Displaying publications 81 - 100 of 584 in total

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  1. Fulltext Quantifying the legacy of the Chinese Neolithic on the maternal genetic heritage of Taiwan and Island Southeast Asia
    Brandão A, Eng KK, Rito T, Cavadas B, Bulbeck D, Gandini F, et al.
    Hum Genet, 2016 Apr;135(4):363-76.
    PMID: 26875094 DOI: 10.1007/s00439-016-1640-3
    There has been a long-standing debate concerning the extent to which the spread of Neolithic ceramics and Malay-Polynesian languages in Island Southeast Asia (ISEA) were coupled to an agriculturally driven demic dispersal out of Taiwan 4000 years ago (4 ka). We previously addressed this question using founder analysis of mitochondrial DNA (mtDNA) control-region sequences to identify major lineage clusters most likely to have dispersed from Taiwan into ISEA, proposing that the dispersal had a relatively minor impact on the extant genetic structure of ISEA, and that the role of agriculture in the expansion of the Austronesian languages was therefore likely to have been correspondingly minor. Here we test these conclusions by sequencing whole mtDNAs from across Taiwan and ISEA, using their higher chronological precision to resolve the overall proportion that participated in the "out-of-Taiwan" mid-Holocene dispersal as opposed to earlier, postglacial expansions in the Early Holocene. We show that, in total, about 20 % of mtDNA lineages in the modern ISEA pool result from the "out-of-Taiwan" dispersal, with most of the remainder signifying earlier processes, mainly due to sea-level rises after the Last Glacial Maximum. Notably, we show that every one of these founder clusters previously entered Taiwan from China, 6-7 ka, where rice-farming originated, and remained distinct from the indigenous Taiwanese population until after the subsequent dispersal into ISEA.
    Matched MeSH terms: Oryza
  2. Fulltext Current situation and future prospects for beef production in Thailand - A review
    Bunmee T, Chaiwang N, Kaewkot C, Jaturasitha S
    Asian-Australas J Anim Sci, 2018 Jul;31(7):968-975.
    PMID: 29879818 DOI: 10.5713/ajas.18.0201
    Thailand is a country of native beef cattle resource farming. It has undergone rapid social and economic change in the past decade. Agricultural growth has been maintained by increasing the production of rice and cassava. Changing economic status also provides opportunities for beef cattle producers to meet increasing consumer demand for beef. Finishing beef cattle numbers in Thailand were about 1.0 M head in 2015. Beef produced in Thailand has exclusively been for domestic consumption. Only 1% of Thailand's beef cattle are for the premium market which is based on marbling score, 40% are sold into modern markets that consider muscling of cattle, and the remainder enter traditional markets. Cross-bred cattle for the premium market are raised within intensive systems. Most producers of premium beef are members of beef cooperatives, or have invested in their enterprises at high levels. Culled cow (native or cross-bred cattle) are mainly for small holder farm production. Malaysia, Indonesia, and other members of the Asian Economic Community (AEC) are set to become the largest beef market, which has been confirmed by 2015 through 2020 forecasts for consumption of beef that must increasingly be halal. These circumstances are likely to be challenging for beef producers in Thailand to gain a share of this market. Integration across all sectors involved in beef production in Thailand will be required.
    Matched MeSH terms: Oryza
  3. Determination of the Leaching Potential and Residues Activity of Imidazolinone Herbicide in Clearfield Rice Soil Using High-Performance Liquid Chromatography
    Bzour M, Zuki FM, Mispan MS, Jodeh S, Abdel-Latif M
    Bull Environ Contam Toxicol, 2019 Aug;103(2):348-353.
