and rifampin (RFP) as a PGP elicitor were used to treat R6. The morphological traits, structure of the root, physiological characteristics of leaf and root systems, the content of endogenous hormones indole-3-acetic acid (IAA) and abscisic acid (ABA) etc. show that CsA, VP and RFP had remarkable effects on the rice's salt tolerance. Hymexazol inducement (HI) can improve the rice's salt tolerance greatly and make it more salt-resistant.

  2. Molecular evolution and phylogenetic analysis of eight COL superfamily genes in group I related to photoperiodic regulation of flowering time in wild and domesticated cotton (Gossypium) species.

    Science.gov (United States)

    Zhang, Rui; Ding, Jian; Liu, Chunxiao; Cai, Caiping; Zhou, Baoliang; Zhang, Tianzhen; Guo, Wangzhen

    2015-01-01

    Flowering time is an important ecological trait that determines the transition from vegetative to reproductive growth. Flowering time in cotton is controlled by short-day photoperiods, with strict photoperiod sensitivity. As the CO-FT (CONSTANS-FLOWER LOCUS T) module regulates photoperiodic flowering in several plants, we selected eight CONSTANS genes (COL) in group I to detect their expression patterns in long-day and short-day conditions. Further, we individually cloned and sequenced their homologs from 25 different cotton accessions and one outgroup. Finally, we studied their structures, phylogenetic relationship, and molecular evolution in both coding region and three characteristic domains. All the eight COLs in group I show diurnal expression. In the orthologous and homeologous loci, each gene structure in different cotton species is highly conserved, while length variation has occurred due to insertions/deletions in intron and/or exon regions. Six genes, COL2 to COL5, COL7 and COL8, exhibit higher nucleotide diversity in the D-subgenome than in the A-subgenome. The Ks values of 98.37% in all allotetraploid cotton species examined were higher in the A-D and At-Dt comparison than in the A-At and D-Dt comparisons, and the Pearson's correlation coefficient (r) of Ks between A vs. D and At vs. Dt also showed positive, high correlations, with a correlation coefficient of at least 0.797. The nucleotide polymorphism in wild species is significantly higher compared to G. hirsutum and G. barbadense, indicating a genetic bottleneck associated with the domesticated cotton species. Three characteristic domains in eight COLs exhibit different evolutionary rates, with the CCT domain highly conserved, while the B-box and Var domain much more variable in allotetraploid species. Taken together, COL1, COL2 and COL8 endured greater selective pressures during the domestication process. The study improves our understanding of the domestication-related genes/traits during cotton

  3. Trace Element Management in Rice

    Directory of Open Access Journals (Sweden)

    Abin Sebastian

    2015-08-01

    Full Text Available Trace elements (TEs are vital for the operation of metabolic pathways that promote growth and structural integrity. Paddy soils are often prone to TE limitation due to intensive cultivation and irrigation practices. Apart from this, rice paddies are potentially contaminated with transition metals such as Cd, which are often referred to as toxic TEs. Deficiency of TEs in the soil not only delays plant growth but also causes exposure of plant roots to toxic TEs. Fine-tuning of nutrient cycling in the rice field is a practical solution to cope with TEs deficiency. Adjustment of soil physicochemical properties, biological process such as microbial activities, and fertilization helps to control TEs mobilization in soil. Modifications in root architecture, metal transporters activity, and physiological processes are also promising approaches to enhance TEs accumulation in grains. Through genetic manipulation, these modifications help to increase TE mining capacity of rice plants as well as transport and trafficking of TEs into the grains. The present review summarizes that regulation of TE mobilization in soil, and the genetic improvement of TE acquisition traits help to boost essential TE content in rice grain.

  4. Negative phototropism of rice root

    Institute of Scientific and Technical Information of China (English)

    2001-01-01

    @@It is often believed that the stem of higher plants has characteristics of positive phototropism, and the root shows no phototropism or no sensitivity to light though the root of Arabdopsis was reported possessing characteristics of negative phototropism. In this study, a distinct negative phototropism of the root system of rice seedlings was observed.

  5. RiceDB: A Web-Based Integrated Database for Annotating Rice Microarray

    Institute of Scientific and Technical Information of China (English)

    HE Fei; SHI Qing-yun; CHEN Ming; WU Ping

    2007-01-01

    RiceDB, a web-based integrated database to annotate rice microarray in various biological contexts was developed. It is composed of eight modules. RiceMap module archives the process of Affymetrix probe sets mapping to different databases about rice, and aims to the genes represented by a microarray set by retrieving annotation information via the identifier or accession number of every database; RiceGO module indicates the association between a microarray set and gene ontology (GO) categories; RiceKO module is used to annotate a microarray set based on the KEGG biochemical pathways; RiceDO module indicates the information of domain associated with a microarray set; RiceUP module is used to obtain promoter sequences for all genes represented by a microarray set; RiceMR module lists potential microRNA which regulated the genes represented by a microarray set; RiceCD and RiceGF are used to annotate the genes represented by a microarray set in the context of chromosome distribution and rice paralogous family distribution. The results of automatic annotation are mostly consistent with manual annotation. Biological interpretation of the microarray data is quickened by the help of RiceDB.

  6. Evaluating the Effect of Expressing a Peanut Resveratrol Synthase Gene in Rice

    Science.gov (United States)

    Li, Zhen; Wang, Qingguo; Yao, Fangyin; Yang, Lianqun; Pan, Jiaowen; Liu, Wei

    2015-01-01

    Resveratrol (Res) is a type of natural plant stilbenes and phytoalexins that only exists in a few plant species. Studies have shown that the Res could be biosynthesized and accumulated within plants, once the complete metabolic pathway and related enzymes, such as the key enzyme resveratrol synthase (RS), existed. In this study, a RS gene named PNRS1 was cloned from the peanut, and the activity was confirmed in E. coli. Using transgenic approach, the PNRS1 transgenic rice was obtained. In T3 generation, the Res production and accumulation were further detected by HPLC. Our data revealed that compared to the wild type rice which trans-resveratrol was undetectable, in transgenic rice, the trans-resveratrol could be synthesized and achieved up to 0.697 μg/g FW in seedlings and 3.053 μg/g DW in seeds. Furthermore, the concentration of trans-resveratrol in transgenic rice seedlings could be induced up to eight or four-fold higher by ultraviolet (UV-C) or dark, respectively. Simultaneously, the endogenous increased of Res also showed the advantages in protecting the host plant from UV-C caused damage or dark-induced senescence. Our data indicated that Res was involved in host-defense responses against environmental stresses in transgenic rice. Here the results describes the processes of a peanut resveratrol synthase gene transformed into rice, and the detection of trans-resveratrol in transgenic rice, and the role of trans-resveratrol as a phytoalexin in transgenic rice when treated by UV-C and dark. These findings present new outcomes of transgenic approaches for functional genes and their corresponding physiological functions, and shed some light on broadening available resources of Res, nutritional improvement of crops, and new variety cultivation by genetic engineering. PMID:26302213

  7. Evaluating the Effect of Expressing a Peanut Resveratrol Synthase Gene in Rice.

    Directory of Open Access Journals (Sweden)

    Shigang Zheng

    Full Text Available Resveratrol (Res is a type of natural plant stilbenes and phytoalexins that only exists in a few plant species. Studies have shown that the Res could be biosynthesized and accumulated within plants, once the complete metabolic pathway and related enzymes, such as the key enzyme resveratrol synthase (RS, existed. In this study, a RS gene named PNRS1 was cloned from the peanut, and the activity was confirmed in E. coli. Using transgenic approach, the PNRS1 transgenic rice was obtained. In T3 generation, the Res production and accumulation were further detected by HPLC. Our data revealed that compared to the wild type rice which trans-resveratrol was undetectable, in transgenic rice, the trans-resveratrol could be synthesized and achieved up to 0.697 μg/g FW in seedlings and 3.053 μg/g DW in seeds. Furthermore, the concentration of trans-resveratrol in transgenic rice seedlings could be induced up to eight or four-fold higher by ultraviolet (UV-C or dark, respectively. Simultaneously, the endogenous increased of Res also showed the advantages in protecting the host plant from UV-C caused damage or dark-induced senescence. Our data indicated that Res was involved in host-defense responses against environmental stresses in transgenic rice. Here the results describes the processes of a peanut resveratrol synthase gene transformed into rice, and the detection of trans-resveratrol in transgenic rice, and the role of trans-resveratrol as a phytoalexin in transgenic rice when treated by UV-C and dark. These findings present new outcomes of transgenic approaches for functional genes and their corresponding physiological functions, and shed some light on broadening available resources of Res, nutritional improvement of crops, and new variety cultivation by genetic engineering.

  8. Inorganic arsenic contents in rice-based infant foods from Spain, UK, China and USA

    International Nuclear Information System (INIS)

    Spanish gluten-free rice, cereals with gluten, and pureed baby foods were analysed for total (t-As) and inorganic As (i-As) using ICP-MS and HPLC–ICP-MS, respectively. Besides, pure infant rice from China, USA, UK and Spain were also analysed. The i-As contents were significantly higher in gluten-free rice than in cereals mixtures with gluten, placing infants with celiac disease at high risk. All rice-based products displayed a high i-As content, with values being above 60% of the t-As content and the remainder being dimethylarsinic acid (DMA). Approximately 77% of the pure infant rice samples showed contents below 150 μg kg−1 (Chinese limit). When daily intake of i-As by infants (4–12 months) was estimated and expressed on a bodyweight basis (μg d−1 kg−1), it was higher in all infants aged 8–12 months than drinking water maximum exposures predicted for adults (assuming 1 L consumption per day for a 10 μg L−1 standard). Highlights: ► Inorganic As was higher in rice-based foods than in items based on other cereals. ► Total As was very high in fish-based foods but As was present as non-toxic species. ► The maximum daily intake of i-As was found between 8 and 12 months of age. ► Pure infant rice samples from Spain presented relatively low i-As contents. ► Infants with the celiac disease are exposed to elevated levels of i-As. - Infants with the celiac disease are exposed to high levels of inorganic arsenic because of their high consumption of rice-based foods.

  9. Observations on the Foliar Nematode, Aphelenchoides besseyi, Infecting Tuberose and Rice in India.

    Science.gov (United States)

    Khan, Matiyar R; Handoo, Zafar A; Rao, Uma; Rao, S B; Prasad, J S

    2012-12-01

    The foliar nematode Aphelenchoides besseyi causes white tip disease in rice (Oryza sativa L.) and floral malady in tuberose (Polianthes tuberosa L.). This nematode is widely distributed in the rice fields of many states of India, including West Bengal (WB), Andhra Pradesh (AP), Madhya Pradesh (MP) and Gujarat (GT). In order to generate information on intraspecific variations of A. besseyi as well as to confirm the identity of the nematode species infecting these important crops, morphological observation was undertaken of A. besseyi isolated from tuberose and rice from WB and rice from AP, MP and GT. The molecular study was only done for rice and tuberose populations from AP and WB. The variations were observed among the populations in the tail, esophageal and anterior regions, including the occurrence of four as well as six lateral lines in the lateral fields. The morphometrics of observed populations showed variations and those could be regarded as a consequence of host-induced or geographical variations. PCR amplification of the rDNA ITS 1 and 2 region of rice (AP) and tuberose (WB) populations of A. besseyi generated one fragment of approximately 830 bp, and the size of the ITS region was 788 bp and 791 bp for tuberose and rice population, respectively. Alignment of the two sequences showed almost 100% similarity. Blast analysis revealed a very high level of similarity of both the Indian strains to a Russian population. The Indian and Russian strains could be differentiated using restriction enzyme Bccl. Host tests revealed that rice (cv. IET 4094), oat (cv. OS-6) and teosinte (cv. TL-1) showed a typical distortion due to the infection of A. besseyi. Five germplasm lines of oat showed no infection of the nematode under field conditions. Local cultivars of onion, maize, chrysanthemum, gladiolus, and Sorghum halepense were also not infected by A. besseyi.

  10. Comparative proteomic analysis provides new insights into cadmium accumulation in rice grain under cadmium stress

    Energy Technology Data Exchange (ETDEWEB)

    Xue, Dawei, E-mail: dwxue@hznu.edu.cn [College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou 310036 (China); State Key Laboratory of Rice Biology, China National Rice Research Institute, Hangzhou 310006 (China); Jiang, Hua [State Key Laboratory Breeding Base for Zhejiang Sustainable Pest and Disease Control, Zhejiang Academy of Agricultural Science, Hangzhou 310021 (China); Deng, Xiangxiong; Zhang, Xiaoqin [College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou 310036 (China); Wang, Hua [State Key Laboratory Breeding Base for Zhejiang Sustainable Pest and Disease Control, Zhejiang Academy of Agricultural Science, Hangzhou 310021 (China); Xu, Xiangbin [College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou 310036 (China); Hu, Jiang; Zeng, Dali [State Key Laboratory of Rice Biology, China National Rice Research Institute, Hangzhou 310006 (China); Guo, Longbiao, E-mail: guolongbiao@caas.cn [State Key Laboratory of Rice Biology, China National Rice Research Institute, Hangzhou 310006 (China); Qian, Qian, E-mail: qianqian188@hotmail.com [College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou 310036 (China); State Key Laboratory of Rice Biology, China National Rice Research Institute, Hangzhou 310006 (China)

    2014-09-15

    Graphical abstract: - Highlights: • Cd is the most toxic heavy metal and is a major pollutant in rice grains. • The mechanism of Cd accumulation in rice grains has not been well demonstrated. • Proteomics analysis is carried out and the verification is implemented by QPCR. • Proteins associated with ROS and photosynthesis showed large variation in expression. - Abstract: Rice is one of the most important staple crops. During the growth season, rice plants are inevitably subjected to numerous stresses, among which heavy metal stress represented by cadmium contamination not only hindering the yield of rice but also affecting the food safety by Cd accumulating in rice grains. The mechanism of Cd accumulation in rice grains has not been well elucidated. In this study, we compare the proteomic difference between two genotypes with different Cd accumulation ability in grains. Verification of differentially expressed protein-encoding genes was analyzing by quantitative PCR (QPCR) and reanalysis of microarray expression data. Forty-seven proteins in total were successfully identified through proteomic screening. GO and KEGG enrichment analysis showed Cd accumulation triggered stress-related pathways in the cells, and strongly affecting metabolic pathways. Many proteins associated with nutrient reservoir and starch-related enzyme were identified in this study suggesting that a considerably damage on grain quality was caused. The results also implied stress response was initiated by the abnormal cells and the transmission of signals may mediated by reactive oxygen species (ROS). Our research will provide new insights into Cd accumulation in rice grain under Cd stress.

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

    Science.gov (United States)

    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

  12. Influence of growing location and cultivar on Rhyzopertha dominica (Coleoptera: Bostrichidae) and Sitophilus oryzae (Coleoptera: Curculionidae) infestation of rough rice

    Institute of Scientific and Technical Information of China (English)

    FRANK H. ARTHUR; RUSTY C. BAUTISTA; TERRENCE J. SIEBENMORGEN

    2007-01-01

    Long-grain rice cultivars Cocodrie, Wells, and XP 723 grown in three locations (Hazen, MO; Essex and Newport, AR, USA), and medium-grain rice cultivars Bengal and XP 713 grown in two locations (Jonesboro and Lodge Corner, AR, USA), were harvested and assayed for susceptibility to Rhyzopertha dominica (F.) (Coleoptera: Bostrichidae), the lesser grain borer, and Sitophilus oryzae (L.) (Coleoptera: Curculionidae), the rice weevil, on rice held at 27℃ 57% and 75% relative humidity (RH).Separate samples from the same harvest lots were also analyzed for the physical characteristics of brown rice yield, percentage whole kernels and kernel thickness. Progeny production and feeding damage of R. dominica were significantly different among long-grain cultivars within two of the three locations (P < 0.05), but not for location or RH (P ≥ 0.05), while progeny production of S. oryzae was different among cultivars, location, and RH (P < 0.05). On medium-grain rice, both cultivar and location were significant for progeny production of R. dominica, but not RH, while cultivar and RH were significant for progeny production of S. oryzae, but not location. On both rice types, feeding damage of R. dominica followed the same trends and was always strongly positively correlated with progeny production (P < 0.05), but for S. oryzae there were several instances in which progeny production was not correlated with feeding damage (P ≥ 0.05). Physical characteristics of both rice types were statistically significant (P < 0.01) but actual numerical differences were extremely small, and were generally not correlated with progeny production of either species. Results indicate that the location in which a particular rice cultivar is grown, along with its characteristics, could affect susceptibility of the rice to R. dominica and S. oryzae.

  13. Transcriptome phase distribution analysis reveals diurnal regulated biological processes and key pathways in rice flag leaves and seedling leaves.

    Directory of Open Access Journals (Sweden)

    Wenying Xu

    Full Text Available Plant diurnal oscillation is a 24-hour period based variation. The correlation between diurnal genes and biological pathways was widely revealed by microarray analysis in different species. Rice (Oryza sativa is the major food staple for about half of the world's population. The rice flag leaf is essential in providing photosynthates to the grain filling. However, there is still no comprehensive view about the diurnal transcriptome for rice leaves. In this study, we applied rice microarray to monitor the rhythmically expressed genes in rice seedling and flag leaves. We developed a new computational analysis approach and identified 6,266 (10.96% diurnal probe sets in seedling leaves, 13,773 (24.08% diurnal probe sets in flag leaves. About 65% of overall transcription factors were identified as flag leaf preferred. In seedling leaves, the peak of phase distribution was from 2:00am to 4:00am, whereas in flag leaves, the peak was from 8:00pm to 2:00am. The diurnal phase distribution analysis of gene ontology (GO and cis-element enrichment indicated that, some important processes were waken by the light, such as photosynthesis and abiotic stimulus, while some genes related to the nuclear and ribosome involved processes were active mostly during the switch time of light to dark. The starch and sucrose metabolism pathway genes also showed diurnal phase. We conducted comparison analysis between Arabidopsis and rice leaf transcriptome throughout the diurnal cycle. In summary, our analysis approach is feasible for relatively unbiased identification of diurnal transcripts, efficiently detecting some special periodic patterns with non-sinusoidal periodic patterns. Compared to the rice flag leaves, the gene transcription levels of seedling leaves were relatively limited to the diurnal rhythm. Our comprehensive microarray analysis of seedling and flag leaves of rice provided an overview of the rice diurnal transcriptome and indicated some diurnal regulated

  14. Aerobic rice mechanization: techniques for crop establishment

    Science.gov (United States)

    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.

  15. Differences between rice and wheat in temperature responses of photosynthesis and plant growth.

    Science.gov (United States)

    Nagai, Takeshi; Makino, Amane

    2009-04-01

    The temperature responses of photosynthesis (A) and growth were examined in rice and wheat grown hydroponically under day/night temperature regimes of 13/10, 19/16, 25/19, 30/24 and 37/31 degrees C. Irrespective of growth temperature, the maximal rates of A were found to be at 30-35 degrees C in rice and at 25-30 degrees C in wheat. Below 25 degrees C the rates were higher in wheat, while above 30 degrees C they were higher in rice. However, in both species, A measured at the growth temperature remained almost constant irrespective of temperature. Biomass production and relative growth rate (RGR) were greatest in rice grown at 30/24 degrees C and in wheat grown at 25/19 degrees C. Although there was no difference between the species in the optimal temperature of the leaf area ratios (LARs), the net assimilation rate (NAR) in rice decreased at low temperature (19/16 degrees C) while the NAR in wheat decreased at high temperature (37/31 degrees C). For both species, the N-use efficiency (NUE) for growth rate (GR), estimated by dividing the NAR by leaf-N content, correlated with GR and with biomass production. Similarly, when NUE for A at growth temperature was estimated, the temperature response of NUE for A was similar to that of NUE for GR in both species. The results suggest that the difference between rice and wheat in the temperature response of biomass production depends on the difference in temperature dependence of NUE for A.

  16. Levels and patterns of nucleotide variation in domestication QTL regions on rice chromosome 3 suggest lineage-specific selection.

    Directory of Open Access Journals (Sweden)

    Xianfa Xie

    Full Text Available Oryza sativa or Asian cultivated rice is one of the major cereal grass species domesticated for human food use during the Neolithic. Domestication of this species from the wild grass Oryza rufipogon was accompanied by changes in several traits, including seed shattering, percent seed set, tillering, grain weight, and flowering time. Quantitative trait locus (QTL mapping has identified three genomic regions in chromosome 3 that appear to be associated with these traits. We would like to study whether these regions show signatures of selection and whether the same genetic basis underlies the domestication of different rice varieties. Fragments of 88 genes spanning these three genomic regions were sequenced from multiple accessions of two major varietal groups in O. sativa--indica and tropical japonica--as well as the ancestral wild rice species O. rufipogon. In tropical japonica, the levels of nucleotide variation in these three QTL regions are significantly lower compared to genome-wide levels, and coalescent simulations based on a complex demographic model of rice domestication indicate that these patterns are consistent with selection. In contrast, there is no significant reduction in nucleotide diversity in the homologous regions in indica rice. These results suggest that there are differences in the genetic and selective basis for domestication between these two Asian rice varietal groups.

  17. [Major domestication traits in Asian rice].

    Science.gov (United States)

    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.

  18. Review and prospect of transgenic rice research

    Institute of Scientific and Technical Information of China (English)

    CHEN Hao; LIN YongJun; ZHANG QiFa

    2009-01-01

    Rice is one of the most important crops as the staple food for more than half of the world's population.Rice improvement has achieved remarkable success in the past half-century,with the yield doubled in most parts of the world and even tripled in certain regions,which has contributed greatly to food security globally.Rapid population growth and economic development pose a constantly increased food requirement.However,rice yield has been hovering in the past decade,which is mainly caused by the absence of novel breeding technologies,reduction of genetic diversity of rice cultivars,and serious yield loss due to increasingly severe occurrences of insects,diseases,and abiotic stresses.To address these challenges,Chinese scientists proposed a novel rice breeding goal of developing Green Super Rice to improve rice varieties and realize the sustainable development of agriculture,by focusing on the following 5 classes of traits:insect and disease resistance,drought-tolerance,nutrient-use efficiency,quality and yield potential.As a modern breeding approach,transgenic strategy will play an important role in realizing the goal of Green Super Rice.Presently,many transgenic studies of rice have been conducted,and most of target traits are consistent with the goal of Green Super Rice.In this paper,we firstly review technical advances of rice transformation,and then outline the main progress in transgenic rice research with respect to the most important traits:insect and disease-resistance,drought-tolerance,nutrient-use efficiency,quality,yield potential and herbicide-tolerance.The prospects of developing transgenic rice are also discussed.

  19. International rice trade and security stocks: Prospects for an expanded Asian international rice reserve:

    OpenAIRE

    Dorosh, Paul A.; Childs, Abigail

    2014-01-01

    This paper examines the recent experience with international rice reserves in Asia and re-examines the roles of national stocks and international trade in stabilizing domestic rice prices and availability in importing countries.

