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Sample records for banana predictions based

  1. Prediction of textural attributes using color values of banana (Musa sapientum) during ripening.

    PubMed

    Jaiswal, Pranita; Jha, Shyam Narayan; Kaur, Poonam Preet; Bhardwaj, Rishi; Singh, Ashish Kumar; Wadhawan, Vishakha

    2014-06-01

    Banana is an important sub-tropical fruit in international trade. It undergoes significant textural and color transformations during ripening process, which in turn influence the eating quality of the fruit. In present study, color ('L', 'a' and 'b' value) and textural attributes of bananas (peel, fruit and pulp firmness; pulp toughness; stickiness) were studied simultaneously using Hunter Color Lab and Texture Analyser, respectively, during ripening period of 10 days at ambient atmosphere. There was significant effect of ripening period on all the considered textural characteristics and color properties of bananas except color value 'b'. In general, textural descriptors (peel, fruit and pulp firmness; and pulp toughness) decreased during ripening except stickiness, while color values viz 'a' and 'b' increased with ripening barring 'L' value. Among various textural attributes, peel toughness and pulp firmness showed highest correlation (r) with 'a' value of banana peel. In order to predict textural properties using color values of banana, five types of equations (linear/polynomial/exponential/logarithmic/power) were fitted. Among them, polynomial equation was found to be the best fit (highest coefficient of determination, R(2)) for prediction of texture using color properties for bananas. The pulp firmness, peel toughness and pulp toughness showed R(2) above 0.84 with indicating its potentiality of the fitted equations for prediction of textural profile of bananas non-destructively using 'a' value.

  2. 33 CFR 334.560 - Banana River at Patrick Air Force Base, Fla.; restricted area.

    Code of Federal Regulations, 2014 CFR

    2014-07-01

    ... 33 Navigation and Navigable Waters 3 2014-07-01 2014-07-01 false Banana River at Patrick Air Force... River at Patrick Air Force Base, Fla.; restricted area. (a) The area. The waters within an area... Commander, 45th Space Wing, Patrick Air Force Base, Florida, and such agencies as he/she may designate....

  3. 33 CFR 334.560 - Banana River at Patrick Air Force Base, Fla.; restricted area.

    Code of Federal Regulations, 2010 CFR

    2010-07-01

    ... 33 Navigation and Navigable Waters 3 2010-07-01 2010-07-01 false Banana River at Patrick Air Force... River at Patrick Air Force Base, Fla.; restricted area. (a) The area. The waters within an area... Commander, 45th Space Wing, Patrick Air Force Base, Florida, and such agencies as he/she may designate....

  4. 33 CFR 334.560 - Banana River at Patrick Air Force Base, Fla.; restricted area.

    Code of Federal Regulations, 2011 CFR

    2011-07-01

    ... 33 Navigation and Navigable Waters 3 2011-07-01 2011-07-01 false Banana River at Patrick Air Force... River at Patrick Air Force Base, Fla.; restricted area. (a) The area. The waters within an area... Commander, 45th Space Wing, Patrick Air Force Base, Florida, and such agencies as he/she may designate....

  5. 33 CFR 334.560 - Banana River at Patrick Air Force Base, Fla.; restricted area.

    Code of Federal Regulations, 2012 CFR

    2012-07-01

    ... 33 Navigation and Navigable Waters 3 2012-07-01 2012-07-01 false Banana River at Patrick Air Force... River at Patrick Air Force Base, Fla.; restricted area. (a) The area. The waters within an area... Commander, 45th Space Wing, Patrick Air Force Base, Florida, and such agencies as he/she may designate....

  6. 33 CFR 334.560 - Banana River at Patrick Air Force Base, Fla.; restricted area.

    Code of Federal Regulations, 2013 CFR

    2013-07-01

    ... 33 Navigation and Navigable Waters 3 2013-07-01 2013-07-01 false Banana River at Patrick Air Force... River at Patrick Air Force Base, Fla.; restricted area. (a) The area. The waters within an area... Commander, 45th Space Wing, Patrick Air Force Base, Florida, and such agencies as he/she may designate....