    PMID: 31069403 DOI: 10.1007/s00128-019-02625-x
    The residual activity of herbicides may be detrimental to the environment, requiring analysis of the persistent residues in the soil and water. A field study was conducted to measure the residues of Imidazolinone (IMI) in three Clearfield® rice field soils at three different locations in Malaysia. The analyses of IMI in the soil samples were carried out using a high-performance liquid chromatography (HPLC). These herbicides are widely used; however, few studies have been conducted on both residues, especially in the context of Malaysian soil. Residues of imazapic and imazapyr were found to fall within 0.03-0.58 µg/mL and 0.03-1.96 µg/mL, respectively, in three locations. IMI herbicides are persistent in the soil, and their residues remain for up to 85 days after application. A pre-harvest study was suggested for these herbicides on water, which will provide a clearer indicator on the use of IMI in Clearfield® rice fields.
    Matched MeSH terms: Oryza/growth & development*
  4. Fulltext Seed morphology variation of rice landraces from Tuaran and Kota Belud districts of Sabah, Malaysia
    CHEE, F. T., SIAMBUN, M. M., MARIAM A. L.
    Buletin Persatuan Genetik Malaysia, 2011;18(1):10-16.
    MyJurnal
    There is a need to set up a germplasm resource centre or gene bank in Sabah to keep the collections of varieties of locally cultivated crops, especially rice. This is necessary to prevent genetic loss caused by the infrastructure development in the state of Sabah especially when Sabah is known for her rich genetic resources for food and agriculture. This gene bank will play an important role in the conservation of genetic resources especially for future rice crop improvement and development. These collections are known to carry useful gene(s) for crop improvement such as aroma, taste, resistance to insect pests and diseases, and tolerance to abiotic stress. Decades ago, a set of local landrace rice collection were made and conserved at International Rice Research Institute (IRRI) and Malaysia Agriculture Research and Development Institute (MARDI). Besides IRRI and MARDI, local farmers also play an important role as conservationist. Therefore, this study has been carried out to re ne the status of the current genetic diversity in local rice farming. From January 2009 to February 2010, 108 samples were collected from Tuaran and Kota Belud districts. Preliminary observation of 19 samples found that
    there is a high genetic diversity based on seed morphology alone. Variations in the characteristics were detected in awn, apiculus, lemma and palea, sterile lemma and seed coat. Length and width of seeds were measured and calculated for ratio to estimate the shapes of the seeds. The weight of 100 grains ranged from 1.42 to 3.19 g. However, further studies on morphology evaluation, disease screening, and molecular evaluation are needed to be compared with the existing data. In addition, genetic erosion, migration, and drift also need to be studied due to high seed exchanges among the local farmers.
    Matched MeSH terms: Oryza
  5. Sequence changes in six variants of rice tungro bacilliform virus and their phylogenetic relationships
    Cabauatan PQ, Melcher U, Ishikawa K, Omura T, Hibino H, Koganezawa H, et al.
    J Gen Virol, 1999 Aug;80 ( Pt 8):2229-37.
    PMID: 10466823
    The DNA of three biological variants, G1, Ic and G2, which originated from the same greenhouse isolate of rice tungro bacilliform virus (RTBV) at the International Rice Research Institute (IRRI), was cloned and sequenced. Comparison of the sequences revealed small differences in genome sizes. The variants were between 95 and 99% identical at the nucleotide and amino acid levels. Alignment of the three genome sequences with those of three published RTBV sequences (Phi-1, Phi-2 and Phi-3) revealed numerous nucleotide substitutions and some insertions and deletions. The published RTBV sequences originated from the same greenhouse isolate at IRRI 20, 11 and 9 years ago. All open reading frames (ORFs) and known functional domains were conserved across the six variants. The cysteine-rich region of ORF3 showed the greatest variation. When the six DNA sequences from IRRI were compared with that of an isolate from Malaysia (Serdang), similar changes were observed in the cysteine-rich region in addition to other nucleotide substitutions and deletions across the genome. The aligned nucleotide sequences of the IRRI variants and Serdang were used to analyse phylogenetic relationships by the bootstrapped parsimony, distance and maximum-likelihood methods. The isolates clustered in three groups: Serdang alone; Ic and G1; and Phi-1, Phi-2, Phi-3 and G2. The distribution of phylogenetically informative residues in the IRRI sequences shared with the Serdang sequence and the differing tree topologies for segments of the genome suggested that recombination, as well as substitutions and insertions or deletions, has played a role in the evolution of RTBV variants. The significance and implications of these evolutionary forces are discussed in comparison with badnaviruses and caulimoviruses.