  20. Effects of Different Lead Compounds on Growth and Heavy Metal Uptake of Wetland Rice

    Institute of Scientific and Technical Information of China (English)

    CHENHUAI-MAN; ZHENGCHUN-RONG; 等

    1991-01-01

    Effects of different lead compounds,PbCl2,Pb(NO3)2 and Pb(OAc)2,on the rice growth and uptake of lead and some microelements by wetland rice were studied.The results showed that the seed germination,rice seedling growth,chlorophyl content,grain yield and uptake of Pb,Cu,Zn,Fe and Mn by rice plant were affected by the chemical forms of Pb compunds added in soil to a certain degree.The germination rate and the amount of chlorophyl decreased remarkably with increasing Pb concentration,the root extension was restrained obviously by the presence of Pb,and the effect of PbCl2 was more evident than that of Pb(NO3)2 or Pb(OAc)2.The pot incubation test with yellow brown soil and redsoil showed that there was no significant regularity in effect of Pb on grain yield,but the difference in the influence of various Pb compounds on yield was clearer.The effect on the amount of Pb in straw and brown rice was in the sequence of Pb(NO3)2>Pb(OAc)2>PbCl1.In case the content of Pb in brown rice was 0.5mg/kg,the relative loading capacities of yellow brown soil for Pb added as PbCl2,Pb(OAc)2 and Pb(NO3)2 were 100,90 and 60 respectively.Pb uptake by wetland rice was closely related to the chemical species of Pb in soil,but there was no comparability among chemical forms of different Pb compounds in the same soil.The uptake of Cu,Zn,Fe and Mn by wetland rice was markedly affected by the addition of Pb,and different Pb compounds varied in their impacts on the uptake of other metals by different organs of wetland rice,e.g.the concentration of Fe in root increased significantly (r=0.92**),while opposite was true for Fe in brown rice (r=-0.92**) due to the application of Pb(OAc)2 in soil.These results demonstrate that the effect of accompanying anions of Pb on the physiological and biochemical processes of wetland rice was rather complex.

  1. Effect of Interplanting with Zero Tillage and Straw Manure on Rice Growth and Rice Quality

    Institute of Scientific and Technical Information of China (English)

    2007-01-01

    The interplanting with zero-tillage of rice, i.e. directsowing rice 10-20 days before wheat harvesting, and remaining about 30-cm high stubble after cutting wheat or rice with no tillage, is a new cultivation technology in wheat-rice rotation system. To study the effects of interplanting with zero tillage and straw manure on rice growth and quality, an experiment was conducted in a wheat-rotation rotation system. Four treatments, i.e. ZIS (Zero-tillage, straw manure and rice interplanting), ZI (Zero-tillage, no straw manure and rice interplanting), PTS (Plowing tillage, straw manure and rice transplanting), and PT (Plowing tillage, no straw manure and rice transplanting), were used. ZIS reduced plant height, leaf area per plant and the biomass of rice plants, but the biomass accumulation of rice at the late stage was quicker than that under conventional transplanting cultivation. In the first year (2002), there was no significant difference in rice yield among the four treatments. However, rice yield decreased in interplanting with zero-tillage in the second year (2003). Compared with the transplanting treatments, the number of filled grains per panicle decreased but 1000-grain weight increased in interplanting with zero-tillage, which were the main factors resulting in higher yield. Interplanting with zero-tillage improved the milling and appearance qualities of rice. The rates of milled and head rice increased while chalky rice rate and chalkiness decreased in interplanting with zero-tillage. Zero-tillage and interplanting also affected rice nutritional and cooking qualities. In 2002, ZIS showed raised protein content, decreased amylose content, softer gel consistency, resulting in improved rice quality. In 2003, zero-tillage and interplanting decreased protein content and showed similar amylose content as compared with transplanting treatments. Moreover, protein content in PTS was obviously increased in comparison with the other three treatments. The rice in

  2. Analysis of silicon transporters in turfgrass species

    Science.gov (United States)

    Silicon is an abundant element on earth and is also known to be beneficial as an amendment in some crops such as rice. Despite its abundance in many soils, accumulation of silicon in plants is species-specific and can be widely different. It has been shown that the genes responsible for silicon upta...

  3. Microbial Community and Greenhouse Gas Fluxes from Abandoned Rice Paddies with Different Vegetation.

    Science.gov (United States)

    Kim, Sunghyun; Lee, Seunghoon; McCormick, Melissa; Kim, Jae Geun; Kang, Hojeong

    2016-10-01

    The area of rice paddy fields has declined continuously in East Asian countries due to abandonment of agriculture and concurrent socioeconomic changes. When they are abandoned, rice paddy fields generally transform into wetlands by natural succession. While previous studies have mainly focused on vegetation shifts in abandoned rice paddies, little information is available about how these changes may affect their contribution to wetland functions. As newly abandoned fields proceed through succession, their hydrology and plant communities often change. Moreover, the relationships between these changes, soil microbial characteristics, and emissions of greenhouse gasses are poorly understood. In this study, we examined changes over the course of secondary succession of abandoned rice paddies to wetlands and investigated their ecological functions through changes in greenhouse gas fluxes and microbial characteristics. We collected gas and soil samples in summer and winter from areas dominated by Cyperaceae, Phragmites, and Sphagnum in each site. We found that CO2 emissions in summer were significantly higher than those in winter, but CH4 and N2O emission fluxes were consistently at very low levels and were similar among seasons and locations, due to their low nutrient conditions. These results suggest that microbial activity and abundance increased in summer. Greenhouse gas flux, soil properties, and microbial abundance were not affected by plant species, although the microbial community composition was changed by plant species. This information adds to our basic understanding of the contribution of wetlands that are transformed from abandoned rice paddy systems.

  4. Rice terpene synthase 24 (OsTPS24) encodes a jasmonate-responsive monoterpene synthase that produces an antibacterial γ-terpinene against rice pathogen.

    Science.gov (United States)

    Yoshitomi, Kayo; Taniguchi, Shiduku; Tanaka, Keiichiro; Uji, Yuya; Akimitsu, Kazuya; Gomi, Kenji

    2016-02-01

    Rice is one of the most important crops worldwide and is widely used as a model plant for molecular studies of monocotyledonous species. The plant hormone jasmonic acid (JA) is involved in rice-pathogen interactions. In addition, volatile compounds, including terpenes, whose production is induced by JA, are known to be involved in the rice defense system. In this study, we analyzed the JA-induced terpene synthase OsTPS24 in rice. We found that OsTPS24 was localized in chloroplasts and produced a monoterpene, γ-terpinene. The amount of γ-terpinene increased after JA treatment. γ-Terpinene had significant antibacterial activity against Xanthomonas oryzae pv. oryzae (Xoo); however, it did not show significant antifungal activity against Magnaporthe oryzae. The antibacterial activity of the γ-terpinene against Xoo was caused by damage to bacterial cell membranes. These results suggest that γ-terpinene plays an important role in JA-induced resistance against Xoo, and that it functions as an antibacterial compound in rice. PMID:26771167

  5. Assessing the impacts of climate change on rice yields in the main rice areas of China

    International Nuclear Information System (INIS)

    This paper assesses the impact of climate change on irrigated rice yield using B2 climate change scenario from the Regional Climate Model (RCM) and CERES-rice model during 2071--2090. Eight typical rice stations ranging in latitude, longitude, and elevation that are located in the main rice ecological zones of China are selected for impact assessment. First, Crop Estimation through Resource and Environment Synthesis (CERES)-rice model is validated using farm experiment data in selected stations. The simulated results represent satisfactorily the trend of flowering duration and yields. The deviation of simulation within ± 10% of observed flowering duration and ± 15% of observed yield. Second, the errors of the outputs of RCM due to the difference of topography between station point and grid point is corrected. The corrected output of the RCM used for simulating rice flowering duration and yield is more reliable than the not corrected. Without CO2 direct effect on crop, the results from the assessment explore that B2 climate change scenario would have a negative impact on rice yield at most rice stations and have little impacts at Fuzhou and Kunming. To find the change of inter-annual rice yield, a preliminary assessment is made based on comparative cumulative probability at low and high yield and the coefficient variable of yield between the B2 scenario and baseline. Without the CO2 direct effect on rice yield, the result indicates that frequency for low yield would increase and it reverses for high yield, and the variance for rice yield would increase. It is concluded that high frequency at low yield and high variances of rice yield could pose a threat to rice yield at most selected stations in the main rice areas of China. With the CO2 direct effect on rice yield, rice yield increase in all selected stations

  6. Partial Reform of World Rice Trade: Implications for the U.S. Rice Sector

    OpenAIRE

    Haley, Stephen L.

    1991-01-01

    This paper analyzes the consequences for the United States of a partial reform of world rice trade. It is argued that likely trade reform would occur in the japonica rice producing countries of Japan, South Korea, Taiwan, and the European Community. Multilateral rice trade liberalization would have strong effects for medium grain rice in the United States. The strength of these effects might not be felt for a couple of years after the liberalization has begun because of minimal Japanese impor...

  7. Efficacy of Selected Insecticides Applied to Hybrid Rice Seed

    OpenAIRE

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

    2015-01-01

    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 ...

  8. Commercialization of transgenic rice in China: potential environmental biosafety issues

    OpenAIRE

    Bao-Rong Lu; Qiang Fu; Zhicheng Shen

    2008-01-01

    The development and commercialization of transgenic rice with novel traits in China may offer more opportunities for promoting rice productivity. Owing to the significance of rice as a major food crop in China, the enhancement of rice production is important for national food security. If left unaddressed, the potential biosafety concerns over the extensive release and commercial cultivation of transgenic rice may hamper the development and application of this technology in rice improvement. ...

  9. Distinct origin of the Y and St genome in Elymus species: evidence from the analysis of a large sample of St genome species using two nuclear genes.

    Directory of Open Access Journals (Sweden)

    Chi Yan

    Full Text Available BACKGROUND: Previous cytological and single copy nuclear genes data suggested the St and Y genome in the StY-genomic Elymus species originated from different donors: the St from a diploid species in Pseudoroegneria and the Y from an unknown diploid species, which are now extinct or undiscovered. However, ITS data suggested that the Y and St genome shared the same progenitor although rather few St genome species were studied. In a recent analysis of many samples of St genome species Pseudoroegneria spicata (Pursh À. Löve suggested that one accession of P. spicata species was the most likely donor of the Y genome. The present study tested whether intraspecific variation during sampling could affect the outcome of analyses to determining the origin of Y genome in allotetraploid StY species. We also explored the evolutionary dynamics of these species. METHODOLOGY/PRINCIPAL FINDINGS: Two single copy nuclear genes, the second largest subunit of RNA polymerase II (RPB2 and the translation elongation factor G (EF-G sequences from 58 accessions of Pseudoroegneria and Elymus species, together with those from Hordeum (H, Agropyron (P, Australopyrum (W, Lophopyrum (E(e, Thinopyrum (E(a, Thinopyrum (E(b, and Dasypyrum (V were analyzed using maximum parsimony, maximum likelihood and Bayesian methods. Sequence comparisons among all these genomes revealed that the St and Y genomes are relatively dissimilar. Extensive sequence variations have been detected not only between the sequences from St and Y genome, but also among the sequences from diploid St genome species. Phylogenetic analyses separated the Y sequences from the St sequences. CONCLUSIONS/SIGNIFICANCE: Our results confirmed that St and Y genome in Elymus species have originated from different donors, and demonstrated that intraspecific variation does not affect the identification of genome origin in polyploids. Moreover, sequence data showed evidence to support the suggestion of the genome

  10. Uptake of trace element by rice

    International Nuclear Information System (INIS)

    The behaviour of trace element in rice paddy field ecosystem is of great significance as rice is a staple food of India particularly in Meghalaya. In general, cultivating system is an important factor for the plant uptake of trace element from soil. Rice paddy fields have a unique ecosystem from Radioecology point of view. Rice is usually planted under flood conditions in order to provide the best environment for its growth. In the present study, rice grain samples and surface paddy soil samples were collected from the fields to obtain Transfer Factor under equilibrium condition in the field existing around Uranium mineralization zone. Obtaining local soil to rice uptake is important because it depends on climate and soil properties. The objective of the present study is to generate the transfer parameter in the paddy field ecosystem to predict the behaviour of trace elements in the paddy located in the area adjoining the uranium mines in Meghalaya. (author)

  11. Preillumination of rice blast conidia induces tolerance to subsequent oxidative stress

    Science.gov (United States)

    Many environmental factors, alone or combined, affect organisms by changing a pro-/antioxidant balance. Here we tested rice blast fungus (Magnaporthe oryzae) for possible cross-adaptations caused by relatively intense light and protecting from artificially formed reactive oxygen species (ROS) and RO...

  12. Management of Rice Fields for Birds during the Non-growing Season

    NARCIS (Netherlands)

    Elphick, Chris S.; Taft, Oriane; Lourenco, Pedro M.

    2010-01-01

    Fields planted with rice (Oryza saliva) are used by a wide variety of bird species during the non-growing season and play an important conservation role in many parts of the world. Management of fields affects the variety and number of birds that use them, and a thorough understanding of these issue

  13. Obtaining transgenic rice resistant to rice fungal blast disease by controlled cell death strategy

    Institute of Scientific and Technical Information of China (English)

    MAO Shengji; GU Hongya; QU Lijia; CHEN Zhangliang

    2003-01-01

    The strategy of the two-component system, composed of Barnase and Barstar which encode RNase and a specific inhibitor to the RNase respectively, is adopted to obtain transgenic rice resistant to rice fungal blast disease. In this study, two chimeric promoters, induced by rice blast fungus pathogen (Magnaporthe grisea), are fused with Barnase respectively to construct two plant expression vectors, pWBNBS and pPBNBS together with the Barstar driven by CaMV 35S promoter. The resistance of the transgenic rice lines to rice blast fungus disease and rice blight disease are evaluated. The results show that (1) the expression of Barnase is induced in rice leaves when inoculated with the spores of Magnaporthe grisea; (2) the induced expression level of Barnase surpasses the level of Barstar, which elicits a similar hypersensitive response (HR) in the leaves, and the transgenic plant shows high resistance to the rice fungal blast disease; and (3) transgenic rice plants also show obvious resistance to rice bacterial blight disease. Taken together, these results suggest that the transgenic rice plants harboring this two-component system acquire relatively broad spectrum resistance against pathogens, especially high resistance to rice fungal pathogen.

  14. Soil to rice transfer factors for 210Pb: a study on rice grown in India

    International Nuclear Information System (INIS)

    India is the second largest producer of rice (Oryza sativa L.) in the world and rice is the essential component of the diet for the majority of the population of India. However, detailed studies aimed at evaluation of radionuclide transfer factors (Fv) for rice grown in India are almost non-existent. This paper presents soil to rice transfer factors for 210Pb for rice grown in natural field conditions on the West Coast of India. A rice field was developed very close to the Kaiga nuclear power plant for the field studies. For a comparative study of radionuclide transfer factors, rice samples were also collected from the rice fields of nearby villages. The soil to un-hulled rice grain 210Pb varied in the range <1.2 x10-2 to 8.1 x 10-1 with a mean of 1.4 x 10-1. The mean values of un-hulled grain to white rice processing retention factors (Fr) was 0.03 for 210Pb. Using the processing retention factors the soil to white rice transfer factor was estimated and found to have the mean value of 4.2 x 10-3. The study has shown that the transfer of 210Pb was retained in the root and its transfer to above ground organs of rice plant is significantly lower. (author)

  15. DETERMINATION OF SPATIAL INTEGRATION AND SUBSTITUTION OF FOREIGN RICE FOR LOCAL RICE IN GHANA

    Directory of Open Access Journals (Sweden)

    Philip Kofi ADOM

    2014-11-01

    Full Text Available This study tested for spatial integration in the rice market and the substitution of imported rice for local rice in Ghana. It is established that the markets for domestic imported rice are well-integrated, but not complete. The imperfect spatial integration of domestic foreign rice markets implies that the market provides opportunities for arbitrage. Price leadership roles are found to be determined by the kind of sub-inter-regional-trade network defined. However, in all, the Accra market emerged as a dominant market leader in the domestic foreign rice market. There is evidence of significant regional substitution of foreign rice for local rice in the long run, but the result is mixed in the short run. The result that local rice is not a perfect substitute for imported rice implies that price disincentive measures such as increasing the import tariffs on foreign rice will only produce a mild effect on increasing the producer price faced by local rice farmers, but aggravate the burden on households’ budget.

  16. Consumers' Preference of Rice Brands in Korea

    OpenAIRE

    Kim, Sounghun; Son, Eun-Young; Park, Sungho

    2009-01-01

    This paper conducts several analyses to discuss about consumers' preference of rice brands and suggest a way to reduce the number that currently stands at about 1,700 in the Korean market. With data collected from 358 survey respondents, a conjoint analysis was conducted to identify consumers' preferences of Korean rice in regard to such aspects as producing area, brand, category, and price. We particularly focused on analyzing the consumers' preference of rice brands, with some scenarios to ...

  17. Rice market integration in southern Sumatra, Indonesia

    OpenAIRE

    Yetty Oktarina

    2015-01-01

    This paper investigates rice market integration among five provinces in southern Sumatra using data from monthly retail rice markets during 2004-2009. The degree of integration was measured across provinces using vector error correction model. Result revealed that there is spatial market integration in southern Sumatra. Province of Bangka Belitung can make price adjustment more quickly compared to others provinces. In the long run period, rice price in Jambi province, Lampung province, and Ba...

  18. Medicinal and nutritional importance of rice bran

    International Nuclear Information System (INIS)

    Rice-bran is produced from the outer layer of brown rice and is stabilized through steam-heating. The rice-bran and its products are safe for human and animal consumption. The microbiological safety and rigorous quality-control practices merits its use as nutritional and dietary supplement for overall health-maintenance and as a part of a healthy diet and life-style, as it contributes to the reduction of certain diseases and health-related conditions. Stabilized rice-barn contain 15% of high nutritional- value protein, 20% of high-quality fat with Omega-3 and Omega-6 fatty acids, and nutritional dietary fiber. In addition to several phytonutrients, rice-bran contains vitamins and minerals, while over 100 potent antioxidants have been identified to date. Several scientific papers have reported the analysis and bioavailibility of rice-bran nutrients. Various chemical studies demonstrated the biological effects of the nutrients found in rice-bran. So far, more than 250 scientific publications are available on rice-bran, establishing the striking medicinal properties of rice-bran products. The oil-fraction of rice-bran has concentrated all tire fat-soluble phytonutrient in it, making itself an excellent health-promoting edible oil, as well as message oil The fiber-fraction of rice-bran has a profound effect on the gastrointestinal health, and improves bowel function. Rice-bran fiber along with phytonutrients was found to reduce cholesterol and lipid levels and maintain cardiovascular function. It has beneficial effect on tire kidney and urinary tract health and is helpful in weight-management and fiber replacement diets. (author)

  19. Demand analyses of rice in Malaysia

    OpenAIRE

    Tey, (John) Yeong-Sheng; SHAMSUDIN Mad Nasir; Mohamed, Zainalabidin; Abdullah, Amin Mahir; Radam, Alias

    2008-01-01

    As a typical developing Asian county, the growth in per capita income generally brings to diversification in Malaysians food basket. The most significant observation is the falling in per capita consumption of rice with continuous growth of demand for wheat based products. The objective of this study is to estimate the demand elasticities of rice in Malaysia, focusing whether rice is an inferior good. By using data from Household Expenditure Survey 2004/2005, this study obtains demand elastic...

  20. Fungal Elicitor MoHrip2 Induces Disease Resistance in Rice Leaves, Triggering Stress-Related Pathways

    Science.gov (United States)

    Khan, Najeeb Ullah; Liu, Mengjie; Yang, Xiufen; Qiu, Dewen

    2016-01-01

    MoHrip2 Magnaporthe oryzae hypersensitive protein 2 is an elicitor protein of rice blast fungus M. oryzae. Rice seedlings treated with MoHrip2 have shown an induced resistance to rice blast. To elucidate the mechanism underlying this MoHrip2 elicitation in rice, we used differential-display 2-D gel electrophoresis and qRT-PCR to assess the differential expression among the total proteins extracted from rice leaves at 24 h after treatment with MoHrip2 and buffer as a control. Among ~1000 protein spots detected on each gel, 10 proteins were newly induced, 4 were up-regulated, and 3 were down-regulated in MoHrip2-treated samples compared with the buffer control. Seventeen differentially expressed proteins were detected using MS/MS analysis and categorized into six groups according to their putative function: defense-related transcriptional factors, signal transduction-related proteins, reactive oxygen species (ROS) production, programmed cell death (PCD), defense-related proteins, and photosynthesis and energy-related proteins. The qPCR results (relative expression level of genes) further supported the differential expression of proteins in MoHrip2-treated rice leaves identified with 2D-gel, suggesting that MoHrip2 triggers an early defense response in rice leaves via stress-related pathways, and the results provide evidence for elicitor-induced resistance at the protein level. PMID:27348754

  1. Arsenic in cooked rice: Effect of chemical, enzymatic and microbial processes on bioaccessibility and speciation in the human gastrointestinal tract

    International Nuclear Information System (INIS)

    Rice, used as staple food for half of the world population, can easily accumulate arsenic (As) into its grain, which often leads to As contamination. The health risk induced by presence of As in food depends on its release from the food matrix, i.e., its bioaccessibility. Using an in vitro gastrointestinal simulator, we incubated two types of cooked rice (total As: 0.389 and 0.314 mg/kg). Arsenic bioaccessibility and speciation changes were determined upon gastrointestinal digestion. Washing with deionized water and cooking did not result in changes of As speciation in the rice although the arsenic content dropped by 7.1–20.6%. Arsenic bioaccessibility of the cooked rice in the small intestine ranged between 38 and 57%. Bioaccessibility slightly increased during digestion in the simulated small intestine and decreased with time in the simulated colon. Significant speciation changes were noted in the simulated colon, with trivalent monomethylarsonate (MMAIII) becoming an important species. - Highlights: ► We studied arsenic bioaccessibility and speciation in rice during in vitro digestion. ► Bioaccessibility in cooked rice ranged between 38 and 57%. ► Bioaccessibility increased in the small intestine and dropped in the colon. ► Significant speciation changes were observed in the colon. ► Toxic trivalent monomethylarsonate (MMAIII) was produced in the colon. - Arsenic bioaccessibility and speciation changes were studied upon in vitro gastrointestinal digestion of As-polluted rice with specific attention to the role of colon micro-organisms.