  7. Development of an efficient pheromone-based trapping method for the banana root borer Cosmopolites sordidus.

    PubMed

    Reddy, G V P; Cruz, Z T; Guerrero, A

    2009-01-01

    The banana root borer Cosmopolites sordidus (Germar) (Coleoptera: Curculionidae) is a major pest of bananas throughout the world. Chemical control is both undesirable and expensive, where biological control alternatives are limited, and pheromone-based trapping results in low captures. In this study, several important factors that affect pheromone-based catches, such as trap type, trap dimensions, and color and position of the traps, were optimized. Ground traps were found to be superior to ramp and pitfall traps, and larger traps (40 x 25 cm and above) were more efficient than smaller ones (30 x 15 cm). In a color-choice test, the banana weevil clearly preferred brown traps over yellow, red, gray, blue, black, white, and green, with mahogany being more attractive than other shades of brown. In addition, pheromone baited ground traps positioned in the shade of the canopy caught significantly more adults than those placed in sunlight. Therefore, mahogany-brown ground traps 40 x 25 cm appear to be the most efficient at catching C. sordidus adults and have the greatest potential for use in mass trapping and programs for eradication of this pest.

  8. Trait-based characterisation of soil exploitation strategies of banana, weeds and cover plant species.

    PubMed

    Tardy, Florence; Damour, Gaëlle; Dorel, Marc; Moreau, Delphine

    2017-01-01

    Cover plants can be introduced in cropping systems to provide agroecosystem services, including weed control via competition for resources. There is currently no consensus on how to identify the best cover plant species, while trait-based approaches are promising for screening plant species due to their agroecosystem service provision potential. This study was carried out to characterize soil exploitation strategies of cover plant species in banana agroecosystems using a trait-based approach, and in turn identify cover plant species with a high weed control potential via competition for soil resources in banana cropping systems. A field experiment was conducted on 17 cover plant species, two weed species and two banana cultivars grown individually. Four functional traits were measured. Two of them (i.e., the size of the zone explored by roots and the root impact density) were used to characterize root system soil exploration patterns. Two other traits (i.e., specific root length and root diameter) were used to characterize resource acquisition within the soil zone explored by the roots. All studied traits exhibited marked variations among species. The findings suggested a trade-off between the abilities of species to develop a limited number of large diameter roots exploring a large soil zone versus many thin roots exploring a smaller soil zone. Three soil-resource exploitation strategies were identified among species: (i) with large diameter roots that explore a large soil zone; (ii) with small diameter roots and a high specific length that explore a smaller soil zone; and (iii) with a high total root-impact density and an intermediate specific root length that explore the uppermost soil layers. Interestingly, in our panel of species, no correlations with regard to belowground and aboveground strategies were noted: species with an acquisitive belowground strategy could display an acquisitive or a conservative aboveground strategy. The findings of this study

  9. Trait-based characterisation of soil exploitation strategies of banana, weeds and cover plant species

    PubMed Central

    Tardy, Florence; Damour, Gaëlle; Dorel, Marc; Moreau, Delphine

    2017-01-01

    Cover plants can be introduced in cropping systems to provide agroecosystem services, including weed control via competition for resources. There is currently no consensus on how to identify the best cover plant species, while trait-based approaches are promising for screening plant species due to their agroecosystem service provision potential. This study was carried out to characterize soil exploitation strategies of cover plant species in banana agroecosystems using a trait-based approach, and in turn identify cover plant species with a high weed control potential via competition for soil resources in banana cropping systems. A field experiment was conducted on 17 cover plant species, two weed species and two banana cultivars grown individually. Four functional traits were measured. Two of them (i.e., the size of the zone explored by roots and the root impact density) were used to characterize root system soil exploration patterns. Two other traits (i.e., specific root length and root diameter) were used to characterize resource acquisition within the soil zone explored by the roots. All studied traits exhibited marked variations among species. The findings suggested a trade-off between the abilities of species to develop a limited number of large diameter roots exploring a large soil zone versus many thin roots exploring a smaller soil zone. Three soil-resource exploitation strategies were identified among species: (i) with large diameter roots that explore a large soil zone; (ii) with small diameter roots and a high specific length that explore a smaller soil zone; and (iii) with a high total root-impact density and an intermediate specific root length that explore the uppermost soil layers. Interestingly, in our panel of species, no correlations with regard to belowground and aboveground strategies were noted: species with an acquisitive belowground strategy could display an acquisitive or a conservative aboveground strategy. The findings of this study