    Matched MeSH terms: Oryza/virology
  6. Fulltext Diversity of global rice markets and the science required for consumer-targeted rice breeding
    Calingacion M, Laborte A, Nelson A, Resurreccion A, Concepcion JC, Daygon VD, et al.
    PLoS One, 2014;9(1):e85106.
    PMID: 24454799 DOI: 10.1371/journal.pone.0085106
    With the ever-increasing global demand for high quality rice in both local production regions and with Western consumers, we have a strong desire to understand better the importance of the different traits that make up the quality of the rice grain and obtain a full picture of rice quality demographics. Rice is by no means a 'one size fits all' crop. Regional preferences are not only striking, they drive the market and hence are of major economic importance in any rice breeding / improvement strategy. In this analysis, we have engaged local experts across the world to perform a full assessment of all the major rice quality trait characteristics and importantly, to determine how these are combined in the most preferred varieties for each of their regions. Physical as well as biochemical characteristics have been monitored and this has resulted in the identification of no less than 18 quality trait combinations. This complexity immediately reveals the extent of the specificity of consumer preference. Nevertheless, further assessment of these combinations at the variety level reveals that several groups still comprise varieties which consumers can readily identify as being different. This emphasises the shortcomings in the current tools we have available to assess rice quality and raises the issue of how we might correct for this in the future. Only with additional tools and research will we be able to define directed strategies for rice breeding which are able to combine important agronomic features with the demands of local consumers for specific quality attributes and hence, design new, improved crop varieties which will be awarded success in the global market.
    Matched MeSH terms: Oryza/anatomy & histology; Oryza/growth & development*; Oryza/metabolism
  7. Fulltext Seqping: gene prediction pipeline for plant genomes using self-training gene models and transcriptomic data
    Chan KL, Rosli R, Tatarinova TV, Hogan M, Firdaus-Raih M, Low EL
    BMC Bioinformatics, 2017 Jan 27;18(Suppl 1):1426.
    PMID: 28466793 DOI: 10.1186/s12859-016-1426-6
    BACKGROUND: Gene prediction is one of the most important steps in the genome annotation process. A large number of software tools and pipelines developed by various computing techniques are available for gene prediction. However, these systems have yet to accurately predict all or even most of the protein-coding regions. Furthermore, none of the currently available gene-finders has a universal Hidden Markov Model (HMM) that can perform gene prediction for all organisms equally well in an automatic fashion.

    RESULTS: We present an automated gene prediction pipeline, Seqping that uses self-training HMM models and transcriptomic data. The pipeline processes the genome and transcriptome sequences of the target species using GlimmerHMM, SNAP, and AUGUSTUS pipelines, followed by MAKER2 program to combine predictions from the three tools in association with the transcriptomic evidence. Seqping generates species-specific HMMs that are able to offer unbiased gene predictions. The pipeline was evaluated using the Oryza sativa and Arabidopsis thaliana genomes. Benchmarking Universal Single-Copy Orthologs (BUSCO) analysis showed that the pipeline was able to identify at least 95% of BUSCO's plantae dataset. Our evaluation shows that Seqping was able to generate better gene predictions compared to three HMM-based programs (MAKER2, GlimmerHMM and AUGUSTUS) using their respective available HMMs. Seqping had the highest accuracy in rice (0.5648 for CDS, 0.4468 for exon, and 0.6695 nucleotide structure) and A. thaliana (0.5808 for CDS, 0.5955 for exon, and 0.8839 nucleotide structure).

    CONCLUSIONS: Seqping provides researchers a seamless pipeline to train species-specific HMMs and predict genes in newly sequenced or less-studied genomes. We conclude that the Seqping pipeline predictions are more accurate than gene predictions using the other three approaches with the default or available HMMs.