  2. Fungal Elicitor MoHrip2 Induces Disease Resistance in Rice Leaves, Triggering Stress-Related Pathways.

    Science.gov (United States)

    Khan, Najeeb Ullah; Liu, Mengjie; Yang, Xiufen; Qiu, Dewen

    2016-01-01

    MoHrip2 Magnaporthe oryzae hypersensitive protein 2 is an elicitor protein of rice blast fungus M. oryzae. Rice seedlings treated with MoHrip2 have shown an induced resistance to rice blast. To elucidate the mechanism underlying this MoHrip2 elicitation in rice, we used differential-display 2-D gel electrophoresis and qRT-PCR to assess the differential expression among the total proteins extracted from rice leaves at 24 h after treatment with MoHrip2 and buffer as a control. Among ~1000 protein spots detected on each gel, 10 proteins were newly induced, 4 were up-regulated, and 3 were down-regulated in MoHrip2-treated samples compared with the buffer control. Seventeen differentially expressed proteins were detected using MS/MS analysis and categorized into six groups according to their putative function: defense-related transcriptional factors, signal transduction-related proteins, reactive oxygen species (ROS) production, programmed cell death (PCD), defense-related proteins, and photosynthesis and energy-related proteins. The qPCR results (relative expression level of genes) further supported the differential expression of proteins in MoHrip2-treated rice leaves identified with 2D-gel, suggesting that MoHrip2 triggers an early defense response in rice leaves via stress-related pathways, and the results provide evidence for elicitor-induced resistance at the protein level. PMID:27348754

  3. Wheat products as acceptable substitutes for rice.

    Science.gov (United States)

    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

  4. Bioethanol production from rice straw residues.

    Science.gov (United States)

    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

  5. Epigenomic Modification and Epigenetic Regulation in Rice

    Institute of Scientific and Technical Information of China (English)

    Yu Zhao; Dao-Xiu Zhou

    2012-01-01

    Epigenomes including genome-wide histone modification and DNA methylation profiles are important for genome activity and for defining gene expression patterns of plant development and responses to various environmental conditions.Rice is the most important crop plant and serves as a model for cereal genomics.Rice epigenomic landscape is emerging and the function of chromatin modification regulators in gene expression,transposon repression and plant development is being characterized.Epigenomic variation that gives rise to stable or transgenerational heritable epialleles related to variation of important agronomical traits or stress responses is being characterized in rice.Implication of epigenomic variation in rice heterosis is being exploited.

  6. Bioethanol production from rice straw residues

    Directory of Open Access Journals (Sweden)

    Elsayed B. Belal

    2013-01-01

    Full Text Available 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 ºC, 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.

  7. AGREEMENT ON AGRICULTURE AND INDONESIAN RICE IMPORT

    OpenAIRE

    Dini Yuniarti

    2011-01-01

    Indonesian economy has been long supported by its agriculture sector. This paper analyzes the influence of the World Trade Organization’s Agreement-on-Agriculture (AoA) to In-donesia’s rice import using a Partial Adjustment Model. The independent variables included in the model are domestic production of rice, domestic income, world rice price, domestic rice price, and a dummy variable of AoA implementation. It estimates secondary annual data from 1979 to 2007. The result suggests that domest...

  8. Structural and functional analysis of rice genome

    Indian Academy of Sciences (India)

    Akhilesh K. Tyagi; Jitendra P. Khurana; Paramjit Khurana; Saurabh Raghuvanshi; Anupama Gaur; Anita Kapur; Vikrant Gupta; Dibyendu Kumar; V. Ravi; Shubha Vij; Parul Khurana; Sulabha Sharma

    2004-04-01

    Rice is an excellent system for plant genomics as it represents a modest size genome of 430 Mb. It feeds more than half the population of the world. Draft sequences of the rice genome, derived by whole-genome shotgun approach at relatively low coverage (4–6 X), were published and the International Rice Genome Sequencing Project (IRGSP) declared high quality (>10 X), genetically anchored, phase 2 level sequence in 2002. In addition, phase 3 level finished sequence of chromosomes 1, 4 and 10 (out of 12 chromosomes of rice) has already been reported by scientists from IRGSP consortium. Various estimates of genes in rice place the number at > 50,000. Already, over 28,000 full-length cDNAs have been sequenced, most of which map to genetically anchored genome sequence. Such information is very useful in revealing novel features of macro- and micro-level synteny of rice genome with other cereals. Microarray analysis is unraveling the identity of rice genes expressing in temporal and spatial manner and should help target candidate genes useful for improving traits of agronomic importance. Simultaneously, functional analysis of rice genome has been initiated by marker-based characterization of useful genes and employing functional knock-outs created by mutation or gene tagging. Integration of this enormous information is expected to catalyze tremendous activity on basic and applied aspects of rice genomics.

  9. Dissipation of pencycuron in rice plant

    Institute of Scientific and Technical Information of China (English)

    PAL R.; CHAKRABARTI K.; CHAKRABORTY A.; CHOWDHURY A.

    2005-01-01

    Pencycuron is a non-systemic protective fungicide for controlling sheath blight of rice. However, information on the fate of pencycuron in rice plant is lacking. The degradation of pencycuron in waterlogged tropic rice field was investigated.Pencycuron was applied at recommended field dose (187.5 g a.i./ha) and double recommended dose to cropped plots for three consecutive years. Pencycuron was rapidly degraded in rice plant at all doses of pencycuron application with first order half-lives of 1.57~2.77 d. The study revealed that pencycuron is safe from the human and environmental contamination point of view.

  10. QTL map meets population genomics: an application to rice.

    Directory of Open Access Journals (Sweden)

    Jeffrey A Fawcett

    Full Text Available Genes involved in the transition from wild to cultivated crop species should be of great agronomic importance. Population genomic approaches utilizing genome resequencing data have been recently applied for this purpose, although it only reports a large list of candidate genes with no biological information. Here, by resequencing more than 30 genomes altogether of wild rice Oryza rufipogon and cultivated rice O. sativa, we identified a number of regions with clear footprints of selection during the domestication process. We then focused on identifying candidate domestication genes in these regions by utilizing the wealth of QTL information in rice. We were able to identify a number of interesting candidates such as transcription factors that should control key domestication traits such as shattering, awn length, and seed dormancy. Other candidates include those that might have been related to the improvement of grain quality and those that might have been involved in the local adaptation to dry conditions and colder environments. Our study shows that population genomic approaches and QTL mapping information can be used together to identify genes that might be of agronomic importance.

  11. Tritium concentration in unpolished rice

    International Nuclear Information System (INIS)

    Inoue and Iwakura recently reported that the specific activity ratio of organically-bound 3H to free water 3H in polished rice samples collected in Japan and China was lower than unity. Their paper was the first to report the systematic apparent elimination of 3H for incorporation to organically-bound form in samples collected from the general environment. To confirm their result, seven unpolished rice samples obtained just after harvesting were analyzed for 3H. The mean specific activity ratio of organically-bound 3H to free water 3H was found to be 0.57, somewhat lower than the data by Inoue and Iwakura. This small difference may be caused by the different sampling years and/or the possible replacement of free water by atmospheric water vapor after harvesting. (author)

  12. Rice breeding with induced mutations

    International Nuclear Information System (INIS)

    The Joint FAO/IAEA Division of Atomic Energy in Food and Agriculture decided in 1964 to organize a co-ordinated research programme on the use of induced mutations in rice breeding. The programme was organized within the framework of activities of the International Rice Commission. This is a report of the Third Co-ordination Meeting of the participants, which was held in Taipei, 5-9 June 1967. As the projects, which together make up the co-ordinated programme, are at different stages of progress, the report contains a variety of papers including completed studies, field and progress reports, and highlights of the discussions with some additional recommendations prepared by the participants. Refs, figs and tabs

  13. Rice's Salt Tolerance Gene Cloned

    Institute of Scientific and Technical Information of China (English)

    2005-01-01

    @@ In cooperation with US colleagues, CAS researchers have made significant progress in their studies into functional genes for key agronomic traits by cloning SKC1, a salt-tolerant functional gene of rice and making clear its biological functions and mechanisms. This pioneering work,which was reported in the Oct. issue of Nature Genetics (37:1141-1146), is believed to hold promise to increase the output of the crop plant in this country.

  14. Proteomics of Rice Seed Germination

    Directory of Open Access Journals (Sweden)

    Dongli eHe

    2013-07-01

    Full Text Available Seed is a condensed form of plant. Under suitable environmental conditions, it can resume the metabolic activity from physiological quiescent status, and mobilize the reserves, biosynthesize new proteins, regenerate organelles and cell membrane, eventually protrude the radicle and enter into seedling establishment. So far, how these activities are regulated in a coordinated and sequential manner is largely unknown. With the availability of more and more genome sequence information and the development of mass spectrometry (MS technology, proteomics has been widely applied in analyzing the mechanisms of different biological processes, and proved to be very powerful. Regulation of rice seed germination is critical for rice cultivation. In recent years, a lot of proteomic studies have been conducted in exploring the gene expression regulation, reserves mobilization and metabolisms reactivation, which brings us new insights on the mechanisms of metabolism regulation during this process. Nevertheless, it also invokes a lot of questions. In this mini-review, we summarized the progress in the proteomic studies of rice seed germination. The current challenges and future perspectives were also discussed, which might be helpful for the following studies.

  15. Loss of function at RAE2, a previously unidentified EPFL, is required for awnlessness in cultivated Asian rice.

    Science.gov (United States)

    Bessho-Uehara, Kanako; Wang, Diane R; Furuta, Tomoyuki; Minami, Anzu; Nagai, Keisuke; Gamuyao, Rico; Asano, Kenji; Angeles-Shim, Rosalyn B; Shimizu, Yoshihiro; Ayano, Madoka; Komeda, Norio; Doi, Kazuyuki; Miura, Kotaro; Toda, Yosuke; Kinoshita, Toshinori; Okuda, Satohiro; Higashiyama, Tetsuya; Nomoto, Mika; Tada, Yasuomi; Shinohara, Hidefumi; Matsubayashi, Yoshikatsu; Greenberg, Anthony; Wu, Jianzhong; Yasui, Hideshi; Yoshimura, Atsushi; Mori, Hitoshi; McCouch, Susan R; Ashikari, Motoyuki

    2016-08-01

    Domestication of crops based on artificial selection has contributed numerous beneficial traits for agriculture. Wild characteristics such as red pericarp and seed shattering were lost in both Asian (Oryza sativa) and African (Oryza glaberrima) cultivated rice species as a result of human selection on common genes. Awnedness, in contrast, is a trait that has been lost in both cultivated species due to selection on different sets of genes. In a previous report, we revealed that at least three loci regulate awn development in rice; however, the molecular mechanism underlying awnlessness remains unknown. Here we isolate and characterize a previously unidentified EPIDERMAL PATTERNING FACTOR-LIKE (EPFL) family member named REGULATOR OF AWN ELONGATION 2 (RAE2) and identify one of its requisite processing enzymes, SUBTILISIN-LIKE PROTEASE 1 (SLP1). The RAE2 precursor is specifically cleaved by SLP1 in the rice spikelet, where the mature RAE2 peptide subsequently induces awn elongation. Analysis of RAE2 sequence diversity identified a highly variable GC-rich region harboring multiple independent mutations underlying protein-length variation that disrupt the function of the RAE2 protein and condition the awnless phenotype in Asian rice. Cultivated African rice, on the other hand, retained the functional RAE2 allele despite its awnless phenotype. Our findings illuminate the molecular function of RAE2 in awn development and shed light on the independent domestication histories of Asian and African cultivated rice. PMID:27466405

  16. Grain yield and arsenic uptake of upland rice inoculated with arbuscular mycorrhizal fungi in As-spiked soils.

    Science.gov (United States)

    Wu, Fuyong; Hu, Junli; Wu, Shengchun; Wong, Ming Hung

    2015-06-01

    A pot trial was conducted to investigate the effects of three arbuscular mycorrhizal (AM) fungi species, including Glomus geosporum BGC HUN02C, G. versiforme BGC GD01B, and G. mosseae BGC GD01A, on grain yield and arsenic (As) uptake of upland rice (Zhonghan 221) in As-spiked soils. Moderate levels of AM colonization (24.1-63.1 %) were recorded in the roots of upland rice, and up to 70 mg kg(-1) As in soils did not seem to inhibit mycorrhizal colonization. Positive mycorrhizal growth effects in grain, husk, straw, and root of the upland rice, especially under high level (70 mg kg(-1)) of As in soils, were apparent. Although the effects varied among species of AM fungi, inoculation of AM fungi apparently enhanced grain yield of upland rice without increasing grain As concentrations in As-spiked soils, indicating that AM fungi could alleviate adverse effects on the upland rice caused by As in soils. The present results also show that mycorrhizal inoculation significantly (p < 0.05) decreased As concentrations in husk, straw, and root in soils added with 70 mg kg(-1) As. The present results suggest that AM fungi are able to mitigate the adverse effects with enhancing rice production when growing in As-contaminated soils.

  17. Purification, crystallization and preliminary X-ray crystallographic analysis of rice Bowman–Birk inhibitor from Oryza sativa

    Science.gov (United States)

    Lin, Yi-Hung; Li, Hsin-Tai; Huang, Yen-Chieh; Hsieh, Ying-Cheng; Guan, Hong-Hsiang; Liu, Ming-Yih; Chang, Tschining; Wang, Andrew H.-J.; Chen, Chun-Jung

    2006-01-01

    Bowman–Birk inhibitors (BBIs) are cysteine-rich proteins with inhibitory activity against proteases that are widely distributed in monocot and dicot species. The expression of rice BBI from Oryza sativa is up-regulated and induced by pathogens or insects during germination of rice seeds. The rice BBI (RBTI) of molecular weight 15 kDa has been crystallized using the hanging-drop vapour-diffusion method. According to the diffraction of rice BBI crystals at a resolution of 2.07 Å, the unit cell belongs to space group P212121, with unit-cell parameters a = 74.37, b = 96.69, c = 100.36 Å. Preliminary analysis indicates four BBI molecules in an asymmetric unit, with a solvent content of 58.29%. PMID:16754971

  18. Microbe-Mediated Control of Mycotoxigenic Grain Fungi in Stored Rice with Focus on Aflatoxin Biodegradation and Biosynthesis Inhibition

    Science.gov (United States)

    Mannaa, Mohamed

    2016-01-01

    Rice contaminated with fungal species during storage is not only of poor quality and low economic value, but may also have harmful effects on human and animal health. The predominant fungal species isolated from rice grains during storage belong to the genera Aspergillus and Penicillium. Some of these fungal species produce mycotoxins; they are responsible for adverse health effects in humans and animals, particularly Aspergillus flavus, which produces the extremely carcinogenic aflatoxins. Not surprisingly, there have been numerous attempts to devise safety procedure for the control of such harmful fungi and production of mycotoxins, including aflatoxins. This review provides information about fungal and mycotoxin contamination of stored rice grains, and microbe-based (biological) strategies to control grain fungi and mycotoxins. The latter will include information regarding attempts undertaken for mycotoxin (especially aflatoxin) bio-detoxification and microbial interference with the aflatoxin-biosynthetic pathway in the toxin-producing fungi. PMID:27433116

  19. Microbe-Mediated Control of Mycotoxigenic Grain Fungi in Stored Rice with Focus on Aflatoxin Biodegradation and Biosynthesis Inhibition.

    Science.gov (United States)

    Mannaa, Mohamed; Kim, Ki Deok

    2016-06-01

    Rice contaminated with fungal species during storage is not only of poor quality and low economic value, but may also have harmful effects on human and animal health. The predominant fungal species isolated from rice grains during storage belong to the genera Aspergillus and Penicillium. Some of these fungal species produce mycotoxins; they are responsible for adverse health effects in humans and animals, particularly Aspergillus flavus, which produces the extremely carcinogenic aflatoxins. Not surprisingly, there have been numerous attempts to devise safety procedure for the control of such harmful fungi and production of mycotoxins, including aflatoxins. This review provides information about fungal and mycotoxin contamination of stored rice grains, and microbe-based (biological) strategies to control grain fungi and mycotoxins. The latter will include information regarding attempts undertaken for mycotoxin (especially aflatoxin) bio-detoxification and microbial interference with the aflatoxin-biosynthetic pathway in the toxin-producing fungi. PMID:27433116

  20. Microbe-Mediated Control of Mycotoxigenic Grain Fungi in Stored Rice with Focus on Aflatoxin Biodegradation and Biosynthesis Inhibition

    Science.gov (United States)

    Mannaa, Mohamed

    2016-01-01

    Rice contaminated with fungal species during storage is not only of poor quality and low economic value, but may also have harmful effects on human and animal health. The predominant fungal species isolated from rice grains during storage belong to the genera Aspergillus and Penicillium. Some of these fungal species produce mycotoxins; they are responsible for adverse health effects in humans and animals, particularly Aspergillus flavus, which produces the extremely carcinogenic aflatoxins. Not surprisingly, there have been numerous attempts to devise safety procedure for the control of such harmful fungi and production of mycotoxins, including aflatoxins. This review provides information about fungal and mycotoxin contamination of stored rice grains, and microbe-based (biological) strategies to control grain fungi and mycotoxins. The latter will include information regarding attempts undertaken for mycotoxin (especially aflatoxin) bio-detoxification and microbial interference with the aflatoxin-biosynthetic pathway in the toxin-producing fungi.

  1. Rice Yield Estimation by Integrating Remote Sensing with Rice Growth Simulation Model

    Institute of Scientific and Technical Information of China (English)

    O. ABOU-ISMAIL; HUANG Jing-Feng; WANG Ren-Chao

    2004-01-01

    Since remote sensing can provide information on the actual status of an agricultural crop, the integration between remote sensing data and crop growth simulation models has become an important trend for yield estimation and prediction.The main objective of this research was to combine a rice growth simulation model with remote sensing data to estimate rice grain yield for different growing seasons leading to an assessment of rice yield at regional levels. Integration between NOAA (National Oceanic and Atmospheric Administration) AVHRR (Advanced Very High Resolution Radiometer) data and the rice growth simulation model ORYZA1 to develop a new software, which was named as Rice-SRS Model, resulted in accurate estimates for rice yield in Shaoxing, China, with an estimation error reduced to 1.03% and 0.79% over-estimation and 0.79% under-estimation for early, single and late season rice, respectively. Selecting suitable dates for remote sensing images was an important factor which could influence estimation accuracy. Thus, given the different growing periods for each rice season, four images were needed for early and late rice, while five images were preferable for single season rice.Estimating rice yield using two or three images was possible, however, if images were obtained during the panicle initiation and heading stages.

  2. Rice Blast Resistance of Transgenic Rice Plants with Pi-d2 Gene

    Institute of Scientific and Technical Information of China (English)

    CHEN De-xi; CHEN Xue-wei; LEI Cai-lin; MA Bing-tian; WANG Yu-ping; LI Shi-gui

    2010-01-01

    Resistance to rice blast of transgenic rice lines harboring rice blast resistance gene Pi-d2 transformed from three different expression vectors of pCB6.3kb, pCB5.3kb and pZH01-2.72kb were analyzed. Nine advanced-generation transgenic rice lines with Pi-d2 gene displayed various resistance to 39 rice blast strains, and the highest disease-resistant frequency reached 91.7%. Four early-generation homozygous transgenic lines with Pi-d2 gene exhibited resistance to more than 81.5% of 58 rice blast strains, showing the characteristic of wide-spectrum resistance. The transgenic embryonic calli selected by the crude toxin of rice blast fungus showed that the callus induction rate of immature embryo from transgenic rice plants decreased as the concentration of crude toxin in the culture medium increased. When the concentration of crude toxin reached 40%, the callus induction rate of immature embryo from transgenic lines was 49.3%, and that of the receptor control was 5%. The disease incidence of neck blast of the transgenic rice lines in fields under induction was 0% to 50%, indicating that the rice blast resistance of transgenic rice lines is much higher than that of the receptor control.

  3. Rapid diversification of five Oryza AA genomes associated with rice adaptation

    OpenAIRE

    Zhang, Qun-Jie; Zhu, Ting; Xia, En-Hua; Shi, Chao; Liu, Yun-Long; Zhang, Yun; Liu, Yuan; Jiang, Wen-Kai; Zhao, You-Jie; Mao, Shu-Yan; Zhang, Li-Ping; Huang, Hui; Jiao, Jun-Ying; Xu, Ping-Zhen; Yao, Qiu-Yang

    2014-01-01

    Asian rice (Oryza sativa) is among the world’s most important crops. The genus Oryza has become a model for the study of plant genome structure, function, and evolution. We have undertaken de novo, full-genome sequence analysis of five diploid AA-genome species that are closely related to O. sativa. These species are native to quite different environments, representing four continents, thus exhibiting very different adaptations. Our studies identify specific genetic changes, in both gene copy...

  4. A New Mehod to Cook Rice Food,An infant of new Rice Cooker

    Institute of Scientific and Technical Information of China (English)

    Xu Hanyou

    2002-01-01

    Objective:In order to enhance the rice food nutritional quality and the human quality of life.Method:Summarize my lifeexperiences and my cooking rice experience with present Chinese food cookers but in different way to reach the high quality ricefood. Result:The steaming rice method is easy to do and the rice is tasteful and nutritional,comparing with the previous old generationsfood cookers. Conclusions:(1)This cooking method is worth and easy to be adapted by the rice taking people.(2)Through furtherresearch,the new rice cooker of modem generation can be developed according to these principles.This kind of cooker may well bemarketed and used by the rice taking people.

  5. Residues and accumulation of molinate in rice crops and aquatic weeds in the MUDA rice agroecosystem

    International Nuclear Information System (INIS)

    Plant and soil residue levels and its accumulation in rice crops and rice aquatic weed plants were studied. Molinate residue levels in rice, weeds and soil were not significantly different between the recycled and the non-recycled area, even though they were higher in the non-recycled area. In the rice plant, the residue level at 10 DAT (days after treatment) was significantly higher than 30 DAT in the recycled area. In rice aquatic weed plants, the residue level was significantly higher at 10 DAT as compared to 30 DAT in the non-recycled area. Molinate residue levels in soil at 10 DAT and 30 DAT were similar. Molinate accumulated (ratio of molinate concentration in plant over soil) more in the rice crop as compared to rice aquatic weeds at 10 DAT, in both the recycled and the non-recycled areas. (Author)

  6. Rice hoja blanca virus genome characterization and expression in vitro.

    Science.gov (United States)

    Ramirez, B C; Macaya, G; Calvert, L A; Haenni, A L

    1992-06-01

    No information exists on the organization and mechanisms of expression of the genome of rice hoja blanca virus (RHBV), a member of the tenuivirus group, but here we describe the first steps in its characterization. RHBV contains four ssRNA and three dsRNA species, the sizes of which were estimated by native and denaturing gel electrophoresis. Hybridization analyses using 32P-labelled riboprobes of viral and viral complementary polarities showed that unequal amounts of the two polarities of at least the smallest RNA are present in the virion, and indicated that the dsRNA species contain the same information as the ssRNA species of corresponding size. Total RHBV RNA directs the synthesis of two major proteins of 23K and 21K in vitro. RNA3 directs the synthesis of a 23K protein designated NS3, and RNA4 of a 21K protein designated NS4. The NS4 protein corresponds to the non-structural protein that accumulates in RHBV-infected rice tissue. The nuclecocapsid protein is not translated from either total RHBV RNA or any individual RHBV RNA in vitro. PMID:1607863

  7. Root Elongation, Root Surface Area and Organic Acid by Rice Seedling Under Al3+ and/or H+ Stress

    Directory of Open Access Journals (Sweden)

    A. E. Azura

    2011-01-01

    Full Text Available Problem statement: Under acidic condition, Al3+ is the most common species in solution. An experiment was conducted to study the effects of Al and/or pH on rice seed germination, root morphology and organic acids release. This study was conducted at ambient temperature in Malaysia. Approach: Two experiments were conducted: (1 Rice seeds undergoing germination were exposed to 0.5 mM CaCl2 solutions containing various concentration of Al (10, 20, 30, 40-50 µM and (2 The seeds were soaked in water taken from an acid sulfate soil area in Malaysia for which the pH was adjusted to a range of values using 0.01 M HCl or NaOH. Results: Root length decreased with increasing Al concentration, while the opposite was true for pH. The trend for the change of root surface area with Al concentration and pH is the same as that of root length. The critical Al concentration for rice growth is 15 µM. This means that rice variety MR 219 grown on 90% of the granary areas in Malaysia is relatively less tolerant compared to other rice varieties. At low pH and high Al concentration, the rice roots secreted citrate and/or oxalate which subsequently formed Alcitrate and Al-oxalate, respectively. This, to a certain extent, had reduced Al toxicity. This is the mechanism of rice tolerance to Al toxicity. Conclusion: Acid sulfate soils in Malaysia allocated for rice production should be limed to increase water pH in the paddy field to 5.0. Then, rice can grow without Al3+ and/or H+ stress.