  10. BANANA GEL.

    PubMed

    McGuire, G; Falk, K G

    1922-03-20

    The conditions for the formation of gels from banana extracts were studied. Gels were obtained with extracts more alkaline than pH 7.0 with very small quantities of calcium, strontium, and barium salts, the gel formation with these salts decreasing in the indicated order. In solutions more acid than pH 6.0, no gels were obtained with these salts. Magnesium, lithium, and sodium salts did not cause gel formation either in acid or alkaline solutions. Pancreatine gave a gel on incubation with banana extract at pH 5.0. The gel-forming property of banana extracts was destroyed on boiling.

  11. The use of principal component and cluster analysis to differentiate banana peel flours based on their starch and dietary fibre components.

    PubMed

    Ramli, Saifullah; Ismail, Noryati; Alkarkhi, Abbas Fadhl Mubarek; Easa, Azhar Mat

    2010-08-01

    Banana peel flour (BPF) prepared from green or ripe Cavendish and Dream banana fruits were assessed for their total starch (TS), digestible starch (DS), resistant starch (RS), total dietary fibre (TDF), soluble dietary fibre (SDF) and insoluble dietary fibre (IDF). Principal component analysis (PCA) identified that only 1 component was responsible for 93.74% of the total variance in the starch and dietary fibre components that differentiated ripe and green banana flours. Cluster analysis (CA) applied to similar data obtained two statistically significant clusters (green and ripe bananas) to indicate difference in behaviours according to the stages of ripeness based on starch and dietary fibre components. We concluded that the starch and dietary fibre components could be used to discriminate between flours prepared from peels obtained from fruits of different ripeness. The results were also suggestive of the potential of green and ripe BPF as functional ingredients in food.

  12. The Use of Principal Component and Cluster Analysis to Differentiate Banana Peel Flours Based on Their Starch and Dietary Fibre Components

    PubMed Central

    Ramli, Saifullah; Ismail, Noryati; Alkarkhi, Abbas Fadhl Mubarek; Easa, Azhar Mat

    2010-01-01

    Banana peel flour (BPF) prepared from green or ripe Cavendish and Dream banana fruits were assessed for their total starch (TS), digestible starch (DS), resistant starch (RS), total dietary fibre (TDF), soluble dietary fibre (SDF) and insoluble dietary fibre (IDF). Principal component analysis (PCA) identified that only 1 component was responsible for 93.74% of the total variance in the starch and dietary fibre components that differentiated ripe and green banana flours. Cluster analysis (CA) applied to similar data obtained two statistically significant clusters (green and ripe bananas) to indicate difference in behaviours according to the stages of ripeness based on starch and dietary fibre components. We concluded that the starch and dietary fibre components could be used to discriminate between flours prepared from peels obtained from fruits of different ripeness. The results were also suggestive of the potential of green and ripe BPF as functional ingredients in food. PMID:24575193

  13. Preparation and properties of banana fiber-reinforced composites based on high density polyethylene (HDPE)/Nylon-6 blends.

    PubMed

    Liu, H; Wu, Q; Zhang, Q

    2009-12-01

    Banana fiber (BaF)-filled composites based on high density polyethylene (HDPE)/Nylon-6 blends were prepared via a two-step extrusion method. Maleic anhydride grafted styrene/ethylene-butylene/styrene triblock polymer (SEBS-g-MA) and maleic anhydride grafted polyethylene (PE-g-MA) were used to enhance impact performance and interfacial bonding between BaF and the resins. Mechanical, crystallization/melting, thermal stability, water absorption, and morphological properties of the composites were investigated. In the presence of SEBS-g-MA, better strengths and moduli were found for HDPE/Nylon-6 based composites compared with corresponding HDPE based composites. At a fixed weight ratio of PE-g-MA to BaF, an increase of BaF loading up to 48.2 wt.% led to a continuous improvement in moduli and flexural strength of final composites, while impact toughness was lowered gradually. Predicted tensile modulus by the Hones-Paul model for three-dimensional random fiber orientation agreed well with experimental data at the BaF loading of 29.3 wt.%. However, the randomly-oriented fiber models underestimated experimental data at higher fiber levels. It was found that the presence of SEBS-g-MA had a positive influence on reinforcing effect of the Nylon-6 component in the composites. Thermal analysis results showed that fractionated crystallization of the Nylon-6 component in the composites was induced by the addition of both SEBS-g-MA and PE-g-MA. Thermal stability of both composite systems differed slightly, except an additional decomposition peak related to the minor Nylon-6 for the composites from the HDPE/Nylon-6 blends. In the presence of SEBS-g-MA, the addition of Nylon-6 and increased BaF loading level led to an increase in the water absorption value of the composites.