    Matched MeSH terms: Oryza/genetics
  8. Fulltext Simulated gastrointestinal pH condition improves antioxidant properties of wheat and rice flours
    Chan KW, Khong NM, Iqbal S, Ismail M
    Int J Mol Sci, 2012;13(6):7496-507.
    PMID: 22837707 DOI: 10.3390/ijms13067496
    The present study was conducted to evaluate the antioxidant properties of wheat and rice flours under simulated gastrointestinal pH condition. After subjecting the wheat and rice flour slurries to simulated gastrointestinal pH condition, both slurries were centrifuged to obtain the crude phenolic extracts for further analyses. Extraction yield, total contents of phenolic and flavonoids were determined as such (untreated) and under simulated gastrointestinal pH condition (treated). 1,1-diphenyl-2-picrylhydrazyl radical (DPPH(•)) scavenging activity, 2,2'-azino-bis(3-ethylbenzthiazoline-6-sulphonic acid) radical cation (ABTS(•+)) scavenging activity, ferric reducing antioxidant power (FRAP), beta-carotene bleaching (BCB) and iron chelating activity assays were employed for the determination of antioxidant activity of the tested samples. In almost all of the assays performed, significant improvements in antioxidant properties (p < 0.05) were observed in both flours after treatment, suggesting that wheat and rice flours contain considerably heavy amounts of bound phenolics, and that their antioxidant properties might be improved under gastrointestinal digestive conditions.
    Matched MeSH terms: Oryza/chemistry*
  9. Rice starch thin films as a potential buccal delivery system: Effect of plasticiser and drug loading on drug release profile
    Chan SY, Goh CF, Lau JY, Tiew YC, Balakrishnan T
    Int J Pharm, 2019 May 01;562:203-211.
    PMID: 30904726 DOI: 10.1016/j.ijpharm.2019.03.044
    Rice starch is known to have an excellent film-forming behaviour in the packaging industry but inadequate attention was given to this biopolymer to be developed into thin films for drug delivery. Accordingly, rice starch thin films containing a model drug, paracetamol and plasticisers (glycerol or sorbitol) were developed using film casting technique. This study focuses on investigating the impact of plasticiser and drug loading on drug release pattern of rice starch films which has not been explored to date. The obtained rice films were characterised for their physicochemical properties including swelling and dissolution study. The highest drug dissolution rate was achieved in the rice films with a low drug loading due to drug amorphicity in nature. When drug loading increases, the swelling behaviour of rice films plays a dominant role in releasing drug in the crystalline form. The role of plasticiser was indicated by the plasticiser-starch interaction where a strong interaction allows drug solubilisation more readily in the dissolution medium. It is envisaged that rice films could be tailored to achieve desired drug release pattern with different plasticiser.
    Matched MeSH terms: Oryza*
  10. Fulltext Beet-root oral rehydration salts and carrot oral rehydration salts formula in stopping diarrhea and enhancing hydration status
    Chandrika Murugaiah, Constance Liew Sat Lin, Hassanain Al-Talib, Mehru Nisha, Mohamad Salih Falah, Nelbon Giloi, et al.
    Malaysian Journal of Medicine and Health Sciences, 2020;16(105):37-0.
    MyJurnal
    Introduction: Cholera is an infection caused by the bacterium Vibriocholerae that causes severe watery diarrhoea, which can lead to dehydration. Beet-roothas been shown to induce favourable outcomes and holds promise as an economic, practical natural dietary intervention in cholera. Methods: Systematic search of peer-reviewed literature on beet-root ORS and carrot ORS use for acute diarrhoea in below 6-year-old. We identified 3 studies for abstraction. Results: A study had compared a commercial carrot/rice-based ORS A (Na 52 mmol/L) and two glucose-based ORS B (Na 55 mmol/L) and C (Na 90 mmol/L). Fluid intake, faecal and urine output and absorption of fluid was measured in 161 infants and children (3-48 months old) during the first 48 hours after admission. The number of stools (p < 0.01) and the mean faecal output (p < 0.05) per kg body weight were significantly lower in group A. Children in group A also had significantly (p < 0.01) greater fluid absorption (mean 464 ml/kg) than in groups C (312 ml/kg) and B (140 ml/kg). Conclusions: While there are some promising results, this analysis indicates that the need for further investi- gation into approaches to increasing beet-root ORS and carrot ORS use.