  8. Inorganic arsenic in rice bran and its products are an order of magnitude higher than in bulk grain.

    Science.gov (United States)

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

    2008-10-01

    Rice is more elevated in arsenic than all other grain crops tested to date, with whole grain (brown) rice having higher arsenic levels than polished (white). It is reported here that rice bran, both commercially purchased and specifically milled for this study, have levels of inorganic arsenic, a nonthreshold, class 1 carcinogen, reaching concentrations of approximately 1 mg/kg dry weight, around 10-20 fold higher than concentrations found in bulk grain. Although pure rice bran is used as a health food supplement, perhaps of more concern is rice bran solubles, which are marketed as a superfood and as a supplement to malnourished children in international aid programs. Five rice bran solubles products were tested, sourced from the United States and Japan, and were found to have 0.61-1.9 mg/kg inorganic arsenic. Manufactures recommend approximately 20 g servings of the rice bran solubles per day, which equates to a 0.012-0.038 mg intake of inorganic arsenic. There are no maximum concentration levels (MCLs) set for arsenic or its species in food stuffs. EU and U.S. water regulations, set at 0.01 mg/L total or inorganic arsenic, respectively, are based on the assumption that 1 L of water per day is consumed, i.e., 0.01 mg of arsenic/ day. At the manufacturers recommended rice bran solubles consumption rate, inorganic arsenic intake exceeds 0.01 mg/ day, remembering that rice bran solubles are targeted at malnourished children and that actual risk is based on mg kg(-1) day(-1) intake.

  9. Nutrient management for rice production

    International Nuclear Information System (INIS)

    The nutrient removed by the crops far exceeds the amounts replenished through fertilizer, causing a much greater strain on the native soil reserves. The situation is further aggravated in countries like India, where sub-optimal fertilizer used by the farmers is a common phenomenon rather than an exception. The total consumption of nutrients of all crops in India, even though reached 15 million tons in 1997, remains much below the estimated nutrient removal of 25 million tons (Swarup and Goneshamurthy, 1998). The gap between nutrient removal supplied through fertilizer has widened further in 2000 to 34 million tons of plant nutrients from the soil against an estimated fertilizer availability of 18 million tons (Singh and Dwivedi, 1996). Nitrogen is the nutrient which limits the most the rice production worldwide. In Asia, where more than 90 percent of the world's rice is produced, about 60 percent of the N fertilizer consumed is used on rice (Stangel and De Dutta, 1985). Conjunctive use of organic material along with fertilizer has been proved an efficient source of nitrogen. Organic residue recycling is becoming an increasingly important aspect of environmentally sound sustainable agriculture. Returning residues like green manure to the soil is necessary for maintaining soil organic matter, which is important for favourable soil structure, soil water retention and soil microbial flora and fauna activities. Use of organic manures in conjunction or as an alternative to chemical fertilizer is receiving attention. Green manure, addition to some extent, helps not only in enhancing the yield but also in improving the physical and chemical nature of soils. The excessive application of chemical fertilizers made it imperative that a part of inorganic fertilizer may be substituted with the recycling of organic wastes. Organic manure has been recorded to enhance the efficiency and reduce the requirement of chemical fertilizers. Partial nitrogen substitution through organic

  10. Multiple rice microRNAs are involved in immunity against the blast fungus Magnaporthe oryzae.

    Science.gov (United States)

    Li, Yan; Lu, Yuan-Gen; Shi, Yi; Wu, Liang; Xu, Yong-Ju; Huang, Fu; Guo, Xiao-Yi; Zhang, Yong; Fan, Jing; Zhao, Ji-Qun; Zhang, Hong-Yu; Xu, Pei-Zhou; Zhou, Jian-Min; Wu, Xian-Jun; Wang, Ping-Rong; Wang, Wen-Ming

    2014-02-01

    MicroRNAs (miRNAs) are indispensable regulators for development and defense in eukaryotes. However, the miRNA species have not been explored for rice (Oryza sativa) immunity against the blast fungus Magnaporthe oryzae, the most devastating fungal pathogen in rice production worldwide. Here, by deep sequencing small RNA libraries from susceptible and resistant lines in normal conditions and upon M. oryzae infection, we identified a group of known rice miRNAs that were differentially expressed upon M. oryzae infection. They were further classified into three classes based on their expression patterns in the susceptible japonica line Lijiangxin Tuan Hegu and in the resistant line International Rice Blast Line Pyricularia-Kanto51-m-Tsuyuake that contains a single resistance gene locus, Pyricularia-Kanto 51-m (Pikm), within the Lijiangxin Tuan Hegu background. RNA-blot assay of nine of them confirmed sequencing results. Real-time reverse transcription-polymerase chain reaction assay showed that the expression of some target genes was negatively correlated with the expression of miRNAs. Moreover, transgenic rice plants overexpressing miR160a and miR398b displayed enhanced resistance to M. oryzae, as demonstrated by decreased fungal growth, increased hydrogen peroxide accumulation at the infection site, and up-regulated expression of defense-related genes. Taken together, our data indicate that miRNAs are involved in rice immunity against M. oryzae and that overexpression of miR160a or miR398b can enhance rice resistance to the disease. PMID:24335508

  11. Inversion of a radiative transfer model for estimation of rice chlorophyll content using support vector machine

    Science.gov (United States)

    Lv, Jie; Yan, Zhenguo; Wei, Jingyi

    2014-11-01

    Accurate retrieval of crop chlorophyll content is of great importance for crop growth monitoring, crop stress situations, and the crop yield estimation. This study focused on retrieval of rice chlorophyll content from data through radiative transfer model inversion. A field campaign was carried out in September 2009 in the farmland of ChangChun, Jinlin province, China. A different set of 10 sites of the same species were used in 2009 for validation of methodologies. Reflectance of rice was collected using ASD field spectrometer for the solar reflective wavelengths (350-2500 nm), chlorophyll content of rice was measured by SPAD-502 chlorophyll meter. Each sample sites was recorded with a Global Position System (GPS).Firstly, the PROSPECT radiative transfer model was inverted using support vector machine in order to link rice spectrum and the corresponding chlorophyll content. Secondly, genetic algorithms were adopted to select parameters of support vector machine, then support vector machine was trained the training data set, in order to establish leaf chlorophyll content estimation model. Thirdly, a validation data set was established based on hyperspectral data, and the leaf chlorophyll content estimation model was applied to the validation data set to estimate leaf chlorophyll content of rice in the research area. Finally, the outcome of the inversion was evaluated using the calculated R2 and RMSE values with the field measurements. The results of the study highlight the significance of support vector machine in estimating leaf chlorophyll content of rice. Future research will concentrated on the view of the definition of satellite images and the selection of the best measurement configuration for accurate estimation of rice characteristics.

  12. Effects of Transgenic cry1Ca Rice on the Development of Xenopus laevis.

    Directory of Open Access Journals (Sweden)

    Xiuping Chen

    Full Text Available In fields of genetically modified, insect-resistant rice expressing Bacillus thuringiensis (Bt proteins, frogs are exposed to Bt Cry proteins by consuming both target and non-target insects, and through their highly permeable skin. In the present study, we assessed the potential risk posed by transgenic cry1Ca rice (T1C-19 on the development of a frog species by adding purified Cry1Ca protein or T1C-19 rice straw into the rearing water of Xenopus laevis tadpoles, and by feeding X. laevis froglets diets containing rice grains of T1C-19 or its non-transformed counterpart MH63. Our results showed that there were no significant differences among groups receiving 100 μg L-1 or 10 μg L-1 Cry1Ca and the blank control in terms of time to completed metamorphosis, survival rate, body weight, body length, organ weight and liver enzyme activity after being exposed to the Cry1Ca (P > 0.05. Although some detection indices in the rice straw groups were significantly different from those of the blank control group (P < 0.05, there was no significant difference between the T1C-19 and MH63 rice straw groups. Moreover, there were no significant differences in the mortality rate, body weight, daily weight gain, liver and fat body weight of the froglets between the T1C-19 and MH63 dietary groups after 90 days, and there were no abnormal pathological changes in the stomach, intestines, livers, spleens and gonads. Thus, we conclude that the planting of transgenic cry1Ca rice will not adversely affect frog development.

  13. Rice phospholipase A superfamily: organization, phylogenetic and expression analysis during abiotic stresses and development.

    Directory of Open Access Journals (Sweden)

    Amarjeet Singh

    Full Text Available BACKGROUND: Phospholipase A (PLA is an important group of enzymes responsible for phospholipid hydrolysis in lipid signaling. PLAs have been implicated in abiotic stress signaling and developmental events in various plants species. Genome-wide analysis of PLA superfamily has been carried out in dicot plant Arabidopsis. A comprehensive genome-wide analysis of PLAs has not been presented yet in crop plant rice. METHODOLOGY/PRINCIPAL FINDINGS: A comprehensive bioinformatics analysis identified a total of 31 PLA encoding genes in the rice genome, which are divided into three classes; phospholipase A(1 (PLA(1, patatin like phospholipases (pPLA and low molecular weight secretory phospholipase A(2 (sPLA(2 based on their sequences and phylogeny. A subset of 10 rice PLAs exhibited chromosomal duplication, emphasizing the role of duplication in the expansion of this gene family in rice. Microarray expression profiling revealed a number of PLA members expressing differentially and significantly under abiotic stresses and reproductive development. Comparative expression analysis with Arabidopsis PLAs revealed a high degree of functional conservation between the orthologs in two plant species, which also indicated the vital role of PLAs in stress signaling and plant development across different plant species. Moreover, sub-cellular localization of a few candidates suggests their differential localization and functional role in the lipid signaling. CONCLUSION/SIGNIFICANCE: The comprehensive analysis and expression profiling would provide a critical platform for the functional characterization of the candidate PLA genes in crop plants.

  14. Fusarium spp. associated with rice Bakanae: ecology, genetic diversity, pathogenicity and toxigenicity

    DEFF Research Database (Denmark)

    Wulff, E.G.; Sørensen, Jens Laurids; Lubeck, M.;

    2010-01-01

    African and Asian populations of Fusarium spp. (Gibberella fujikuroi species complex) associated with Bakanae of rice (Oryzae sativa L.) were isolated from seeds and characterized with respect to ecology, phylogenetics, pathogenicity and mycotoxin production. Independent of the origin, Fusarium spp....... were detected in the different rice seed samples with infection rate ranges that varied from 0.25% to 9%. Four Fusaria (F. andiyazi, F. fujikuroi, F. proliferatum and F. verticillioides) were found associated with Bakanae of rice. While three of the Fusaria were found in both African and Asian seed...... samples, F. fujikuroi was only detected in seed samples from Asia. Phylogenetic studies showed a broad genetic variation among the strains that were distributed into four different genetic clades. Pathogenicity tests showed that all strains reduced seed germination and possessed varying ability to cause...

  15. Pressurized liquid extraction of phenolic compounds from rice (Oryza sativa) grains.

    Science.gov (United States)

    Setyaningsih, W; Saputro, I E; Palma, M; Barroso, C G

    2016-02-01

    An analytical pressurized liquid extraction (PLE) process has been studied for the extraction of phenolic compounds from rice grains. A fractional factorial design (2(7-2)) with a centre point was used to optimize PLE parameters such as solvent composition (EtOAc in MeOH), extraction temperature, pressure, flushing, static extraction time, solvent-purge and sample weight. Extraction temperature, solvent and static extraction time were found to have a significant effect on the response value. The optimized method was validated for selectivity, linearity, limits of detection and quantification, recovery and precision. The validated method was successfully applied for the analysis of a wide variety of rice grains. Seventeen phenolic compounds were detected in the sample and guaiacol, ellagic acid, vanillic acid and protocatechuic acid were identified as the most abundant compounds. Nonetheless, different species of rice show very varied compound diversity and levels of compounds in their grain compositions. PMID:26304372

  16. A possible alternative method for collecting mosquito larvae in rice fields

    Directory of Open Access Journals (Sweden)

    Goff Gilbert

    2002-04-01

    Full Text Available Abstract Background Rice fields are efficient breeding places for malaria vectors in Madagascar. In order to establish as easily as possible if a rice field is an effective larval site for anophelines, we compared classical dipping versus a net as methods of collecting larvae. Results Using similar collecting procedures, we found that the total number of anopheline larvae collected with the net was exactly double (174/87 that collected by dipping. The number of anopheline species collected was also greater with a net. Conclusions The net is an effective means of collecting anopheline larvae and can be used for qualitative ecological studies and to rapidly determine which rice fields are containing malaria vectors.

  17. Pressurized liquid extraction of phenolic compounds from rice (Oryza sativa) grains.

    Science.gov (United States)

    Setyaningsih, W; Saputro, I E; Palma, M; Barroso, C G

    2016-02-01

    An analytical pressurized liquid extraction (PLE) process has been studied for the extraction of phenolic compounds from rice grains. A fractional factorial design (2(7-2)) with a centre point was used to optimize PLE parameters such as solvent composition (EtOAc in MeOH), extraction temperature, pressure, flushing, static extraction time, solvent-purge and sample weight. Extraction temperature, solvent and static extraction time were found to have a significant effect on the response value. The optimized method was validated for selectivity, linearity, limits of detection and quantification, recovery and precision. The validated method was successfully applied for the analysis of a wide variety of rice grains. Seventeen phenolic compounds were detected in the sample and guaiacol, ellagic acid, vanillic acid and protocatechuic acid were identified as the most abundant compounds. Nonetheless, different species of rice show very varied compound diversity and levels of compounds in their grain compositions.

  18. Cutaneous Epitheliotropic T-Cell Lymphoma in a Marsh Rice Rat (Oryzomys palustris)

    Science.gov (United States)

    Taylor, Bryan F; Bekkevold, Christine M; Aguirre, J Ignacio; Andrutis, Karl; Reinhard, Mary K

    2015-01-01

    Published reports of spontaneous neoplasia in marsh rice rats (Oryzomys palustris) are sparse. We report here a case of cutaneous epitheliotropic T-cell lymphoma in a 14-mo-old marsh rice rat that involved the ear pinnae, with dissemination to the liver and spleen. Histologically, the thickened ear pinnae showed diffuse infiltration of neoplastic lymphocytes into the epidermis, dermis, and adnexal skin structures, with Pautrier microaggregations present in the epidermis. In addition, neoplastic lymphocytes were observed infiltrating and disrupting the architecture of the liver and spleen. Neoplastic lymphocytes were strongly positive for the T-cell marker CD3 but were negative for the B-cell markers CD19 and CD20. These histologic and immunohistochemical features are consistent with an epitheliotropic T-cell lymphoma, as previously reported in other species, including humans. To our knowledge, this report represents the first published case of spontaneous cutaneous epitheliotropic T-cell lymphoma in a marsh rice rat. PMID:26473345

  19. Recent progress on the genetics and molecular breeding of brown planthopper resistance in rice.

    Science.gov (United States)

    Hu, Jie; Xiao, Cong; He, Yuqing

    2016-12-01

    Brown planthopper (BPH) is the most devastating pest of rice. Host-plant resistance is the most desirable and economic strategy in the management of BPH. To date, 29 major BPH resistance genes have been identified from indica cultivars and wild rice species, and more than ten genes have been fine mapped to chromosome regions of less than 200 kb. Four genes (Bph14, Bph26, Bph17 and bph29) have been cloned. The increasing number of fine-mapped and cloned genes provide a solid foundation for development of functional markers for use in breeding. Several BPH resistant introgression lines (ILs), near-isogenic lines (NILs) and pyramided lines (PLs) carrying single or multiple resistance genes were developed by marker assisted backcross breeding (MABC). Here we review recent progress on the genetics and molecular breeding of BPH resistance in rice. Prospect for developing cultivars with durable, broad-spectrum BPH resistance are discussed. PMID:27300326

  20. [Amino acid composition of rice grain proteins].

    Science.gov (United States)

    Peruanskiĭ, Iu V; Savich, I M

    1976-01-01

    The composition of the major reserve proteins of rice grain--globulins, prolamines and glutelins--was examined in four rice varieties (Dubovsky 129, Kuban 3, Alakul, Ushtobinsky). Globulins proved to be most heterogeneous whereas glutelins appeared to be least heterogeneous. In regards to the ratio of components globulins showed high variability and glutelins displayed high stability. PMID:1005365

  1. Novel gene expression tools for rice biotechnology

    Science.gov (United States)

    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...

  2. Soil quality assessment in rice production systems

    NARCIS (Netherlands)

    Rodrigues de Lima, A.C.

    2007-01-01

    In the state of Rio Grande do Sul, Brazil, rice production is one of the most important regional activities. Farmers are concerned that the land use practices for rice production in the Camaquã region may not be sustainable because of detrimental effects on soil quality. The study presented in this

  3. Transfer of radioiodine into rice grains

    International Nuclear Information System (INIS)

    It is known that 129I levels near the spent fuel reprocessing plants are obviously higher than those in the other areas. At present commercial spent fuel reprocessing plant is under planning in the north of Japan mainland. For the safety assessment before the new-construction of the plant, it is required to obtain transfer factors of the nuclide to rice grains through deposition-translocation and rootuptake routes. Results obtained showed that contribution from dry deposition (I2 gas deposition)-translocation should be more significant than that from wet-deposition-translocation, but sometimes comparable or preferably less significant than that from root uptake route. In this paper, however, discussion is focused on I2 gas deposition translocation to rice grains, gaseous iodine deposition to hull surfaces and subsequent infiltration to brown rice should be more critical than leaf absorption-translocation. Excretion of the nuclide from hull surfaces was hardly recognized. Thus the transfer factor of gaseous 129I to rice grains was successfully obtained by using grain number deposition velocity (Vs) and distribution ratio of I between rough rice and rice grain. Ther Vs is given as following: Vs = the amount of iodine deposited on unit number of rough rice per unit time divided by iodine concentration in unit volume of air. Experimentally obtained Vs is about 5x10-3cm3.(grain.sec)-1. And the transfer factor of gaseous iodine (I2) to polished rice is calculated as about 4x102cm3.(grain)-1

  4. Land Titles and Rice Production in Vietnam

    DEFF Research Database (Denmark)

    Van Den Broeck, Katleen; Newman, Carol; Tarp, Finn

    analysis of plot level rice yields that land titles are indeed important. Only exclusively held titles have the expected positive effects, and the positive effect on yields is found in male headed households. Furthermore, a household level rice yield function reveals that exclusive user rights...

  5. 33 CFR 117.324 - Rice Creek.

    Science.gov (United States)

    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,...

  6. Progress and Prospect of Functional Rice Researches

    Institute of Scientific and Technical Information of China (English)

    2008-01-01

    With the rapid development of economy and the increase of people's living standards, functional foods are being gradually embraced by consumers and have a great growth potential. Rice is the main staple food in China. It plays an important role in promoting people's health and in improving public nutrition, and therefore there is an ever-increasing consumer demand for rice for its functional quality. This study introduces the concept of functional rice and summarizes the current research progress on this topic and the application of breeding strategies including traditional breeding, induced mutagenesis, molecular marker-assisted selection and transgenic engineering in the research of a new generation of functional rice that posses health benefits, therapeutic values, bioreactor properties, and other unique functions. We then point out the prospect of functional rice from the point of view of social development, germplasm innovation,breeding of functional rice by biological technology and the test of active material related functional rice. We conclude that developing and marketing of functional rice is becoming a subject of great importance for research and is to be the focus of research in future.

  7. Low oil-uptake rice batters.

    Science.gov (United States)

    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...

  8. RICE BREAD FOR PEOPLE WITH CELIAC DISEASE

    Science.gov (United States)

    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 ...

  9. Functional Human Blood Protein Obtained from Rice

    Institute of Scientific and Technical Information of China (English)

    2011-01-01

    Under a research project funded by NSFC,Dr.Yang He of College of Life Sciences,Wuhan University obtained functional human blood protein from rice,and published their research findings in an article "Large-scale production of functional human serum albumin from transgenic rice seeds" on PNAS in November 2011.

  10. Rice aroma and flavor: a literature review.

    Science.gov (United States)

    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...

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

    Science.gov (United States)

    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...

  12. Rice mutant resources for gene discovery

    NARCIS (Netherlands)

    Hirochika, H.; Guiderdoni, E.; An, G.; Hsing, Y.I.; Eun, M.Y.; Han, C.D.; Upadhyaya, N.; Ramachandran, S.; Zhang, Q.F.; Pereira, A.B.; Sundaresan, V.; Leung, H.

    2004-01-01

    With the completion of genomic sequencing of rice, rice has been firmly established as a model organism for both basic and applied research. The next challenge is to uncover the functions of genes predicted by sequence analysis. Considering the amount of effort and the diversity of disciplines requi

  13. Functional genomics strategies with transposons in rice

    NARCIS (Netherlands)

    Greco, R.

    2003-01-01

    Rice is a major staple food crop and a recognizedmonocotylenedousmodel plant from which gene function discovery is projected to contribute to improvements in a variety of cereals like wheat and maize. The recent release of rough drafts of the rice genome sequence for public

  14. Bacillus oryzicola sp. nov., an Endophytic Bacterium Isolated from the Roots of Rice with Antimicrobial, Plant Growth Promoting, and Systemic Resistance Inducing Activities in Rice

    Directory of Open Access Journals (Sweden)

    Eu Jin Chung

    2015-06-01

    Full Text Available Biological control of major rice diseases has been attempted in several rice-growing countries in Asia during the last few decades and its application using antagonistic bacteria has proved to be somewhat successful for controlling various fungal diseases in field trials. Two novel endophytic Bacillus species, designated strains YC7007 and YC7010T, with anti-microbial, plant growth-promoting, and systemic resistance-inducing activities were isolated from the roots of rice in paddy fields at Jinju, Korea, and their multifunctional activities were analyzed. Strain YC7007 inhibited mycelial growth of major rice fungal pathogens strongly in vitro. Bacterial blight and panicle blight caused by Xanthomonas oryzae pv. oryzae (KACC 10208 and Burkholderia glumae (KACC 44022, respectively, were also suppressed effectively by drenching a bacterial suspension (10⁷ cfu/ml of strain YC7007 on the rhizosphere of rice. Additionally, strain YC7007 promoted the growth of rice seedlings with higher germination rates and more tillers than the untreated control. The taxonomic position of the strains was also investigated. Phylogenetic analyses based on 16S rRNA gene sequences indicated that both strains belong to the genus Bacillus, with high similarity to the closely related strains, Bacillus siamensis KACC 15859T (99.67%, Bacillus methylotrophicus KACC 13105T (99.65%, Bacillus amyloliquefaciens subsp. plantarum KACC 17177T (99.60%, and Bacillus tequilensis KACC 15944T (99.45%. The DNA-DNA relatedness value between strain YC7010T and the most closely related strain, B. siamensis KACC 15859T was 50.4±3.5%, but it was 91.5±11.0% between two strains YC7007 and YC7010T, indicating the same species. The major fatty acids of two strains were anteiso-C15:0 and iso C15:0. Both strains contained MK-7 as a major respiratory quinone system. The G+C contents of the genomic DNA of two strains were 50.5 mol% and 51.2 mol%, respectively. Based on these polyphasic studies, the

  15. A mutation in the rice chalcone isomerase gene causes the golden hull and internode 1 phenotype.

    Science.gov (United States)

    Hong, Lilan; Qian, Qian; Tang, Ding; Wang, Kejian; Li, Ming; Cheng, Zhukuan

    2012-07-01

    The biosynthesis of flavonoids, important secondary plant metabolites, has been investigated extensively, but few mutants of genes in this pathway have been identified in rice (Oryza sativa). The rice gold hull and internode (gh) mutants exhibit a reddish-brown pigmentation in the hull and internode and their phenotype has long been used as a morphological marker trait for breeding and genetic study. Here, we characterized that the gh1 mutant was a mutant of the rice chalcone isomerase gene (OsCHI). The result showed that gh1 had a Dasheng retrotransposon inserted in the 5′ UTR of the OsCHI gene, which resulted in the complete loss of OsCHI expression. gh1 exhibited golden pigmentation in hulls and internodes once the panicles were exposed to light. The total flavonoid content in gh1 hulls was increased threefold compared to wild type. Consistent with the gh1 phenotype, OsCHI transcripts were expressed in most tissues of rice and most abundantly in internodes. It was also expressed at high levels in panicles before heading, distributed mainly in lemmas and paleae, but its expression decreased substantially after the panicles emerged from the sheath. OsCHI encodes a protein functionally and structurally conserved to chalcone isomerases in other species. Our findings demonstrated that the OsCHI gene was indispensable for flux of the flavonoid pathway in rice. PMID:22286805

  16. Selection Under Domestication: Evidence for a Sweep in the Rice Waxy Genomic Region

    Science.gov (United States)

    Olsen, Kenneth M.; Caicedo, Ana L.; Polato, Nicholas; McClung, Anna; McCouch, Susan; Purugganan, Michael D.

    2006-01-01

    Rice (Oryza sativa) was cultivated by Asian Neolithic farmers >11,000 years ago, and different cultures have selected for divergent starch qualities in the rice grain during and after the domestication process. An intron 1 splice donor site mutation of the Waxy gene is responsible for the absence of amylose in glutinous rice varieties. This mutation appears to have also played an important role in the origin of low amylose, nonglutinous temperate japonica rice varieties, which form a primary component of Northeast Asian cuisines. Waxy DNA sequence analyses indicate that the splice donor mutation is prevalent in temperate japonica rice varieties, but rare or absent in tropical japonica, indica, aus, and aromatic varieties. Sequence analysis across a 500-kb genomic region centered on Waxy reveals patterns consistent with a selective sweep in the temperate japonicas associated with the mutation. The size of the selective sweep (>250 kb) indicates very strong selection in this region, with an inferred selection coefficient that is higher than similar estimates from maize domestication genes or wild species. These findings demonstrate that selection pressures associated with crop domestication regimes can exceed by one to two orders of magnitude those observed for genes under even strong selection in natural systems. PMID:16547098

  17. Induction of antioxidant enzyme activity and lipid peroxidation level in ion-beam-bombarded rice seeds

    Science.gov (United States)

    Semsang, Nuananong; Yu, LiangDeng

    2013-07-01

    Low-energy ion beam bombardment has been used to mutate a wide variety of plant species. To explore the indirect effects of low-energy ion beam on biological damage due to the free radical production in plant cells, the increase in antioxidant enzyme activities and lipid peroxidation level was investigated in ion-bombarded rice seeds. Local rice seeds were bombarded with nitrogen or argon ion beams at energies of 29-60 keV and ion fluences of 1 × 1016 ions cm-2. The activities of the antioxidant enzymes; superoxide dismutase (SOD), catalase (CAT), ascorbate peroxidase (APX), dehydroascorbate reductase (DHAR), glutathione reductase (GR), glutathione S-transferase (GST) and lipid peroxidation level were assayed in the germinated rice seeds after ion bombardment. The results showed most of the enzyme activities and lipid peroxidation levels in both the argon and nitrogen bombarded samples were higher than those in the natural control. N-ion bombardment could induce higher levels of antioxidant enzyme activities in the rice samples than the Ar-ion bombardment. Additional effects due to the vacuum condition were found to affect activities of some antioxidant enzymes and lipid peroxidation level. This study demonstrates that ion beam bombardment and vacuum condition could induce the antioxidant enzyme activity and lipid peroxidation level which might be due to free radical production in the bombarded rice seeds.

  18. Purification and Identification of Glutathione S-transferase in Rice Root under Cadmium Stress

    Institute of Scientific and Technical Information of China (English)

    ZHANG Chun-hua; WU Ze-ying; JU Ting; GE Ying

    2013-01-01

    Cadmium (Cd) contamination in paddy soils poses a serious threat to the production and quality of rice.Among various biochemical processes related to Cd detoxification in rice,glutathione S-transferase (GST) plays an important role,catalyzing Cd complexation with glutathione (GSH) and scavenging reactive oxygen species (ROS) in cells.In this study,a hydroponic experiment was conducted to investigate the response of GST isozymes in rice roots upon Cd exposure.Results showed that the GST activity in rice roots was clearly enhanced by 50 μmol/L Cd treatment for 7 d.The GST isozymes were purified by ammonium sulphate precipitation,gel filtration chromatography and affinity chromatography.After being separated by SDS-PAGE and visualized by silver staining,GSTU6 was identified by in-gel digestion,MALDI-TOF-MS analysis and peptide mass fingerprint.The results confirm the vital function of tau class rice GST in Cd detoxification.

  19. Hairpin RNA Targeting Multiple Viral Genes Confers Strong Resistance to Rice Black-Streaked Dwarf Virus

    Directory of Open Access Journals (Sweden)

    Fangquan Wang

    2016-05-01

    Full Text Available Rice black-streaked dwarf virus (RBSDV belongs to the genus Fijivirus in the family of Reoviridae and causes severe yield loss in rice-producing areas in Asia. RNA silencing, as a natural defence mechanism against plant viruses, has been successfully exploited for engineering virus resistance in plants, including rice. In this study, we generated transgenic rice lines harbouring a hairpin RNA (hpRNA construct targeting four RBSDV genes, S1, S2, S6 and S10, encoding the RNA-dependent RNA polymerase, the putative core protein, the RNA silencing suppressor and the outer capsid protein, respectively. Both field nursery and artificial inoculation assays of three generations of the transgenic lines showed that they had strong resistance to RBSDV infection. The RBSDV resistance in the segregating transgenic populations correlated perfectly with the presence of the hpRNA transgene. Furthermore, the hpRNA transgene was expressed in the highly resistant transgenic lines, giving rise to abundant levels of 21–24 nt small interfering RNA (siRNA. By small RNA deep sequencing, the RBSDV-resistant transgenic lines detected siRNAs from all four viral gene sequences in the hpRNA transgene, indicating that the whole chimeric fusion sequence can be efficiently processed by Dicer into siRNAs. Taken together, our results suggest that long hpRNA targeting multiple viral genes can be used to generate stable and durable virus resistance in rice, as well as other plant species.

  20. Multi-mycotoxin screening reveals separate occurrence of aflatoxins and ochratoxin a in Asian rice.

    Science.gov (United States)

    Lim, Chee Wei; Yoshinari, Tomoya; Layne, Jeff; Chan, Sheot Harn

    2015-04-01

    The determination of important regulated mycotoxins in rice has been reported previously but not in the individual matrix of white, brown, red, and basmati rice with respect to the matrix effect, recovery, and stability. A total of 190 Asian rices were examined for regulated mycotoxin contamination by the LC-ESI-MS/MS method. Significant variation (p < 0.05) in the matrix effect was observed for fumonisins. Methanol improved the limits of detection (LOD) for HT-2 from 50 μg/kg to 2.3 μg/kg by promoting ionization efficiency of the ammonium-adduct. LOD and limits of quantitation ranged from 0.1 to 18 μg/kg and 0.2-31 μg/kg, respectively. All analytes degraded by more than 50% on storage, except fumonisins. Acetic acid (1%) provided significant improvement (p < 0.05) in recovery for all analytes in selected white rice from Thailand and China. Mean recovery ranged from 70 to 120%. RSD values were lower than 15% for all analytes. Five AFB1 and single OTA positive samples were detected. No correlation between mycotoxin contamination and rice species (r = 0) exists.

  1. Imazethapyr and imazapic, bispyribac-sodium and penoxsulam: Zooplankton and dissipation in subtropical rice paddy water

    Energy Technology Data Exchange (ETDEWEB)

    Reimche, Geovane B., E-mail: geovane_reimche@yahoo.com.br [Department of Plant Protection, Federal University of Santa Maria (UFSM), 97105-900 Santa Maria, RS (Brazil); Machado, Sérgio L.O. [Department of Plant Protection, Federal University of Santa Maria (UFSM), 97105-900 Santa Maria, RS (Brazil); Oliveira, Maria Angélica [Department of Biology, Federal University of Santa Maria, Santa Maria, RS (Brazil); Zanella, Renato; Dressler, Valderi Luiz; Flores, Erico M.M. [Department of Chemistry, Federal University of Santa Maria, Santa Maria, RS (Brazil); Gonçalves, Fábio F. [School of Chemistry and Food, Federal Foundation University of Rio Grande (FURG), 95500-000 Santo Antônio da Patrulha, RS (Brazil); Donato, Filipe F.; Nunes, Matheus A.G. [Department of Chemistry, Federal University of Santa Maria, Santa Maria, RS (Brazil)

    2015-05-01

    Herbicides are very effective at eliminating weed and are largely used in rice paddy around the world, playing a fundamental role in maximizing yield. Therefore, considering the flooded environment of rice paddies, it is necessary to understand the side effects on non-target species. Field experiment studies were carried out during two rice growing seasons in order to address how the commonly-used herbicides imazethapyr and imazapic, bispyribac-sodium and penoxsulam, used at recommended dosage, affect water quality and the non-target zooplankton community using outdoor rice field microcosm set-up. The shortest (4.9 days) and longest (12.2 days) herbicide half-life mean, estimated of the dissipation rate (k) is shown for imazethapyr and bispyribac-sodium, respectively. Some water quality parameters (pH, conductivity, hardness, BOD{sub 5}, boron, potassium, magnesium, phosphorus and chlorides) achieved slightly higher values at the herbicide treatment. Zooplankton community usually quickly recovered from the tested herbicide impact. Generally, herbicides led to an increase of cladocera, copepods and nauplius population, while rotifer population decreased, with recovery at the end of the experiment (88 days after herbicide treatment). - Highlights: • Selective herbicides in paddy rice fields, do not affect water quality. • Zooplankton communities show good response with herbicide dissipation. • The use of commercial herbicide mixture has strong effects on freshwater Rotifers.

  2. Evolution of NIN-like proteins in Arabidopsis, rice, and Lotus japonicus.

    Science.gov (United States)

    Schauser, Leif; Wieloch, Wioletta; Stougaard, Jens

    2005-02-01

    Genetic studies in Lotus japonicus and pea have identified Nin as a core symbiotic gene required for establishing symbiosis between legumes and nitrogen fixing bacteria collectively called Rhizobium. Sequencing of additional Lotus cDNAs combined with analysis of genome sequences from Arabidopsis and rice reveals that Nin homologues in all three species constitute small gene families. In total, the Arabidopsis and rice genomes encode nine and three NIN-like proteins (NLPs), respectively. We present here a bioinformatics analysis and prediction of NLP evolution. On a genome scale we show that in Arabidopsis, this family has evolved through segmental duplication rather than through tandem amplification. Alignment of all predicted NLP protein sequences shows a composition with six conserved modules. In addition, Lotus and pea NLPs contain segments that might characterize NIN proteins of legumes and be of importance for their function in symbiosis. The most conserved region in NLPs, the RWP-RK domain, has secondary structure predictions consistent with DNA binding properties. This motif is shared by several other small proteins in both Arabidopsis and rice. In rice, the RWP-RK domain sequences have diversified significantly more than in Arabidopsis. Database searches reveal that, apart from its presence in Arabidopsis and rice, the motif is also found in the algae Chlamydomonas and in the slime mold Dictyostelium discoideum. Thus, the origin of this putative DNA binding region seems to predate the fungus-plant divide. PMID:15785851

  3. Identification of Optimal Hyperspectral Bands for Estimation of Rice Biophysical Parameters

    Institute of Scientific and Technical Information of China (English)

    Fu-Min Wang; Jing-Feng Huang; Xiu-Zhen Wang

    2008-01-01

    The present study aims to identify the narrow spectral bands that are most suitable for characterizing rice biophysical parameters. The data used for this study come from ground-level hyperspectral reflectance measurements for five rice species at three levels of nitrogen fertilization during the growing period. Reflectance was measured in discrete narrow bands between 350 and 2 500 nm. Observed rice biophysical parameters included leaf area index (LAI), wet biomass and dry biomass. The stepwise regression method was applied to identify the optimal bands for rice biophysical parameter estimation. This research indicated that combinations of four narrow bands in stepwise regression models explained 69% to 83% variability for LAI, 56% to 73% for aboveground wet biomass and 70% to 83% for leaf wet biomass. An overwhelming proportion of rice information was in a particular portion of near infrared (NIR) (1 100-1 150 nm), red-edge (700-750 nm), and a longer portion of green (550-600 nm). These were followed by the moisture-sensitive NIR (950-1 000 nm), the intermediate portion of shortwave infrared (SWIR) (1 650-1 700 nm), and another portion of NIR (t 000-1 050 nm).

  4. 21 CFR 172.890 - Rice bran wax.

    Science.gov (United States)

    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...

  5. 7 CFR 868.301 - Definition of milled rice.

    Science.gov (United States)

    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...

  6. 7 CFR 868.201 - Definition of rough rice.

    Science.gov (United States)

    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...

  7. Rice blast research: improving our arsenal and using it

    Science.gov (United States)

    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...

  8. The economic power of the Golden Rice opposition

    NARCIS (Netherlands)

    Wesseler, J.H.H.; Zilberman, D.

    2014-01-01

    Vitamin A enriched rice (Golden Rice) is a cost-efficient solution that can substantially reduce health costs. Despite Golden Rice being available since early 2000, this rice has not been introduced in any country. Governments must perceive additional costs that overcompensate the benefits of the te

  9. Unravelling trophic subsidies of agroecosystems for biodiversity conservation: Food consumption and nutrient recycling by waterbirds in Mediterranean rice fields

    Energy Technology Data Exchange (ETDEWEB)

    Navedo, Juan G., E-mail: jgnavedo@uach.cl [Instituto de Ciencias Marinas y Limnológicas, Universidad Austral de Chile, Facultad de Ciencias, Campus Isla Teja, 5090000 Valdivia (Chile); Conservation Biology Research Group, Universidad de Extremadura, Avda. Elvas s/n, 06002 Badajoz (Spain); Hahn, Steffen [Department Bird Migration, Swiss Ornithological Institute, Seerose 1, 6204 Sempach (Switzerland); Parejo, Manuel; Abad-Gómez, José M. [Conservation Biology Research Group, Universidad de Extremadura, Avda. Elvas s/n, 06002 Badajoz (Spain); Gutiérrez, Jorge S. [Conservation Biology Research Group, Universidad de Extremadura, Avda. Elvas s/n, 06002 Badajoz (Spain); Department of Marine Ecology, Royal Netherlands Institute for Sea Research (NIOZ), PO Box 59, 1790 AB Den Burg, Texel (Netherlands); Villegas, Auxiliadora; Sánchez-Guzmán, Juan M.; Masero, José A. [Conservation Biology Research Group, Universidad de Extremadura, Avda. Elvas s/n, 06002 Badajoz (Spain)

    2015-04-01

    Waterbirds can reallocate a considerable amount of nutrients within agricultural fields and between agriculture sites and wetlands. However their effects on biogeochemical cycles have rarely been quantified. We estimated bird numbers, diet (from stable isotope analysis), food supply, and the food consumption on rice fields by overwintering waterbirds in one of the most important areas for rice production in southwestern Europe and a key area for various migrating and resident waterbird species. Herein, we modelled the nutrient (N and P) recycling in rice fields, and their transport to reservoirs. The energy consumption by waterbirds (96,605 ± 18,311 individuals) on rice fields during winter averaged at 89.9 ± 39.0 kJ·m{sup −2}, with its majority (89.9%) belonging to foraging on rice seeds. Thus, the birds removed about 26% of rice seeds leftover after harvest (estimated in 932.5 ± 504.7 seeds·m{sup −2} in early winter) wherein common cranes and dabbling ducks (four species) were the most important consumers. Waterbirds foraging and roosting in the rice fields recycled more than 24.1 (1.0 kg·ha{sup −1}) of N and an additional 5.0 tons (0.2 kg·ha{sup −1}) of P in the Extremadura's rice fields during winter. Additionally, we estimated that 2.3 tons of N and 550 kg of P were removed from rice fields and transported to reservoirs. The seasonal foraging of wildlife should result in a direct benefit for rice farmers by improving nutrient recycling through defecation by waterbirds with respect to artificial fertilisation. Additionally, rice fields located in the cranes' core wintering areas can provide sufficient food supply to induce habitat shift from their traditional wintering habitat in ‘dehesas’ to rice fields, which causes indirect socioeconomic benefit through reduced acorn consumption by cranes. Our modelling approach may thus be especially helpful for management decisions regarding rice agroecosystems in areas which are also important

  10. Unravelling trophic subsidies of agroecosystems for biodiversity conservation: Food consumption and nutrient recycling by waterbirds in Mediterranean rice fields

    International Nuclear Information System (INIS)

    Waterbirds can reallocate a considerable amount of nutrients within agricultural fields and between agriculture sites and wetlands. However their effects on biogeochemical cycles have rarely been quantified. We estimated bird numbers, diet (from stable isotope analysis), food supply, and the food consumption on rice fields by overwintering waterbirds in one of the most important areas for rice production in southwestern Europe and a key area for various migrating and resident waterbird species. Herein, we modelled the nutrient (N and P) recycling in rice fields, and their transport to reservoirs. The energy consumption by waterbirds (96,605 ± 18,311 individuals) on rice fields during winter averaged at 89.9 ± 39.0 kJ·m−2, with its majority (89.9%) belonging to foraging on rice seeds. Thus, the birds removed about 26% of rice seeds leftover after harvest (estimated in 932.5 ± 504.7 seeds·m−2 in early winter) wherein common cranes and dabbling ducks (four species) were the most important consumers. Waterbirds foraging and roosting in the rice fields recycled more than 24.1 (1.0 kg·ha−1) of N and an additional 5.0 tons (0.2 kg·ha−1) of P in the Extremadura's rice fields during winter. Additionally, we estimated that 2.3 tons of N and 550 kg of P were removed from rice fields and transported to reservoirs. The seasonal foraging of wildlife should result in a direct benefit for rice farmers by improving nutrient recycling through defecation by waterbirds with respect to artificial fertilisation. Additionally, rice fields located in the cranes' core wintering areas can provide sufficient food supply to induce habitat shift from their traditional wintering habitat in ‘dehesas’ to rice fields, which causes indirect socioeconomic benefit through reduced acorn consumption by cranes. Our modelling approach may thus be especially helpful for management decisions regarding rice agroecosystems in areas which are also important for the conservation of

  11. Factors Affecting Methane Emission from Rice Paddies

    Institute of Scientific and Technical Information of China (English)

    于心科; 王卫东; 等

    1995-01-01

    A comparative study of rice paddies and the uncovered water field in Taoyuan(Hunan) showed that methane emission from rice-vegetated paddy fields in 1993 was different from that in 1992(I,e,lower in rates and irregular in pattern).Climate has obvious influence on methane emission .And ebullition made a considerable contribution to the total flux of methane emission from rice paddies (45%).This implies that the intensification of paddy cultivation of rice might not be,as was proposed,the main con-tributor to the observed gradual increasing of atmospheric methane.24-hour automatic measurements of atmospheric temperature,air temperature and methane concentration in the static sampling boxes revealed that temperature,in addition to fertilization and irrigation style,is one of the most important factors that control the emission of methane from rice paddies.

  12. Induction of antioxidant enzyme activity and lipid peroxidation level in ion-beam-bombarded rice seeds

    Energy Technology Data Exchange (ETDEWEB)

    Semsang, Nuananong, E-mail: nsemsang@gmail.com [Molecular Biology Laboratory, Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai 50200 (Thailand); Yu, LiangDeng [Plasma and Beam Physics Research Facility, Department of Physics and Materials Science, Faculty of Science, Chiang Mai University, Chiang Mai 50200 (Thailand); Thailand Center of Excellence in Physics, Commission on Higher Education, 328 Si Ayutthaya Road, Bangkok 10400 (Thailand)

    2013-07-15

    Highlights: ► Ion beam bombarded rice seeds in vacuum. ► Studied seed survival from the ion bombardment. ► Determined various antioxidant enzyme activities and lipid peroxidation level. ► Discussed vacuum, ion species and ion energy effects. ► Attributed the changes to free radical formation due to ion bombardment. -- Abstract: Low-energy ion beam bombardment has been used to mutate a wide variety of plant species. To explore the indirect effects of low-energy ion beam on biological damage due to the free radical production in plant cells, the increase in antioxidant enzyme activities and lipid peroxidation level was investigated in ion-bombarded rice seeds. Local rice seeds were bombarded with nitrogen or argon ion beams at energies of 29–60 keV and ion fluences of 1 × 10{sup 16} ions cm{sup −2}. The activities of the antioxidant enzymes; superoxide dismutase (SOD), catalase (CAT), ascorbate peroxidase (APX), dehydroascorbate reductase (DHAR), glutathione reductase (GR), glutathione S-transferase (GST) and lipid peroxidation level were assayed in the germinated rice seeds after ion bombardment. The results showed most of the enzyme activities and lipid peroxidation levels in both the argon and nitrogen bombarded samples were higher than those in the natural control. N-ion bombardment could induce higher levels of antioxidant enzyme activities in the rice samples than the Ar-ion bombardment. Additional effects due to the vacuum condition were found to affect activities of some antioxidant enzymes and lipid peroxidation level. This study demonstrates that ion beam bombardment and vacuum condition could induce the antioxidant enzyme activity and lipid peroxidation level which might be due to free radical production in the bombarded rice seeds.