    Matched MeSH terms: Oryza
  11. Short-term analysis on the combined use of sugarcane bagasse ash and rice husk ash as supplementary cementitious material in concrete production
    Channa SH, Mangi SA, Bheel N, Soomro FA, Khahro SH
    Environ Sci Pollut Res Int, 2022 Jan;29(3):3555-3564.
    PMID: 34387820 DOI: 10.1007/s11356-021-15877-0
    Globally, concrete is widely implemented as a construction material and is progressively being utilized because of growth in urbanization. However, limited resources and gradual depravity of the environment are forcing the research community to obtain alternative materials from large amounts of agro-industrial wastes as a partial replacement for ordinary cement. Cement is a main binding resource in concrete production. To reduce environmental problems associated with waste, this study considered the recycling of agro-industrial wastes, such as sugarcane bagasse ash (SCBA), rice husk ash (RHA), and others, into cement, and to finally bring sustainable and environmental-friendly concrete. This study considered 5%, 10%, and 15% of SBCA and RHA individually to replace ordinary Portland cement (OPC) by weight method then combined both ashes as 10%, 20%, and 30% to replace OPC to produce sustainable concrete. It was experimentally declared that the strength performance of concrete was reduced while utilizing SCBA and RHA individually and combined as supplementary cementitious material (SCM) at 7, 28, 56, and 90 days, respectively. Moreover, the initial and final setting time is increased as the quantity of replacement level of OPC with SCBA and RHA separates and together as SCM in the mixture. Based on experimental findings, it was concluded that the use of 5% of SCBA and 5% of RHA as cement replacement material individually or combined in concrete could provide appropriate results for structural applications in concrete.
    Matched MeSH terms: Oryza*
  12. Fulltext Novel Activated Carbon Nanofibers Composited with Cost-Effective Graphene-Based Materials for Enhanced Adsorption Performance toward Methane
    Che Othman FE, Yusof N, Yub Harun N, Bilad MR, Jaafar J, Aziz F, et al.
    Polymers (Basel), 2020 Sep 10;12(9).
    PMID: 32927881 DOI: 10.3390/polym12092064
    Various types of activated carbon nanofibers' (ACNFs) composites have been extensively studied and reported recently due to their extraordinary properties and applications. This study reports the fabrication and assessments of ACNFs incorporated with graphene-based materials, known as gACNFs, via simple electrospinning and subsequent physical activation process. TGA analysis proved graphene-derived rice husk ashes (GRHA)/ACNFs possess twice the carbon yield and thermally stable properties compared to other samples. Raman spectra, XRD, and FTIR analyses explained the chemical structures in all resultant gACNFs samples. The SEM and EDX results revealed the average fiber diameters of the gACNFs, ranging from 250 to 400 nm, and the successful incorporation of both GRHA and reduced graphene oxide (rGO) into the ACNFs' structures. The results revealed that ACNFs incorporated with GRHA possesses the highest specific surface area (SSA), of 384 m2/g, with high micropore volume, of 0.1580 cm3/g, which is up to 88% of the total pore volume. The GRHA/ACNF was found to be a better adsorbent for CH4 compared to pristine ACNFs and reduced graphene oxide (rGO/ACNF) as it showed sorption up to 66.40 mmol/g at 25 °C and 12 bar. The sorption capacity of the GRHA/ACNF was impressively higher than earlier reported studies on ACNFs and ACNF composites. Interestingly, the CH4 adsorption of all ACNF samples obeyed the pseudo-second-order kinetic model at low pressure (4 bar), indicating the chemisorption behaviors. However, it obeyed the pseudo-first order at higher pressures (8 and 12 bar), indicating the physisorption behaviors. These results correspond to the textural properties that describe that the high adsorption capacity of CH4 at high pressure is mainly dependent upon the specific surface area (SSA), pore size distribution, and the suitable range of pore size.