  13. Characterization, Identification and Application of Lactic Acid Bacteria Isolated from Forage Paddy Rice Silage

    Science.gov (United States)

    Ni, Kuikui; Wang, Yanping; Li, Dongxia; Cai, Yimin; Pang, Huili

    2015-01-01

    There has been growing interest to develop forage rice as a new feed resource for livestock. This study was to characterize the natural population of lactic acid bacteria (LAB) and select potentially excellent strains for paddy rice silage preparation in China. One hundred and twenty-six strains were isolated and screened from paddy rice silage prepared using a small-scale fermentation system, and ninety-nine of these isolates were considered to be LAB based on their Gram-positive and catalase-negative morphology and the production of most of their metabolic products as lactic acid. These isolates were divided into eight groups (A-H) on the basis of their morphological and biochemical characteristics. The Group A to H strains were identified as Lactobacillus (L.) plantarum subsp. plantarum (species ratio: 8.1%), L. casei (5.1%), Leuconostoc (Ln.) pseudomesenteroides (11.1%), Pediococcus (P.) pentosaceus (24.2%), Enterococcus (E.) mundtii (12.1%), Lactococcus (Lc.) garvieae (15.2%), E. faecium (9.1%) and Lc. lactis subsp. lactis (15.2%) based on sequence analyses of their 16S rRNA and recA genes. P. pentosaceus was the most abundant member of the LAB population in the paddy rice silage. A selected strain, namely L. casei R 465, was found to be able to grow under low pH conditions and to improve the silage quality with low pH and a relatively high content of lactic acid. This study demonstrated that forage paddy rice silage contains abundant LAB species and its silage can be well preserved by inoculation with LAB, and that strain R 465 can be a potentially excellent inoculant for paddy rice silage. PMID:25803578

  14. Comparative analysis of pathogenicity and phylogenetic relationship in Magnaporthe grisea species complex.

    Directory of Open Access Journals (Sweden)

    Jaehyuk Choi

    Full Text Available Outbreaks of rice blast have been a threat to the global production of rice. Members of the Magnaporthe grisea species complex cause blast disease on a wide range of gramineous hosts, including cultivated rice and other grass species. Recently, based on phylogenetic analyses and mating tests, isolates from crabgrass were separated from the species complex and named M. grisea. Then other isolates from grasses including rice were named as M. oryzae. Here, we collected 103 isolates from 11 different species of grasses in Korea and analyzed their phylogenetic relationships and pathogenicity. Phylogenetic analyses of multilocus sequences and DNA fingerprinting revealed that the haplotypes of most isolates were associated with their hosts. However, six isolates had different haplotypes from the expectation, suggesting potential host shift in nature. Results of pathogenicity tests demonstrated that 42 isolates from crabgrass and 19 isolates from rice and other grasses showed cross-infectivity on rice and crabgrass, respectively. Interestingly, we also found that the isolates from rice had a distinct deletion in the calmodulin that can be used as a probe.

  15. In vitro studies on rice bran wax as skin moisturizer

    Directory of Open Access Journals (Sweden)

    Sabale Vidya

    2007-01-01

    Full Text Available Waxes have been used in many cosmetic preparations and pharmaceuticals as formulation aids. Rice bran wax is a byproduct of rice bran oil industry. Present study aims to investigate possible use of rice bran wax as occlusive moisturizer. The rice bran wax obtained was purified and its physicochemical characteristics were determined. In vitro studies were carried out to determine trans epidermal water loss through stratum corneum and water holding capacity of stratum corneum of human cadaver skin treated with pure rice bran wax and formulation of rice bran wax. The results show that rice bran wax can be used as a promising occlusive moisturizer.

  16. Characteristics of Growth and Yield Formation of Rice in Rice-Fish Farming System

    Institute of Scientific and Technical Information of China (English)

    YANG Yong; ZHANG Hong-cheng; HU Xiao-jun; DAI Qi-gen; ZHANG Yong-jiang

    2006-01-01

    By using single rice cultivation as a control, the effect of rice-fish culture on growth dynamic, plant type and yield formation of rice was studied. The results showed as follows: rice-fish culture improved the physical-chemical properties of arable layer soil of paddy field, extended growth period of rice, increased dry matter and LAI of different growth stages,improved three top leaves area, deterred the degeneration of leaves function, increased the diameter of stem, promoted the growth of roots and the formation of roots in the extended stem. At the same time, rice-fish culture extended the length of basal internodes, increased the number of internodes, uplifted the gravity of plant, and depressed the root vigor. For the grain yield and yield structure of rice, rice-fish culture decreased ear/tillering ratio, spikelet/panicle and seed set percentage,increased grain weight. If variety choice and cultivation technology were controlled appropriately, rice-fish culture could increase the effective panicles and improve grain yield of rice.

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

    Science.gov (United States)

    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

  18. Agriculture and the promotion of insect pests: rice cultivation in river floodplains and malaria vectors in The Gambia

    Directory of Open Access Journals (Sweden)

    Louca Vasilis

    2009-07-01

    Full Text Available Abstract Background Anthropogenic modification of natural habitats can create conditions in which pest species associated with humans can thrive. In order to mitigate for these changes, it is necessary to determine which aspects of human management are associated with the promotion of those pests. Anopheles gambiae, the main Africa malaria vector, often breeds in rice fields. Here the impact of the ancient practice of 'swamp rice' cultivation, on the floodplains of the Gambia River, on the production of anopheline mosquitoes was investigated. Methods Routine surveys were carried out along 500 m transects crossing rice fields from the landward edge of the floodplains to the river during the 2006 rainy season. Aquatic invertebrates were sampled using area samplers and emergence traps and fish sampled using nets. Semi-field experiments were used to investigate whether nutrients used for swamp rice cultivation affected mosquito larval abundance. Results At the beginning of the rainy season rice is grown on the landward edge of the floodplain; the first area to flood with fresh water and one rich in cattle dung. Later, rice plants are transplanted close to the river, the last area to dry out on the floodplain. Nearly all larval and adult stages of malaria vectors were collected 0–100 m from the landward edge of the floodplains, where immature rice plants were grown. These paddies contained stagnant freshwater with high quantities of cattle faeces. Semi-field studies demonstrated that cattle faeces nearly doubled the number of anopheline larvae compared with untreated water. Conclusion Swamp rice cultivation creates ideal breeding sites for malaria vectors. However, only those close to the landward edge harboured vectors. These sites were productive since they were large areas of standing freshwater, rich in nutrients, protected from fish, and situated close to human habitation, where egg-laying mosquitoes from the villages had short distances to

  19. Estimate of CH4 Emissions from Year-Round Flooded Rice Fields During Rice Growing Season in China

    Institute of Scientific and Technical Information of China (English)

    CAI Zu-Cong; KANG Guo-Ding; H. TSURUTA; A. MOSIER

    2005-01-01

    A special kind of rice field exists in China that is flooded year-round. These rice fields have substantially large CH4emissions during the rice-growing season and emit CH4 continuously in the non-rice growing season. CH4 emission factors were used to estimate the CH4 emissions from year-round flooded rice fields during the rice-growing season in China.The CH4 emissions for the year-round flooded rice fields in China for the rice growing season over a total area of 2.66Mha were estimated to be 2.44 Tg CH4 year-1. The uncertainties of these estimations are discussed as well. However,the emissions during the non-rice growing season could not be estimated because of limited available data. Nevertheless,methane emissions from rice fields that were flooded year-round could be several times higher than those from the rice fields drained in the non-rice-growing season. Thus, the classification of "continuously flooded rice fields" in the IPCC(International Panel on Climate Change) Guidelines for National Greenhouse Gas Inventories is suggested to be revised and divided into "continuously flooded rice fields during the rice growing season" and "year-round flooded rice fields".

  20. Consumer Preferences and Buying Criteria in Rice: A Study to Identify Market Strategy for Thailand Jasmine Rice Export

    NARCIS (Netherlands)

    Suwannaporn, P.; Linnemann, A.R.

    2008-01-01

    Rice consumption per capita in many Asian countries decreased, but it is consumed more in non-rice-eating countries. This study aimed to investigate consumer preferences and attitudes toward Jasmine rice among consumers in target rice export countries to identify opportunities and strategic implicat

  1. Proteomics of Rice Seed Germination

    Institute of Scientific and Technical Information of China (English)

    Dongli He; Chao Han; Xiaojian Yin; Hui Zhang; Pingfang Yang

    2012-01-01

    Seed germination is a complex physiological which starts from the uptake of water by the dry seeds and ends at the protrusion of the radicle.In order to elucidate the mechanism of rice seed germination,we have conducted a systematic proteomic analyses combining with 1-D via LC MS/MS,comparative 2-DE and iTRAQ techniques using the whole seed or dissected embryos and endosperm.During rice seed germination,the embryo and endosperm played different roles.The seed weight increased and complied by a triphasic model.Phase I accompanied with rapid seed water-up-take,the embryo produced gibberellic acid (GA) and diffused to aleurone and then prepared to initiate a signaling cascade to drive the reserves degradation in the starchy endosperm.Phase II is the most important stage for metabolic reactions reactivation,the reserves mobilization,cell construction respiration,cell wall loosening and coleoptile elongation,most of the metabolism related proteins sorted to different pathways were identified at 24 h after imbibition,but the metabolism of nucleotides was not active at this stage for few related proteins have been involved.The degradation of seed maturation and desiccation-associated proteins seemed to be earlier than that of the storage proteins and starch.The glycolysis was the main pathway for energy and substance providing.Phase III is another rapid water-uptake stage accompanying with TCA and aerobic respiration strengthening,cell division initiation and the radical protrusion.Interesting,both biosynthesis and degradation of the same macromolecule were concurrence even in the dry seed,which implied the sequentially matabolic and regulatory events triggered by water uptake during rice seed germination have been programmed during seed maturation.

  2. Research on the development of weed-suppressing rice varieties

    Institute of Scientific and Technical Information of China (English)

    Shaochuan ZHOU; Decheng LU; Hong LI; Daoqiang HUANG; Ruowei MIAO

    2009-01-01

    This study was conducted to develop weed-suppressing rice varieties in a weed-suppressing nursery by specific secondary metabolite markers of allelopathic potential. Weed-suppressing rice variety Feng-Hua-Zhan was screened out by a specific secondary metabolite marker of allelopathic potential. Weed-suppressing rice No. 1, a new rice line with good quality, was also developed using this method. The genetic backgrounds and research directions of weed-suppressing rice varieties are discussed in this paper.

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

    OpenAIRE

    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...

  4. Utilization of Probiotic-Fermented Rice Straw as Ruminant Feed

    OpenAIRE

    Amlius Thalib

    2008-01-01

    Agriculture in Indonesia is dominated by a rice-based farming system where ruminants are kept as saving and to provide draft power. The productivity of ruminants under this farming system is relatively low. The low productivity is mainly due to inadequate supply of feed. As the agriculture is a rice-based farming system, rice straws become potential crop residues existing in almost all areas in Indonesia. Many studies on the utilization of rice straw as ruminant feed have been conducted. Rice...

  5. Studies on Rice Bran and its benefits- A Review

    OpenAIRE

    Renu Sharma; Tanuja Srivastava

    2015-01-01

    Rice bran, a by-product of rice milling industry is rich in micronutrients like oryzanols, tocopherols, tocotrienols, phytosterols and dietary fibers. The high nutritional profile of rice bran has not been utilized due to problems associated with lipase enzyme, which reduces the quality of rice bran and makes it unfit for human consumption. After the stabilization of lipase enzyme, it is possible to derive highly nutritious value-added products of rice bran. Due to the presence of...

  6. Development in Rice Genome Research Based on Accurate Genome Sequence

    OpenAIRE

    2008-01-01

    Rice is one of the most important crops in the world. Although genetic improvement is a key technology for the acceleration of rice breeding, a lack of genome information had restricted efforts in molecular-based breeding until the completion of the high-quality rice genome sequence, which opened new opportunities for research in various areas of genomics. The syntenic relationship of the rice genome to other cereal genomes makes the rice genome invaluable for understanding how cereal genomes...

  7. Use AMMI model to analyze adaptability of rice varieties

    Institute of Scientific and Technical Information of China (English)

    SHENXihang; WANGLei; YANGShihua; XIEFuxian

    1998-01-01

    The adaptability of rice varieties is one of the most concerned questions to rice breeders. In rice breeding, combined variety test and regional trials which included multiple genotypes and environments were conducted to identify the adaptability of new rice varieties. In most regional trials, interaction between genotype and environment is significant, so it is important to analyze the interaction for estimating the adaptability of rice varieties.

  8. Rice formulas and Gaussian waves

    CERN Document Server

    Azaïs, Jean-Marc; Wschebor, Mario

    2011-01-01

    We use Rice's formulas in order to compute the moments of some level functionals which are linked to problems in oceanography and optics: the number of specular points in one and two dimensions, the distribution of the normal angle of level curves and the number of dislocations in random wavefronts. We compute expectations and in some cases, also second moments of such functionals. Moments of order greater than one are more involved, but one needs them whenever one wants to perform statistical inference on some parameters in the model or to test the model itself. In some cases we are able to use these computations to obtain a Central Limit Theorem.

  9. Arsenic compounds toxic to rice

    Energy Technology Data Exchange (ETDEWEB)

    Epps, E.A.; Sturgis, M.B.

    1939-01-01

    A study has been made of the kinds of arsenic compounds that may be toxic to rice and of means for correcting the toxicity. Some of the arsenic compounds in flooded soils are reduced, with consequent increase in soluble arsenic content of the soil and decrease in total arsenic content due to liberation of gaseous compounds of arsenic. It was demonstrated that some of the arsenic was lost as arsine. Many of the naturally-occurring compounds of arsenic are not attacked by the micro-organisms and do not become more soluble. Additions of sulfur to soils containing toxic amounts of arsenic decreased the amount of soluble arsenic in the soil.

  10. Evaluation of Heavy Metals Contamination from Environment to Food Matrix by TXRF: The Case of Rice and Rice Husk

    Directory of Open Access Journals (Sweden)

    Fabjola Bilo

    2015-01-01

    Full Text Available This paper is devoted to the chemical analysis of contaminated soils of India and the rice grown in the same area. Total reflection X-ray fluorescence spectroscopy is a well-established technique for elemental chemical analysis of environmental samples, and it can be a useful tool to assess food safety. Metals uptake in rice crop grown in soils from different areas was studied. In this work soil, rice husk and rice samples were analyzed after complete solubilization of samples by microwave acid digestion. Heavy metals concentration detected in rice samples decreases in the following order: Mn > Zn > Cu > Ni > Pb > Cr. The metal content in rice husk was higher than in rice. This study suggests, for the first time, a possible role of heavy metals filter played by rice husk. The knowledge of metals sequestration capability of rice husk may promote some new management practices for rice cultivation to preserve it from pollution.

  11. First report of Cheiloneurus exitiosus (Perkins, 1906) and Helegonatopus dimorphus (Hoffer, 1954) (Hymenoptera: Encyrtidae) from Japan, with remarks on their abundance in rice paddies

    Science.gov (United States)

    Handa, Hironobu; Higashiura, Yoshimitsu; Japoshvili, George

    2016-01-01

    Abstract Background Encyrtid secondary parasitoids of Delphacidae have not been recorded in Japan. However, they may play an important role in the rice ecosystem because they can reduce the number of Dryinidae, the natural enemies of rice planthoppers. New information We found two encyrtid species, Cheiloneurus exitiosus (Perkins, 1906) and Helegonatopus dimorphus (Hoffer, 1954), from rice paddies and the surrounding environment. Haplogonatopus oratorius (Westwood, 1833) and Anteon sp. were newly recognized as hosts of He. dimorphus. Parasitism of C. exitiosus was rare, but He. dimorphus was common in Kumamoto Prefecture. The sex ratio (male proportion) and clutch size of He. dimorphus was estimated as 0.19 and 4.95, respectively.

  12. Identification of Thai Hom Mali rice using a refractometer

    Science.gov (United States)

    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.

  13. Product yields and characteristics of rice husk, rice straw and corncob during fast pyrolysis in a drop-tube/fixed-bed reactor

    Directory of Open Access Journals (Sweden)

    Janewit Wannapeera

    2008-05-01

    Full Text Available Fast pyrolysis of rice husk, rice straw and corncob were investigated in a newly constructed drop-tube/fixed-bedreactor, which enables pyrolysis experiments under conditions closely simulating those occurring in commercial gasifierssuch as fluidised-bed gasifiers. Biomass samples were pyrolysed with a fast heating rate (i.e. > 1,000oC s-1, up to 850oC andholding times ranging from 1 to 10,800 seconds. Within 1 second after the biomass was injected into the reactor, considerableweight loss occurred instantaneously, leaving only a small amount of char, i.e. ~10-30 %. For all three samples, theweight loss continued throughout the range of holding times used but at an extremely slow rate, i.e. 1.3 % hr-1. The weightloss rates observed for the three biomass samples were affected by the proportion of the biomass chemical componentsas well as the metal species contents. Corncob, which had the lowest lignin content but highest cellulose content, had thehighest pyrolysis weight loss rate. On the other hand, rice husk containing a relatively high lignin content, had the lowestpyrolysis rate. The metal species (Na, K, Ca and Mg were found to increase devolatilisation yield depending on theircontents in biomass. The influence of the metal species was the most pronounced for rice straw, having the highest totalmetal species content. As the pyrolysis progressed, each biomass exhibited different char characteristics. Scanning electronmicroscopy (SEM pictures clearly showed the individual changes in geometry for all biomass-derived chars as well astheir decrease in combustion reactivities. The gas formation profiles for all three biomass samples showed almost the sametrend, with CO contributed by cellulose decomposition as the major gas product.

  14. Relation between Rice Crop Quality (Protein Content) and Fertilizer Amount as Well as Rice Stump Density Derived from Helicopter Data

    OpenAIRE

    Kohei Arai; Masanoori Sakashita; Osamu Shigetomi; Yuko Miura

    2015-01-01

    Relation between protein content in rice crops and fertilizer amount as well as rice stump density is clarified with a multi-spectral camera data mounted on a radio-wave controlled helicopter. Estimation of protein content in rice crop and total nitrogen content in rice leaves through regression analysis with Normalized Difference Vegetation Index: NDVI derived from camera mounted radio-controlled helicopter is already proposed. Through experiments at rice paddy fields which is situated at Sa...

  15. Origin of Weedy Rice as Revealed by Hybridizations among Cultivated Rice and its Wild Relatives%栽培稻及其近缘野生种间杂交揭示杂草稻的起源

    Institute of Scientific and Technical Information of China (English)

    许红云; 陈丽娟; 熊海波; 朱骞; 石瑜敏; 王威豪; 刘百龙; 徐家星; 文建成; 李东宣

    2012-01-01

    通过水稻种间、亚种间和品种间的杂交,在套袋隔离和自然授粉两种条件下,对其杂交亲本主要农艺性状类型及杂交后代群体中杂草稻发生频率、类型及主要特征以及杂草稻的发生趋势进行调查分析,直接验证和重演杂草稻起源的主要路径.杂草稻的主要特征为:颖壳褐色或金色,种皮红色,散穗、易落粒,中长芒或无芒.结果表明,如果以近缘野生种为亲本,在其F2群体中比较容易发生类似杂草稻的单株;杂交组合中杂草稻出现频率的大小依次为:杂草稻或野生稻/粳稻(44.16%)>杂草稻或野生稻/籼稻(27.84%)>籼稻/粳稻(3.30%)>籼稻/籼稻(1.41%)>梗稻/粳稻(0).这一结果显示杂交亲本间遗传差异越大,在后代中出现杂草稻类型植株的频率就越高.套袋条件下,后代中杂草稻出现的频率为10.70%,而不套袋情况下为4.90%.%The objectives of this study are to explore the occurrence and development of weedy rice by investigating the frequency of weedy rice, which occurred in the progenies of crosses amount wild rice species, typical weedy rice,rice subspecies and cultivars. The results of this study indicated that wild and weedy rice showed brown or golden color of glum with or without awns and red pericarp, spreading type of panicles and shattering easily. A-nalysis for qualitative characteristics in F2 population suggested that the hybrid combinations with one of its parental line, which genetically nearer to its ancestry lines, would be prone to produce more weedy rice like plants. The frequencies of occurrence of weedy rice like plants in F2 population varied depending on the genetic similarities between the two parents. The more different between two parental lines are the more frequent weedy rice like plants produced. The sequence is as: weedy rice or wild rice/Japonica (44. 16%) > weedy rice or wild rice/Indica (27.84%) >Indica/Japonica (3. 30%) > Indica/Indica( 1. 41

  16. Using rice straw to manufacture ceramic bricks

    Directory of Open Access Journals (Sweden)

    Gorbunov German Ivanovich

    2014-12-01

    Full Text Available In the article, the co-authors offer their advanced and efficient methodologies for the recycling of the rice straw, as well as the novel approaches to the ceramic brick quality improvement through the application of the rice straw as the combustible additive and through the formation of amorphous silica in the course of the rice straw combustion. The co-authors provide characteristics of the raw materials, production techniques used to manufacture ceramic bricks, and their basic properties in the article. The co-authors describe the simulated process of formation of amorphous silica. The process in question has two independent steps (or options: 1 rice straw combustion and ash formation outside the oven (in the oxidizing medium, and further application of ash as the additive in the process of burning clay mixtures; 2 adding pre-treated rice straw as the combustible additive into the clay mixture, and its further burning in compliance with the pre-set temperature mode. The findings have proven that the most rational pre-requisite of the rice straw application in the manufacturing of ceramic bricks consists in feeding milled straw into the clay mixture to be followed by molding, drying and burning. Brick samples are highly porous, and they also demonstrate sufficient compressive strength. The co-authors have also identified optimal values of rice straw and ash content in the mixtures under research.

  17. Current Hypothesis for the Relationship between Dietary Rice Bran Intake, the Intestinal Microbiota and Colorectal Cancer Prevention.

    Science.gov (United States)

    So, Winnie K W; Law, Bernard M H; Law, Patrick T W; Chan, Carmen W H; Chair, Sek Ying

    2016-01-01

    Globally, colorectal cancer (CRC) is the third most common form of cancer. The development of effective chemopreventive strategies to reduce CRC incidence is therefore of paramount importance. Over the past decade, research has indicated the potential of rice bran, a byproduct of rice milling, in CRC chemoprevention. This was recently suggested to be partly attributable to modification in the composition of intestinal microbiota when rice bran was ingested. Indeed, previous studies have reported changes in the population size of certain bacterial species, or microbial dysbiosis, in the intestines of CRC patients and animal models. Rice bran intake was shown to reverse such changes through the manipulation of the population of health-promoting bacteria in the intestine. The present review first provides an overview of evidence on the link between microbial dysbiosis and CRC carcinogenesis and describes the molecular events associated with that link. Thereafter, there is a summary of current data on the effect of rice bran intake on the composition of intestinal microbiota in human and animal models. The article also highlights the need for further studies on the inter-relationship between rice bran intake, the composition of intestinal microbiota and CRC prevention. PMID:27649240

  18. A Sulfonylurea Herbicide Resistance Gene from Arabidopsis thaliana as a New Selectable Marker for Production of Fertile Transgenic Rice Plants.