    Matched MeSH terms: Oryza
  13. Fulltext Identification of four functionally important microRNA families with contrasting differential expression profiles between drought-tolerant and susceptible rice leaf at vegetative stage
    Cheah BH, Nadarajah K, Divate MD, Wickneswari R
    BMC Genomics, 2015;16:692.
    PMID: 26369665 DOI: 10.1186/s12864-015-1851-3
    Developing drought-tolerant rice varieties with higher yield under water stressed conditions provides a viable solution to serious yield-reduction impact of drought. Understanding the molecular regulation of this polygenic trait is crucial for the eventual success of rice molecular breeding programmes. microRNAs have received tremendous attention recently due to its importance in negative regulation. In plants, apart from regulating developmental and physiological processes, microRNAs have also been associated with different biotic and abiotic stresses. Hence here we chose to analyze the differential expression profiles of microRNAs in three drought treated rice varieties: Vandana (drought-tolerant), Aday Sel (drought-tolerant) and IR64 (drought-susceptible) in greenhouse conditions via high-throughput sequencing.
    Matched MeSH terms: Oryza/genetics*; Oryza/metabolism
  14. Fulltext Identification of functionally important microRNAs from rice inflorescence at heading stage of a qDTY4.1-QTL bearing Near Isogenic Line under drought conditions
    Cheah BH, Jadhao S, Vasudevan M, Wickneswari R, Nadarajah K
    PLoS One, 2017;12(10):e0186382.
    PMID: 29045473 DOI: 10.1371/journal.pone.0186382
    A cross between IR64 (high-yielding but drought-susceptible) and Aday Sel (drought-tolerant) rice cultivars yielded a stable line with enhanced grain yield under drought screening field trials at International Rice Research Institute. The major effect qDTY4.1 drought tolerance and yield QTL was detected in the IR77298-14-1-2-10 Backcrossed Inbred Line (BIL) and its IR87705-7-15-B Near Isogenic Line (NIL) with 93.9% genetic similarity to IR64. Although rice yield is extremely susceptible to water stress at reproductive stage, currently, there is only one report on the detection of drought-responsive microRNAs in inflorescence tissue of a Japonica rice line. In this study, more drought-responsive microRNAs were identified in the inflorescence tissues of IR64, IR77298-14-1-2-10 and IR87705-7-15-B via next-generation sequencing. Among the 32 families of inflorescence-specific non-conserved microRNAs that were identified, 22 families were up-regulated in IR87705-7-15-B. Overall 9 conserved and 34 non-conserved microRNA families were found as drought-responsive in rice inflorescence with 5 conserved and 30 non-conserved families induced in the IR87705-7-15-B. The observation of more drought-responsive non-conserved microRNAs may imply their prominence over conserved microRNAs in drought response mechanisms of rice inflorescence. Gene Ontology annotation analysis on the target genes of drought-responsive microRNAs identified in IR87705-7-15-B revealed over-representation of biological processes including development, signalling and response to stimulus. Particularly, four inflorescence-specific microRNAs viz. osa-miR5485, osa-miR5487, osa-miR5492 and osa-miR5517, and two non-inflorescence specific microRNAs viz. osa-miR169d and osa-miR169f.2 target genes that are involved in flower or embryonic development. Among them, osa-miR169d, osa-miR5492 and osa-miR5517 are related to flowering time control. It is also worth mentioning that osa-miR2118 and osa-miR2275, which are implicated in the biosynthesis of rice inflorescence-specific small interfering RNAs, were induced in IR87705-7-15-B but repressed in IR77298-14-1-2-10. Further, gene search within qDTY4.1 QTL region had identified multiple copies of NBS-LRR resistance genes (potential target of osa-miR2118), subtilisins and genes implicated in stomatal movement, ABA metabolism and cuticular wax biosynthesis.
    Matched MeSH terms: Oryza/genetics*; Oryza/growth & development
  15. Fulltext Determining polymorphism in upland rice varieties, using microsatellite markers associated with blast resistant genes
    Chee, Fong Tyng, Maniam, Kalai Vani, Mariam Abd. Latip
    Buletin Persatuan Genetik Malaysia, 2010;17(1):15-19.
    MyJurnal
    Microsatellite markers associated with blast resistance genes were used to study the polymorphism and genetic relationship among 20 Malaysian upland rice and four varieties from the
    International Rice Research Institute (IRRI) Collection. Among the 11 microsatellite markers used, 10 were polymorphic (90.91%). Only RM313 showed monomorphic pattern. The genetic distances
    ranged from 0 to 0.833. The lowest genetic distance was found between Ambas and Babayau. The highest genetic distance was found between Kedinga and Gulfmont. The average genetic
    distance is 0.478. A dendrogram generated using genetic distance classified all 24 rice samples into 15 clusters. However, there were no well defined groupings. Further research is needed to verify the existence of the blast resistance genes among these Malaysian upland rice samples.
    Matched MeSH terms: Oryza
  16. Fulltext Simple and rapid molecular techniques for identification of amylose levels in rice varieties
    Cheng A, Ismail I, Osman M, Hashim H
    Int J Mol Sci, 2012;13(5):6156-66.
    PMID: 22754356 DOI: 10.3390/ijms13056156
    The polymorphisms of Waxy (Wx) microsatellite and G-T single-nucleotide polymorphism (SNP) in the Wx gene region were analyzed using simplified techniques in fifteen rice varieties. A rapid and reliable electrophoresis method, MetaPhor agarose gel electrophoresis (MAGE), was effectively employed as an alternative to polyacrylamide gel electrophoresis (PAGE) for separating Wx microsatellite alleles. The amplified products containing the Wx microsatellite ranged from 100 to 130 bp in length. Five Wx microsatellite alleles, namely (CT)(10), (CT)(11), (CT)(16), (CT)(17), and (CT)(18) were identified. Of these, (CT)(11) and (CT)(17) were the predominant classes among the tested varieties. All varieties with an apparent amylose content higher than 24% were associated with the shorter repeat alleles; (CT)(10) and (CT)(11), while varieties with 24% or less amylose were associated with the longer repeat alleles. All varieties with intermediate and high amylose content had the sequence AGGTATA at the 5'-leader intron splice site, while varieties with low amylose content had the sequence AGTTATA. The G-T polymorphism was further verified by the PCR-AccI cleaved amplified polymorphic sequence (CAPS) method, in which only genotypes containing the AGGTATA sequence were cleaved by AccI. Hence, varieties with desirable amylose levels can be developed rapidly using the Wx microsatellite and G-T SNP, along with MAGE.
    Matched MeSH terms: Oryza/classification; Oryza/enzymology; Oryza/genetics*
  17. Rapid and targeted introgression of fgr gene through marker-assisted backcrossing in rice (Oryza sativa L.)
    Cheng A, Ismail I, Osman M, Hashim H, Mohd Zainual NS
    Genome, 2017 Dec;60(12):1045-1050.
    PMID: 28813631 DOI: 10.1139/gen-2017-0100
    While it is crucial for developing countries like Malaysia to achieve self-sufficiency in rice (Oryza sativa L.), it is equally critical to be able to produce high-quality rice, specifically fragrant rice, which demands are often met through importation. The present study was aimed at developing high-yielding fragrant rice, in a timely and cost-effective manner. A marker-assisted backcross (MABC) approach was optimised to introgress the fragrance gene (fgr) into two high-yielding Malaysian varieties, MR84 and MR219, within two years utilising less than 50 molecular markers. Coupled with phenotypic screening, one single foreground marker (fgr-SNP) and 48 background markers were selected and utilised, revealing recovery of at least 90% of recurrent parent genome (RPG) in merely two backcross generations. Collectively, the yield potential of the developed BC2F2 lines (BLs) was higher (P > 0.05) than the donor parent, MRQ74, and similar (P < 0.05) to both the recurrent parents, MR84 and MR219. In addition, some of the developed BLs showed good grain quality, such as having long grain. We believe that this is the first report comprising the validation and utilisation of the single functional marker system (fgr-SNP) in introgressing the fgr gene into different rice varieties.