    Science.gov (United States)

    Li, Z; Hayashimoto, A; Murai, N

    1992-10-01

    A mutant acetolactate synthase (ALS) gene, csr1-1, isolated from sulfonylurea herbicide-resistant Arabidopsis thaliana, was placed under control of a cauliflower mosaic virus 35S promoter (35S). Rice protoplasts were transformed with the 35S/ALS chimeric gene and regenerated into fertile transgenic rice (Oryza sativa) plants. The 35S/ALS gene was expressed effectively as demonstrated by northern blot hybridization analysis, and conferred to transformed calli at least 200-fold greater chlorsulfuron resistance than nontransformed control calli. Effective selection of 35S/ALS-transformed protoplasts was achieved at extremely low chlorsulfuron concentrations of 10 nm. The results demonstrated that the 35S/ALS gene is an alternative selectable marker for rice protoplast transformation and fertile transgenic rice production. The results also suggest that the mutant form of Arabidopsis ALS enzyme operates normally in rice cells. Thus, the mechanism of protein transport to chloroplast and ALS inhibition by chlorsulfuron is apparently conserved among plant species as diverse as Arabidopsis (dicotyledon) and rice (monocotyledon). PMID:16653044

  19. Current Hypothesis for the Relationship between Dietary Rice Bran Intake, the Intestinal Microbiota and Colorectal Cancer Prevention

    Directory of Open Access Journals (Sweden)

    Winnie K. W. So

    2016-09-01

    Full Text Available Globally, colorectal cancer (CRC is the third most common form of cancer. The development of effective chemopreventive strategies to reduce CRC incidence is therefore of paramount importance. Over the past decade, research has indicated the potential of rice bran, a byproduct of rice milling, in CRC chemoprevention. This was recently suggested to be partly attributable to modification in the composition of intestinal microbiota when rice bran was ingested. Indeed, previous studies have reported changes in the population size of certain bacterial species, or microbial dysbiosis, in the intestines of CRC patients and animal models. Rice bran intake was shown to reverse such changes through the manipulation of the population of health-promoting bacteria in the intestine. The present review first provides an overview of evidence on the link between microbial dysbiosis and CRC carcinogenesis and describes the molecular events associated with that link. Thereafter, there is a summary of current data on the effect of rice bran intake on the composition of intestinal microbiota in human and animal models. The article also highlights the need for further studies on the inter-relationship between rice bran intake, the composition of intestinal microbiota and CRC prevention.

  20. Do radial oxygen loss and external aeration affect iron plaque formation and arsenic accumulation and speciation in rice?

    Science.gov (United States)

    Wu, Chuan; Ye, Zhihong; Li, Hui; Wu, Shengchun; Deng, Dan; Zhu, Yongguan; Wong, Minghung

    2012-05-01

    Hydroponic experiments were conducted to investigate the effect of radial oxygen loss (ROL) and external aeration on iron (Fe) plaque formation, and arsenic (As) accumulation and speciation in rice (Oryza sativa L.). The data showed that there were significant correlations between ROL and Fe concentrations in Fe plaque produced on different genotypes of rice. There were also significant differences in the amounts of Fe plaque formed between different genotypes in different positions of roots and under different aeration conditions (aerated, normal, and stagnant treatments). In aerated treatments, rice tended to have a higher Fe plaque formation than in a stagnant solution, with the greatest formation at the root tip decreasing with increasing distances away, in accordance with a trend of spatial ROL. Genotypes with higher rates of ROL induced higher degrees of Fe plaque formation. Plaques sequestered As on rice roots, with arsenate almost double that with arsenite, leading to decreased As accumulation in both roots and shoots. The major As species detected in roots and shoots was arsenite, ranging from 34 to 78% of the total As in the different treatments and genotypes. These results contribute to our understanding of genotypic differences in As uptake by rice and the mechanisms causing rice genotypes with higher ROL to show lower overall As accumulation.

  1. Comparative proteomic study and functional analysis of translationally controlled tumor protein in rice roots under Hg2+ stress

    Institute of Scientific and Technical Information of China (English)

    Feijuan Wang; Yongshen Shang; Ling Yang; Cheng Zhu

    2012-01-01

    So far,very little is known about mercury stress-induced intercellular metabolic changes in rice roots at the proteome level.To investigate the response of rice roots to mercury stress,changes in protein expression in rice roots were analyzed using a comparative proteomics approach.Six-leaf stage rice seedlings were treated with 50 μmol/L HgCl2 for 3 hr; 29 protein spots showed a significant changes in abundance under stress when compared with the Hg2+-tolerant rice mutant and wild type (Zhonghua 11).Furthermore,all these protein spots were identified by mass spectrometry to match 27 diverse protein species.The identified proteins were involved in several processes,including stress response,redox homeostasis,signal transduction,regulation and metabolism; some were found to be cellular structure proteins and a few were unknown.Among the up-regulated proteins,OsTCTP (translationally controlled tumor protein) was chosen to perform hetereologous expression in yeast which was presumed to participate in the Hg2+ tolerance of rice,providing evidence for its role in alleviating Hg2+ damage.Among the many tests,we found that OsTCTP-overexpressed yeast strains were more resistant to Hg2+ than wild-type yeast.Thus,we propose that OsTCTP contributes to Hg2+ resistance.Here we present,for the first time,the functional characterization of OsTCTP in connection with Hg2+ stress in plants.

  2. Evidence for biotrophic lifestyle and biocontrol potential of dark septate endophyte Harpophora oryzae to rice blast disease.

    Directory of Open Access Journals (Sweden)

    Zhen-Zhu Su

    Full Text Available The mutualism pattern of the dark septate endophyte (DSE Harpophora oryzae in rice roots and its biocontrol potential in rice blast disease caused by Magnaporthe oryzae were investigated. Fluorescent protein-expressing H. oryzae was used to monitor the colonization pattern. Hyphae invaded from the epidermis to the inner cortex, but not into the root stele. Fungal colonization increased with root tissue maturation, showing no colonization in the meristematic zone, slight colonization in the elongation zone, and heavy colonization in the differentiation zone. H. oryzae adopted a biotrophic lifestyle in roots accompanied by programmed cell death. Real-time PCR facilitated the accurate quantification of fungal growth and the respective plant response. The biocontrol potential of H. oryzae was visualized by inoculation with eGFP-tagged M. oryzae in rice. H. oryzae protected rice from M. oryzae root invasion by the accumulation of H2O2 and elevated antioxidative capacity. H. oryzae also induced systemic resistance against rice blast. This systemic resistance was mediated by the OsWRKY45-dependent salicylic acid (SA signaling pathway, as indicated by the strongly upregulated expression of OsWRKY45. The colonization pattern of H. oryzae was consistent with the typical characteristics of DSEs. H. oryzae enhanced local resistance by reactive oxygen species (ROS and high antioxidative level and induced OsWRKY45-dependent SA-mediated systemic resistance against rice blast.

  3. Induced mutants for rice functional genomics

    International Nuclear Information System (INIS)

    Induced mutations have been playing important roles in both crop germplasm enhancement and new variety development. With the completion of the rice genome sequence, the study on functional genomics in rice has become a major task. Construction of rice mutant library is an essential approach for rice functional genomics study. This paper briefly reviewed several common techniques for generation of rice mutant library and its application in rice functional research, taking examples of developing rice chloroplast development related mutant library to provide the basic materials for functional genes cloning. A rice Chlorophyll (Chl) deficient mutant, yellow-green leaf1 (ygl1), was isolated, which showed yellow-green leaves in young plants with decreased Chl synthesis, increased level of tetrapyrrole intermediates, and delayed chloroplast development. Genetic analysis demonstrated that the phenotype of ygl1 was caused by a recessive mutation in a nuclear gene. The ygl1 locus was mapped to chromosome 5. A missense mutation was found in a highly conserved residue of YGL1 in the ygl1 mutant, resulting in reduction of the enzymatic activity. Another green-revertible albino leaf (gral) mutant involved in chloroplast development was screened from a M2 population induced by 300Gy 60Co gamma rays irradiation to the seeds of rice male sterile line PA64S with the collaboration of Zhejiang University. The mutant seedling leaves exhibit albino firstly but turn to normal green after the sixth leaf extended thoroughly. Systematical research including photosynthetic pigment, chloroplast microscopic observation and gene cloning was carried out on the gral mutant. (author)

  4. Output supply and yield response of rice in Nigeria: implications for future rice policy

    OpenAIRE

    Boansi, David

    2013-01-01

    With the local rice industry of Nigeria been hindered by inconsistent government policies, improper methods of production, high cost and scarcity of vital inputs of production among other constraints, domestic production of rice has failed to catch up with the increasing pace of consumption. In spite of the strong agricultural and natural resource base it hauls, Nigeria spends a total of about US$11 billion annually on importation of rice, wheat, sugar and fish. Attempts by previous regimes a...

  5. Incorporating Regional Rice Production Models in Rice Importation Simulation Model: a Stochastic Programming Approach

    OpenAIRE

    Rosalina G. de Guzman; Mina, Christian D.; Crean, Jason; Parton, Kevin; Reyes, Celia M.

    2009-01-01

    In the Philippines, importation has remained as one of the most feasible options for the government to meet the growing demand for rice. It is thus imperative for the government to develop a strategy that would ensure adequate supply and minimum importation costs. One of the critical factors in import decisionmaking is rice production. The Inter-Agency Committee on Rice and Corn (IACRC), where the National Food Authority (NFA) and Bureau of Agricultural Statistics (BAS) are members, decides o...

  6. Influences of the Paddy Rices with Different Moistures on the Head Rice Recovery

    Institute of Scientific and Technical Information of China (English)

    2000-01-01

    A major component rice variety of Xiangwanxian 9 (a late lndica variety) with 13.1%, 15.6% and 18. 3% of the moisture was respectively mixed with three ad ditive varieties in 13% of moisture at ration of 7:3 for processing assorted rices. Head rice recovery of the treatments was determined 24 hours later. Analysis indicated sig nificant differences exist in the effects produced by the component varieties, their moistures and the component variety moisture.

  7. Endosperm Development in Autotetraploid Rice

    Institute of Scientific and Technical Information of China (English)

    WANG Lan; LIU Xiang-dong; LU Yong-gen; FENG Jiu-huan; XU Xue-bin; XU Shi-xiong (S.Y.Zee)

    2005-01-01

    By using the laser scanning confocal microscope and plastic (Leica 7022 historesin embedding kit) semi-thin sectioningtechnique, comparative studies on the development of endosperm were carried out between autotetraploid and diploid rices. Aboutone third of the ovaries in the autotetraploid showed normal endosperm development as those in the diploid. In these ovaries, one ofthe polar nuclei would fuse with the sperm nucleus, and the primary endosperm nucleus formed and underwent the first division in 4hours after pollination; the anticlinal wall began to grow centripetally between the free nuclei starting from the wall ingrowths of theembryo sac near the micropylar end, and some of the phragmoplasts formed transformed into periclinal walls. In addition, some of thecell wall situated in the middle of the endosperm appeared to originate from phragmoplasts, whereas others seemed to developrandomly without the obvious formation of phragmoplasts. Cellulose began to accumulate in the wall of aleurone cell layer at 6 daysafter pollination. The cellulose wall of the cells of the aleurone cell layer appeared to have completely formed within 7 to 8 days afterpollination. On the other hand, about two thirds of the ovaries in the autotetraploid showed abnormality in endosperm developmentwith various types, such as non-fertilization, abnormal fertilization, endosperm development-delay and non-synchronization in thedevelopment of cellulose wall of cells of the aleurone layer. These abnormalities usually resulted in decreased seed setting inautotetraploid rice.

  8. Elemental Content in Brown Rice by Inductively Coupled Plasma Atomic Emission Spectroscopy Reveals the Evolution of Asian Cultivated Rice

    Institute of Scientific and Technical Information of China (English)

    Yawen Zeng; Luxiang Wang; Juan Du; Jiafu Liu; Shuming Yang; Xiaoying Pu; Fenghui Xiao

    2009-01-01

    The phylogenetic relationship for classification traits and eight mineral elements in brown rice (Oryza sativa L.) from Yunnan Province in China was carried out using microwave assisted digestion followed by inductively coupled plasma atomic emission spectroscopy, and the analytical procedures were carefully controlled and validated. In general, the results show that the mean levels of K, Ca, Mg, Fe and Cu in brown rice for 789 accessions of rice landraces was distinctly lower than that of improved cultivars. They further demonstrate that Ca plays an important role in the differentiation of subspecies indica-japonica, especially to enhance adaptation of cold stress, and that five mineral elements in brown rice enhance the eurytopicity from landrace to improved cultivar. Hierarchical cluster analysis, using average linkage from SPSS software based on eight mineral elements in brown rice, showed that Yunnan rice could be grouped into rice landrace and improved cultivar, with the rice landrace being further clustered into five subgroups, and that, interestingly, purple rice does not cluster with either of the groups. Our present data confirm that indica is the closest relative of late rice and white rice, and that they constitute rice landraces together, whereas japonica is the closest relatives of non-nuda, early-mid and glutinous rice. It is further shown that japonica, non-nuda, early-mid, glutinous, white and red rice might be more primitive than indica, nuda, late, non-glutinous and purple rice, respectively.

  9. Study on Extrusion Technological Parametersof Brown Rice

    Institute of Scientific and Technical Information of China (English)

    ZhuYongyi; ZhouXianqing; LingLizhong

    2001-01-01

    Abstract: Extrusion is an efficient measure to improve the texture and physic-chemical properties of brown rice. The polynomial degree two model of extrusiontechnological parameters and gelatinized degree, water absorption index, water solubleindex and moisture content of extruded matter was obtained by methods of single factorand response surface methodology, R2=0.9649, 0.8745, 0.9079, 0.8677. The optimaltechnoiogica! parameters of brown rice extrusion were figured out as follows:moisturecontent of brown rice, 11.42%, speed of screw, 30rpm, feeding speed, and 20rpm.

  10. AGROCHEMISTRY OF HUMIC GROWTH REGULATORS IN RICE

    OpenAIRE

    Sheudghen A. H.; Bondareva T. N.; Shtuts R. V.; Yesipenko S. V.

    2015-01-01

    The article shows prospects of the use of growth regulators on the nature of humic culture of rice in the first place due to the low field germination of seeds, rice crops lodging. Effect of humate on the growth, development and photosynthetic activity of plants, as well as the consumption of nitrogen, phosphorus and potassium results in increased grain yield of rice. Depending on the type of humate yield increased by 5,0-6,4 с/ha. Seed treatment caused a change humates biochemical and techno...

  11. USING RICE BRAN IN LAYING HEN DIETS

    OpenAIRE

    H ERSIN SAMLI; NIZAMETTIN SENKOYLU; HASAN AKYUREK; AYLIN AGMA

    2006-01-01

    Rice bran is an energy and protein rich ingredient used in poultry feeding. To balance energy and protein requirements. The purpose of this study is to examine the effects of rice bran on performance and egg quality during peak production of a commercial White laying strain of 22 week of age. Dietary treatments were consisted by inclusion of rice bran at 0, 5, 10 and 15% levels. Each treatment had 6 reps in which 12 birds were randomly assigned in wired fl oor battery cages equipped with nipp...

  12. Chemical Looping Combustion of Rice Husk

    OpenAIRE

    Rashmeet Singh Monga; Ganesh R. Kale

    2015-01-01

    A thermodynamic investigation of direct chemical looping combustion (CLC) of rice husk is presented in this paper. Both steam and CO2 are used for gasification within the temperature range of 500–1200˚C and different amounts of oxygen carriers. Chemical equilibrium model was considered for the CLC fuel reactor. The trends in product compositions of the fuel reactor, were determined. Rice husk gasification using 3 moles H2O and 0 moles CO2 per mole carbon (in rice husk) at 1 bar pr...

  13. Preparation and characterization of solid biomass fuel made from rice straw and rice bran

    Energy Technology Data Exchange (ETDEWEB)

    Chou, Chuen-Shii; Lu, Wen-Chung [Powder Technology R and D Laboratory, Department of Mechanical Engineering, National Pingtung University of Science and Technology, Pingtung 1, Hseuh Fu Road, Nei-Pu Hsiang, Pingtung 91201 (China); Lin, Sheau-Horng [Department of Wood Science and Design, National Pingtung University of Science and Technology, Pingtung 1, Hseuh Fu Road, Nei-Pu Hsiang, Pingtung 91201 (China)

    2009-07-15

    This study investigated the preparation and characterization of the solid fuel briquette, which was made from rice straw and rice bran. This work included: (1) developing a machine to smash the rice straw into pieces; (2) compressing the smashed rice straws and the rice bran into the biomass briquette; and (3) characterizing the properties of the briquette (such as the percentage of change in briquette volume, the percentage of loss of briquette mass, the air-dry density, the compressive strength, and the heating value) at room temperature. The hot-pressing temperature strongly affects the compressive strength of the briquette. As the percentage of the rice bran increases, the compressive strength and the heating value of the biomass briquette increase. Most interestingly, the thermo-energy, which is used to compress the briquette of the rice straw, will be minimized if a certain percentage of the binder (such as rice bran, sawdust, or the other biomass waste) is mixed with the smashed rice straw. (author)

  14. Current progress on genetic interactions of rice with rice blast and sheath blight fungi

    Institute of Scientific and Technical Information of China (English)

    Yulin JIA; Guangjie LIU; Stefano COSTANZO; Seonghee LEE; Yuntao DAI

    2009-01-01

    Analysis of genetic interactions between rice and its pathogenic fungi Magnaporthe oryzae and Rhizoctonia solani should lead to a better understanding of molecular mechanisms of host resistance, and the improvement of strategies to manage rice blast and sheath blight diseases. Currently, dozens office resistance (R) genes against specific races of the blast fungus have been described. Among them, ten were molecularly characterized and some were widely used for breeding for genetic resistance. The Pi-ta gene was one of the best characterized rice R genes. Following the elucidation of its molecular structure, interaction, distribution, and evolution, user friendly DNA markers were developed from portions of the cloned genes to facilitate the incorporations of the Pi-ta mediated resistance into improved rice varieties using marker assisted selection (MAS). However, rice blast is still a major threat for stable rice production because of race change mutations occurring in rice fields, which often overcome added resistance based on single R genes, and these virulent races of M. oryzae pose a continued challenge for blast control. For sheath blight, progress has been made on the exploration of novel sources of resistance from wild rice relatives and indica rice cultivars. A major quantitative trait locus (QTL), named qSB9-2, was recently verified in several mapping populations with different phenotyping methods, including greenhouse methods. The ability to identify qSB9-2 using greenhouse methods should accelerate the efforts on the qSB9-2 fine mapping and positional cloning.

  15. Invastigation influence of Additives to RiceWater Absorption and cooked rice quaitity

    Institute of Scientific and Technical Information of China (English)

    Lin Jialian; Yang Ronghua

    2001-01-01

    Using glucono-δ-lactone, sodium polyphosphate, emulsifier, 3- cyclodextrin and proteinase as main additive, the water-absorbing quality of rice under different conditions and the methods to improve the edible quality of cooked rice are systematically investigated. The experimental result indicates that the water-absorbing ability of rice at room temperature can be increased significantly by soaking it in a 1:2 mixture of sodium polyphosphate and glucono-δ-lactone. The cooked rice quality can be apparently improved by soaking in a mixture of sodium polyphosphate, glucono-δ-lactone, emulsifier, β -cyclodextrin and protease.

  16. Genome-wide survey and comparative analysis of LTR retrotransposons and their captured genes in rice and sorghum.

    Directory of Open Access Journals (Sweden)

    Shu-Ye Jiang

    Full Text Available Long terminal repeat (LTR retrotransposons are the major class I mobile elements in plants. They play crucial roles in gene expansion, diversification and evolution. However, their captured genes are yet to be genome-widely identified and characterized in most of plants although many genomes have been completely sequenced. In this study, we have identified 7,043 and 23,915 full-length LTR retrotransposons in the rice and sorghum genomes, respectively. High percentages of rice full-length LTR retrotransposons were distributed near centromeric region in each of the chromosomes. In contrast, sorghum full-length LTR retrotransposons were not enriched in centromere regions. This dissimilarity could be due to the discrepant retrotransposition during and after divergence from their common ancestor thus might be contributing to species divergence. A total of 672 and 1,343 genes have been captured by these elements in rice and sorghum, respectively. Gene Ontology (GO and gene set enrichment analysis (GSEA showed that no over-represented GO term was identified in LTR captured rice genes. For LTR captured sorghum genes, GO terms with functions in DNA/RNA metabolism and chromatin organization were over-represented. Only 36% of LTR captured rice genes were expressed and expression divergence was estimated as 11.9%. Higher percentage of LTR captured rice genes have evolved into pseudogenes under neutral selection. On the contrary, higher percentage of LTR captured sorghum genes were under purifying selection and 72.4% of them were expressed. Thus, higher percentage of LTR captured sorghum genes was functional. Small RNA analysis suggested that some of LTR captured genes in rice and sorghum might have been involved in negative regulation. On the other hand, positive selection has been observed in both rice and sorghum LTR captured genes and some of them were still expressed and functional. The data suggest that some of these LTR captured genes might have

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

    Science.gov (United States)

    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.

  18. Genomic selection and association mapping in rice (Oryza sativa): effect of trait genetic architecture, training population composition, marker number and statistical model on accuracy of rice genomic selection in elite, tropical rice breeding lines.

    Science.gov (United States)

    Spindel, Jennifer; Begum, Hasina; Akdemir, Deniz; Virk, Parminder; Collard, Bertrand; Redoña, Edilberto; Atlin, Gary; Jannink, Jean-Luc; McCouch, Susan R

    2015-02-01

    Genomic Selection (GS) is a new breeding method in which genome-wide markers are used to predict the breeding value of individuals in a breeding population. GS has been shown to improve breeding efficiency in dairy cattle and several crop plant species, and here we evaluate for the first time its efficacy for breeding inbred lines of rice. We performed a genome-wide association study (GWAS) in conjunction with five-fold GS cross-validation on a population of 363 elite breeding lines from the International Rice Research Institute's (IRRI) irrigated rice breeding program and herein report the GS results. The population was genotyped with 73,147 markers using genotyping-by-sequencing. The training population, statistical method used to build the GS model, number of markers, and trait were varied to determine their effect on prediction accuracy. For all three traits, genomic prediction models outperformed prediction based on pedigree records alone. Prediction accuracies ranged from 0.31 and 0.34 for grain yield and plant height to 0.63 for flowering time. Analyses using subsets of the full marker set suggest that using one marker every 0.2 cM is sufficient for genomic selection in this collection of rice breeding materials. RR-BLUP was the best performing statistical method for grain yield where no large effect QTL were detected by GWAS, while for flowering time, where a single very large effect QTL was detected, the non-GS multiple linear regression method outperformed GS models. For plant height, in which four mid-sized QTL were identified by GWAS, random forest produced the most consistently accurate GS models. Our results suggest that GS, informed by GWAS interpretations of genetic architecture and population structure, could become an effective tool for increasing the efficiency of rice breeding as the costs of genotyping continue to decline.

  19. Resequencing Reveals Different Domestication Rate for BADH1 and BADH2 in Rice (Oryza sativa.

    Directory of Open Access Journals (Sweden)

    Qiang He

    Full Text Available BADH1 and BADH2 are two homologous genes, encoding betaine aldehyde dehydrogenase in rice. In the present study, we scanned BADHs sequences of 295 rice cultivars, and 10 wild rice accessions to determine the polymorphisms, gene functions and domestication of these two genes. A total of 16 alleles for BADH1 and 10 alleles for BADH2 were detected in transcribed region of cultivars and wild species. Association study showed that BADH1 has significant correlation with salt tolerance in rice during germination stage, the SNP (T/A in exon 4 is highly correlated with salt tolerance index (STI (P<10(-4. While, BADH2 was only responsible for rice fragrance, of which two BADH2 alleles (8 bp deletion in exon 7 and C/T SNP in exon 13 explain 97% of aroma variation in our germplasm. Theses indicate that there are no overlapping functions between the two homologous genes. In addition, a large LD block was detected in BADH2 region, however, there was no large LD blocks in a 4-Mb region of BADH1. We found that BADH2 region only showed significant bias in Tajima's D value from the balance. Extended haplotype homozygosity study revealed fragrant accessions had a large LD block that extended around the mutation site (8 bp deletion in exon 7 of BADH2, while both of the BADH1 alleles (T/A in exon 4 did not show large extended LD block. All these results suggested that BADH2 was domesticated during rice evolution, while BADH1 was not selected by human beings.

  20. Nitrous Oxide Emissions from Fields with Different Wheat and Rice Varieties

    Institute of Scientific and Technical Information of China (English)

    B. GOGOI; K.K. BARUAH

    2012-01-01

    Plant species of cropping systems may affect nitrous oxide (N2O) emissions.A field experiment was conducted to investigate dynamics of N2O emissions from rice-wheat fields from December 2006 to June 2007 and the relationships of soil and plant parameters with N2O emissions.The results indicated that N2O emissions from different wheat varieties ranged from 12 to 291 μg N2O-N m-2 h-1 and seasonal N2O emissions ranged from 312 to 385 mg N2O-N m-2.In the rice season,it was from 11 to 154 μg N2O-N m-2 h-1 with seasonal N2O emission of 190-216 mg N2O-N m-2.The seasonal integrated flux of N2O differed significantly among wheat and rice varieties.The wheat variety HUW 234 and rice variety Joymoti showed higher seasonal N2O emissions.In the wheat season,N2O emissions correlated with soil organic carbon (SOC),soil NO-3-N,soil temperature,shoot dry weight,and root dry weight.Among the variables assessed,soil temperature followed by SOC and soil NO-3-N were considered as the important variables influencing N2O emission.N2O emission in the rice season was significantly correlated with SOC,soil NO-3-N,soil temperature,leaf area,shoot dry weight,and root dry weight.The main driving forces influencing N2O emission in the rice season were soil NO-3-N,leaf area,and SOC.

  1. MATH-domain family shows response towards abiotic stress in Arabidopsis and rice

    Directory of Open Access Journals (Sweden)

    Hemant Ritturaj Kushwaha

    2016-06-01

    Full Text Available Response to stress represents a highly complex mechanism in plants involving a plethora of genes and gene families. It has been established that plants use some common set of genes and gene families for both biotic and abiotic stress responses leading to cross-talk phenomena. One such family, Meprin And TRAF Homology (MATH domain containing protein (MDCP, has been known to be involved in biotic stress response. In this study, we present genome-wide identification of various members of MDCP family from both Arabidopsis and rice. A large number of members identified in Arabidopsis and rice show the expansion and diversification of family in both the species. Localization of MDCP genes on the chromosomes of both Arabidopsis and rice show their presence in a few specific clusters on various chromosomes such as chromosome III in Arabidopsis and chromosome X in rice. For the functional analysis of MDCP genes, we used publicly available data for plant growth and development as well as biotic stresses and found differential expression of various members of the family. Further, we narrowed down 11 potential candidate genes in rice which showed high expression in various tissues and development stages as well biotic stress conditions. The expression analysis of these 11 genes in rice using qRT-PCR under drought and salinity stress identified OsM4 and OsMB11 to be highly expressed in both the stress conditions. Taken together, these data indicate that OsM4 and OsMB11 can be used as the potential candidates for generating stress resilient crops.

  2. Identification of novel and candidate miRNAs in rice by high throughput sequencing

    Directory of Open Access Journals (Sweden)

    Zhang Weixiong

    2008-02-01

    Full Text Available Abstract Background Small RNA-guided gene silencing at the transcriptional and post-transcriptional levels has emerged as an important mode of gene regulation in plants and animals. Thus far, conventional sequencing of small RNA libraries from rice led to the identification of most of the conserved miRNAs. Deep sequencing of small RNA libraries is an effective approach to uncover rare and lineage- and/or species-specific microRNAs (miRNAs in any organism. Results In order to identify new miRNAs and possibly abiotic-stress regulated small RNAs in rice, three small RNA libraries were constructed from control rice seedlings and seedlings exposed to drought or salt stress, and then subjected to pyrosequencing. A total of 58,781, 43,003 and 80,990 unique genome-matching small RNAs were obtained from the control, drought and salt stress libraries, respectively. Sequence analysis confirmed the expression of most of the conserved miRNAs in rice. Importantly, 23 new miRNAs mostly each derived from a unique locus in rice genome were identified. Six of the new miRNAs are conserved in other monocots. Additionally, we identified 40 candidate miRNAs. Allowing not more than 3 mis-matches between a miRNA and its target mRNA, we predicted 20 targets for 9 of the new miRNAs. Conclusion Deep sequencing proved to be an effective strategy that allowed the discovery of 23 low-abundance new miRNAs and 40 candidate miRNAs in rice.

  3. Effects of Methylcellulose on Fibrolytic Bacterial Detachment and In vitro Degradation of Rice Straw.

    Science.gov (United States)

    Kim, Min Ji; Sung, Ha Guyn; Upadhaya, Santi Devi; Ha, Jong K; Lee, Sung Sill

    2013-10-01

    Two in vitro experiments were conducted to evaluate the effect of methylcellulose (MC) on i) bacterial detachment from rice straw as well as ii) inhibition of bacterial attachment and fiber digestibility. To evaluate the effect of MC on fibrolytic bacterial detachment (Exp 1), in vitro bacterial cultures with 0.1% (w/v) MC solution were compared with cultures without MC after 8 h incubation. The effect of MC on inhibition of bacterial attachment was determined by comparing with real-time PCR the populations of F. succinogenes, R. flavefaciens and R. albus established on rice straw pre-treated with 0.1% MC with those on untreated straw after incubation for 0, 6 and 12 h (Exp 2). The major fibrolytic bacterial attachment on rice straw showed significantly lower populations with either the addition of MC to the culture or pre-treated rice straw compared to controls (pinhibition of attachment and proliferation on rice straw in accordance with a decrease of fiber digestion. The detachments of Ruminococcus species co-existed preventing the proliferations with subsequent reduction of fiber degradation by MC during the incubation. Their detachments were induced from stable colonization as well as the initial adhesion on rice straw by MC in in vitro ruminal fermentation. Furthermore, the detachment of R. albus was more sensitive to MC than was R. flavefaciens. These results showed the certain evidence that attachment of major fibrolytic bacteria had an effect on fiber digestion in the rumen, and each of fibrolytic bacteria, F. succinogenes, R. flavefaciens and R. albus had a specific mechanism of attachment and detachment to fiber. PMID:25049729

  4. Size-resolved culturable airborne bacteria sampled in rice field, sanitary landfill, and waste incineration sites.

    Science.gov (United States)

    Heo, Yongju; Park, Jiyeon; Lim, Sung-Il; Hur, Hor-Gil; Kim, Daesung; Park, Kihong

    2010-08-01

    Size-resolved bacterial concentrations in atmospheric aerosols sampled by using a six stage viable impactor at rice field, sanitary landfill, and waste incinerator sites were determined. Culture-based and Polymerase Chain Reaction (PCR) methods were used to identify the airborne bacteria. The culturable bacteria concentration in total suspended particles (TSP) was found to be the highest (848 Colony Forming Unit (CFU)/m(3)) at the sanitary landfill sampling site, while the rice field sampling site has the lowest (125 CFU/m(3)). The closed landfill would be the main source of the observed bacteria concentration at the sanitary landfill. The rice field sampling site was fully covered by rice grain with wetted conditions before harvest and had no significant contribution to the airborne bacteria concentration. This might occur because the dry conditions favor suspension of soil particles and this area had limited personnel and vehicle flow. The respirable fraction calculated by particles less than 3.3 mum was highest (26%) at the sanitary landfill sampling site followed by waste incinerator (19%) and rice field (10%), which showed a lower level of respiratory fraction compared to previous literature values. We identified 58 species in 23 genera of culturable bacteria, and the Microbacterium, Staphylococcus, and Micrococcus were the most abundant genera at the sanitary landfill, waste incinerator, and rice field sites, respectively. An antibiotic resistant test for the above bacteria (Micrococcus sp., Microbacterium sp., and Staphylococcus sp.) showed that the Staphylococcus sp. had the strongest resistance to both antibiotics (25.0% resistance for 32 microg ml(-1) of Chloramphenicol and 62.5% resistance for 4 microg ml(-1) of Gentamicin).

  5. A Review of Microsatellite Markers and Their Applications in Rice Breeding Programs to Improve Blast Disease Resistance

    Directory of Open Access Journals (Sweden)

    Mohammad Abdul Latif

    2013-11-01

    Full Text Available Over the last few decades, the use of molecular markers has played an increasing role in rice breeding and genetics. Of the different types of molecular markers, microsatellites have been utilized most extensively, because they can be readily amplified by PCR and the large amount of allelic variation at each locus. Microsatellites are also known as simple sequence repeats (SSR, and they are typically composed of 1–6 nucleotide repeats. These markers are abundant, distributed throughout the genome and are highly polymorphic compared with other genetic markers, as well as being species-specific and co-dominant. For these reasons, they have become increasingly important genetic markers in rice breeding programs. The evolution of new biotypes of pests and diseases as well as the pressures of climate change pose serious challenges to rice breeders, who would like to increase rice production by introducing resistance to multiple biotic and abiotic stresses. Recent advances in rice genomics have now made it possible to identify and map a number of genes through linkage to existing DNA markers. Among the more noteworthy examples of genes that have been tightly linked to molecular markers in rice are those that confer resistance or tolerance to blast. Therefore, in combination with conventional breeding approaches, marker-assisted selection (MAS can be used to monitor the presence or lack of these genes in breeding populations. For example, marker-assisted backcross breeding has been used to integrate important genes with significant biological effects into a number of commonly grown rice varieties. The use of cost-effective, finely mapped microsatellite markers and MAS strategies should provide opportunities for breeders to develop high-yield, blast resistance rice cultivars. The aim of this review is to summarize the current knowledge concerning the linkage of microsatellite markers to rice blast resistance genes, as well as to explore the use of MAS

  6. A review of microsatellite markers and their applications in rice breeding programs to improve blast disease resistance.

    Science.gov (United States)

    Miah, Gous; Rafii, Mohd Y; Ismail, Mohd R; Puteh, Adam B; Rahim, Harun A; Islam, Kh Nurul; Latif, Mohammad Abdul

    2013-11-14

    Over the last few decades, the use of molecular markers has played an increasing role in rice breeding and genetics. Of the different types of molecular markers, microsatellites have been utilized most extensively, because they can be readily amplified by PCR and the large amount of allelic variation at each locus. Microsatellites are also known as simple sequence repeats (SSR), and they are typically composed of 1-6 nucleotide repeats. These markers are abundant, distributed throughout the genome and are highly polymorphic compared with other genetic markers, as well as being species-specific and co-dominant. For these reasons, they have become increasingly important genetic markers in rice breeding programs. The evolution of new biotypes of pests and diseases as well as the pressures of climate change pose serious challenges to rice breeders, who would like to increase rice production by introducing resistance to multiple biotic and abiotic stresses. Recent advances in rice genomics have now made it possible to identify and map a number of genes through linkage to existing DNA markers. Among the more noteworthy examples of genes that have been tightly linked to molecular markers in rice are those that confer resistance or tolerance to blast. Therefore, in combination with conventional breeding approaches, marker-assisted selection (MAS) can be used to monitor the presence or lack of these genes in breeding populations. For example, marker-assisted backcross breeding has been used to integrate important genes with significant biological effects into a number of commonly grown rice varieties. The use of cost-effective, finely mapped microsatellite markers and MAS strategies should provide opportunities for breeders to develop high-yield, blast resistance rice cultivars. The aim of this review is to summarize the current knowledge concerning the linkage of microsatellite markers to rice blast resistance genes, as well as to explore the use of MAS in rice breeding

  7. USING RICE BRAN IN LAYING HEN DIETS

    Directory of Open Access Journals (Sweden)

    H ERSIN SAMLI

    2006-10-01

    Full Text Available Rice bran is an energy and protein rich ingredient used in poultry feeding. To balance energy and protein requirements. The purpose of this study is to examine the effects of rice bran on performance and egg quality during peak production of a commercial White laying strain of 22 week of age. Dietary treatments were consisted by inclusion of rice bran at 0, 5, 10 and 15% levels. Each treatment had 6 reps in which 12 birds were randomly assigned in wired fl oor battery cages equipped with nipple drinkers and through feeders. Layers accessed to feed and water freely. Lighting regimen was adjusted to 16h light/8h dark. The experiment lasted for 10 weeks. Overall results of the present experiment indicated that rice bran could be included up to 10% without any adverse affect on laying performance, egg quality and digestive organs.

  8. Rapid Determination of Silicon Content in Rice

    Institute of Scientific and Technical Information of China (English)

    DAI Wei-min; ZHANG Ke-qin; DUAN Bin-wu; SUN Cheng-xiao; ZHENG Kang-le; CAI Run; ZHUANG Jie-yun

    2005-01-01

    A method for rapid determination of silicon content in rice was introduced. The reliability of this method was verified byusing a recombinant inbred line (RIL) population of rice cross Zhenshan 97B / Milyang 46. Two hundred and forty-nine RILs weretransplanted in two replications. Simple correlation coefficients on the silicon content in the hull, flag leaf and stem in rice betweenduplicate samples of 498 rice materials were 0.97954, 0.97026 and 0.98848, respectively. Ten representative samples wereselected for measurement using the high-temperature alkaline fusion method. Simple correlation coefficient between the siliconcontents determined by the high-temperature alkaline fusion method and by the present method is 0.9993.

  9. Stamen specification and anther development in rice

    Institute of Scientific and Technical Information of China (English)

    ZHANG DaBing; WILSON Zoe A

    2009-01-01

    Male reproductive development is a complex biological process which includes the formation of the stamen with differentiated anther tissues, in which microspores/pollens are generated, then anther dehiscence and subsequently pollination. Stamen specification and anther development involve a number of extraordinary events such as meristem transition, cell division and differentiation, cell to cell communication, etc., which need the cooperative interaction of sporophytic and gametophytic genes. The advent of various tools for rice functional gene identification, such as complete genome sequence, genome-wide microarrays, collections of mutants, has greatly facilitated our understanding of mechanisms of rice stamen specification and anther development. Male sterile lines are critical for hybrid rice breeding, therefore understanding these processes will not only contribute greatly to the basic knowledge of crop developmental biology, but also to the development of new varieties for hybrid rice breeding in the future.

  10. Hunting Plan : Rice Lake National Wildlife Refuge

    Data.gov (United States)

    US Fish and Wildlife Service, Department of the Interior — The objectives of this hunting plan for Rice Lake NWR are to: provide a method of removing white-tailed deer from the area population to maintain the general health...

  11. Rice saabus Euroopat taltsutama / Tõnu Prei

    Index Scriptorium Estoniae

    Prei, Tõnu, 1950-

    2005-01-01

    USA välisminister Condolezza Rice alustas ringreisi Euroopas, eesmärgiks anda vastulöök USA-d tabanud kriitikale sõjavangide kohtlemise ja teistes riikides oma luuretalituse salavanglate pidamise pärast

  12. Reconstruction of putative DNA virus from endogenous rice tungro bacilliform virus-like sequences in the rice genome: implications for integration and evolution

    Directory of Open Access Journals (Sweden)

    Kishima Yuji

    2004-10-01

    Full Text Available Abstract Background Plant genomes contain various kinds of repetitive sequences such as transposable elements, microsatellites, tandem repeats and virus-like sequences. Most of them, with the exception of virus-like sequences, do not allow us to trace their origins nor to follow the process of their integration into the host genome. Recent discoveries of virus-like sequences in plant genomes led us to set the objective of elucidating the origin of the repetitive sequences. Endogenous rice tungro bacilliform virus (RTBV-like sequences (ERTBVs have been found throughout the rice genome. Here, we reconstructed putative virus structures from RTBV-like sequences in the rice genome and characterized to understand evolutionary implication, integration manner and involvements of endogenous virus segments in the corresponding disease response. Results We have collected ERTBVs from the rice genomes. They contain rearranged structures and no intact ORFs. The identified ERTBV segments were shown to be phylogenetically divided into three clusters. For each phylogenetic cluster, we were able to make a consensus alignment for a circular virus-like structure carrying two complete ORFs. Comparisons of DNA and amino acid sequences suggested the closely relationship between ERTBV and RTBV. The Oryza AA-genome species vary in the ERTBV copy number. The species carrying low-copy-number of ERTBV segments have been reported to be extremely susceptible to RTBV. The DNA methylation state of the ERTBV sequences was correlated with their copy number in the genome. Conclusions These ERTBV segments are unlikely to have functional potential as a virus. However, these sequences facilitate to establish putative virus that provided information underlying virus integration and evolutionary relationship with existing virus. Comparison of ERTBV among the Oryza AA-genome species allowed us to speculate a possible role of endogenous virus segments against its related disease.

  13. Rice prices and poverty in Liberia

    OpenAIRE

    Tsimpo, Clarence; Wodon, Quentin

    2008-01-01

    When assessing the impact of changes in food prices on poverty, it is important to consider food producers (who may benefit from an increase in prices) as well as consumers (who loose out when the price increases), with a focus on poor consumers and producers. In the case of rice in Liberia however, the impact of a change in price is not ambiguous because a large share of the rice consumed ...

  14. Phenolic compounds and antioxidant activity of rice

    Directory of Open Access Journals (Sweden)

    Melissa Walter

    2011-04-01

    Full Text Available The aim of this work was to study the phenolic compounds identified in rice, their antioxidant activity and their potential beneficial effects on health. In vitro and in vivo studies evaluating the rice grains with different pericarp colour (light brown, red and black showed potential beneficial effects on health related to the polyphenol content of the grain, such as reduction of oxidative stress, aid in the prevention of cancer, cardiovascular diseases and complications of diabetes, among others.

  15. THEORETICAL DEVELOPMENT OF RICE TRANSPLANTING MACHINE

    OpenAIRE

    Mr. Chetan Chaudhari

    2016-01-01

    As in India, the plantation cost is increasing day by day. As such time the efficiency of production is decreases. One of the reason behind this is the cost of labourship, availability of labours and the expenses during the farming. So my project is basically on the modification on such processes. For that I have designed the mechanical rice-transplanter machine which will be replacement of manual plantation process. My study is based on theoretical development of mechanical rice-transplanter...

  16. Rice Consumption Patterns and Quantity Demand Elasticities

    OpenAIRE

    Isavilanonda Somporn; Kongrithi Weerasak

    2006-01-01

    This paper explores rice consumption patterns of Thai households and estimates income and price elasticities of quantity demand. The study found that the average annual consumption of rice for Thai households was 101 kilogram per person. The income elasticity of quantity demand is positive and inelastic (close to zero). The households in urban areas tend to have less income elasticity than those in rural areas. The households in the highest income rank of 25% had negative income elasticity. T...

  17. Rice Tariffs and Their Impact on the Japanese Market (Japanese)

    OpenAIRE

    KEIDA Masayuki

    2014-01-01

    In this paper, we analyze how the volume of rice imports would be affected if the Japanese government were to reduce tariffs on rice by looking at the current state of the Simultaneous Buy-and-Sell (SBS) system for rice imports. The Japanese government is required to import 770,000 tons of rice per year to maintain minimum access. However, a large portion of minimum access rice is not used for domestic consumption—only 100,000 tons of SBS rice is used for human consumption. Under the SBS syst...

  18. Sequence Divergence of Microsatellites and Phylogeny Analysis in Tetraploid Cotton Species and Their Putative Diploid Ancestors

    Institute of Scientific and Technical Information of China (English)

    Wang-Zhen GUO; Dong FANG; Wen-Duo YU; Tian-Zhen ZHANG

    2005-01-01

    To determine the level of microsatellite sequence differences and to use the information to construct a phylogenetic relationship for cultivated tetraploid cotton (Gossypium spp.) species and their putative diploid ancestors, 10 genome-derived microsatellite primer pairs were used to amplify eight species,including two tetraploid and six diploid species, in Gossypium. A total of 92 unique amplicons were resolved using polyacrylamide gel electrophoresis. Each amplicon was cloned, sequenced, and analyzed using standard phylogenetic software. Allelic diversities were caused mostly by changes in the number of simple sequence repeat (SSR) motif repeats and only a small proportion resulted from interruption of the SSR motif within the locus for the same genome. The frequency of base substitutions was 0.5%-1.0% in different genomes, with only few indels found. Based on the combined 10 SSR flanking sequence data, the homology of A-genome diploid species averaged 98.9%, even though most of the amplicons were of the same size, and the sequence homology between G. gossypioides (Ulbr.) Standl. and three other D-genome species (G.raimondii Ulbr., G. davidsonii Kell., and G. thurberi Tod.) was 98.5%, 98.6%, and 98.5%, respectively.Phylogenetic trees of the two allotetraploid species and their putative diploid progenitors showed that homoelogous sequences from the A- and D-subgenome were still present in the polyploid subgenomes and they evolved independently. Meanwhile, homoelogous sequence interaction that duplicated loci in the polyploid subgenomes became phylogenetic sisters was also found in the evolutionary history of tetraploid cotton species. The results of the present study suggest that evaluation of SSR variation at the sequence level can be effective in exploring the evolutionary relationships among Gossypuim species.

  19. Tiling microarray analysis of rice chromosome 10 to identify the transcriptome and relate its expression to chromosomal architecture

    DEFF Research Database (Denmark)

    Li, Lei; Wang, Xiangfeng; Xia, Mian;

    2005-01-01

    BACKGROUND: Sequencing and annotation of the genome of rice (Oryza sativa) have generated gene models in numbers that top all other fully sequenced species, with many lacking recognizable sequence homology to known genes. Experimental evaluation of these gene models and identification of new mode...

  20. O-2 dynamics in the rhizosphere of young rice plants (Oryza sativa L.) as studied by planar optodes

    DEFF Research Database (Denmark)

    Larsen, Morten; Santner, Jakob; Oburger, Eva;

    2015-01-01

    Radial O-2 loss (ROL) strongly affect the O-2 availability in the rhizosphere of rice. The ROL create an oxic zone around the roots, protecting the plant from toxic reduced chemical species and regulates the redox chemistry in the soil. This study investigates the spatio-temporal variability in O...