    Matched MeSH terms: Oryza/genetics*
  18. Dietary exposure and human risk assessment of phthalate esters based on total diet study in Cambodia
    Cheng Z, Li HH, Wang HS, Zhu XM, Sthiannopkao S, Kim KW, et al.
    Environ Res, 2016 Oct;150:423-30.
    PMID: 27372065 DOI: 10.1016/j.envres.2016.06.011
    Phthalate esters are used in a wide variety of consumer products, and human exposure to this class of compounds is widespread. Nevertheless, studies on dietary exposure of human to phthalates are limited. In this study, to assess the daily intakes of phthalate esters and the possible adverse health impacts, different food samples were collected from three areas of Cambodia, one of the poorest countries in the world. The ∑phthalate ester concentrations in Kampong Cham, Kratie and Kandal provinces ranged from 0.05 to 2.34 (median 0.88) μgg(-1), 0.19-1.65 (median 0.86) μgg(-1) and 0.24-3.05 (median 0.59) μgg(-1) wet weight (ww), respectively. Di-2-Ethylhexyl phthalate (DEHP) and diisobutyl phthalate (DiBP) were the predominant compounds among all foodstuffs. The estimated daily intake (EDI) of phthalate esters for the general population in Kampong Cham, Kratie and Kandal was 34.3, 35.6 and 35.8μgkg(-1) bw d(-1), respectively. The dietary daily intake of DEHP, benzylbutyl phthalate (BBP) and di-n-butyl phthalate (DBP) in Kampong Cham, Kratie and Kandal were below the tolerable daily intakes (TDI) imposed by the European Food Safety Authority (EFSA) and reference doses (RfD) imposed by The United States Environmental Protection Agency (USEPA). Rice contributed the greatest quantity of DEHP to the daily intake in Cambodia so may deserve further exploration. To our knowledge, this is the first study to investigate the occurrence and the daily intakes of phthalate esters in Cambodia.
    Matched MeSH terms: Oryza/chemistry*
  19. Fulltext Chicken gelatin films: rheological properties of film forming solutions and film characterisation as influenced by starch incorporation
    Cheng, S. H., Sarbon, N. M.
    International Food Research Journal, 2020;27(6):1094-1104.
    MyJurnal
    The aim of the present work was to develop chicken skin gelatin films incorporated with
    different concentrations of rice starch prepared by casting techniques. Six film-forming
    solutions were prepared separately with different blend ratios of chicken skin gelatin to rice
    starch: A (0/100), B (5/100), C (10/100), D (15/100), E (20/100), and F (25/100). The
    rheological properties of the film-forming solutions (FFS) were determined using frequency
    sweep. The mechanical and physical properties of the respective films were also evaluated.
    With the increase in rice starch concentration, the storage (G’) modulus of FFS increased
    dramatically with loss (G”) modulus as the oscillatory frequency rising to contribute to gel
    behaviour (G’ > G”). As rice starch concentration increased, the chicken skin gelatin films
    also demonstrated higher tensile strength, elongation at break, and water vapour permeability,
    but reduced the solubility of gelatin films in water. Additionally, elevation in melting point
    values indicated that the thermal stability of the composite films was enhanced with the
    increment of rice starch concentration. Film F (with 25% rice starch) yielded the optimal film
    formulation, as it had the highest tensile strength and a high elongation at break value. Thus,
    film F shows the best potential as a film for food packaging.
    Matched MeSH terms: Oryza
  20. Fulltext Folate content and availability in Malaysian cooked foods
    Chew SC, Khor GL, Loh SP
    Malays J Nutr, 2012 Dec;18(3):383-91.
    PMID: 24568079 MyJurnal
    Data on folate availability of Malaysian cooked foods would be useful for estimation of dietary folate intake; however such information is scarce.
    Matched MeSH terms: Oryza/chemistry
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