  14. Hyperspectral Surface Analysis for Ripeness Estimation and Quick UV-C Surface Treatments for Preservation of Bananas

    NASA Astrophysics Data System (ADS)

    Zhao, W.; Yang, Zh.; Chen, Zh.; Liu, J.; Wang, W. Ch.; Zheng, W. Yu.

    2016-05-01

    This study aimed to determine the ripeness of bananas using hyperspectral surface analysis and how a rapid UV-C (ultraviolet-C light) surface treatment could reduce decay. The surface of the banana fruit and its stages of maturity were studied using a hyperspectral imaging technique in the visible and near infrared (370-1000 nm) regions. The vselected color ratios from these spectral images were used for classifying the whole banana into immature, ripe, half-ripe and overripe stages. By using a BP neural network, models based on the wavelengths were developed to predict quality attributes. The mean discrimination rate was 98.17%. The surface of the fresh bananas was treated with UV-C at dosages from 15-55 μW/cm2. The visual qualities with or without UV-C treatment were compared using the image, the chromatic aberration test, the firmness test and the area of black spot on the banana skin. The results showed that high dosages of UV-C damaged the banana skin, while low dosages were more efficient at delaying changes in the relative brightness of the skin. The maximum UV-C treatment dose for satisfactory banana preservation was between 21 and 24 μW/cm2. These results could help to improve the visual quality of bananas and to classify their ripeness more easily.

  15. Substitution of corn and soybean with green banana fruits and Gliricidia sepium forage in sheep fed hay-based diets: effects on intake, digestion and growth.

    PubMed

    Archimède, H; González-García, E; Despois, P; Etienne, T; Alexandre, G

    2010-02-01

    This study aimed to evaluate the substitution of imported corn and soybean by local feed resources from tropical production settings such as entire green banana and Gliricidia sepium forage as energy and protein sources, respectively, in sheep diets. Two experiments were conducted: first, a 'growth trial' and second, an in vivo digestion study. In the 'growth trial', 40 Martinik lambs [body weight (BW): 29.4 +/- 3.6 kg; 6 months old) were used and distributed into four groups of 10 lambs each according to treatment: HBGl (banana + gliricidia at low level; 1500 g/day; 119 g/kg BW(0.75)), HBGh (banana + gliricidia at high level; 3000 g/day; 238 g/kg BW(0.75)), HBS (banana + soybean cake) and Control (corn + soybean cake). In digestion trial, four Martinik rams (BW: 57.2 +/- 3.45 kg) fitted with ruminal and duodenal cannulae were used; treatments (HBG, HBS and Control) were similar but adjusted to metabolic body weight (MW) and just one level of gliricidia was used. Intake, average daily gain (ADG), feed intake to gain index (F:G), apparent total and ruminal digestibilities as well as nitrogen balance, microbial efficiency and volatile fatty acid (VFA) profile were monitored. Lambs fed HBGh had greater dry matter (DM) intake based on MW and ADG (173 g/day vs. 141 g/day; p < 0.001), whereas HBGl lambs showed the lowest ADG (71.5 g/day) and the worst F:G (14.4; p < 0.001). The DM, organic matter (OM), neutral detergent fibre and acid detergent fibre digestibilities were not influenced by treatment, whereas crude protein digestibility was higher (p = 0.024) in diets offered banana or corn + soybean cake (687 g/kg DM and 658 g/kg DM, respectively). Ruminal DM and OM digestibilities did not differ among treatments. Total or individual VFA concentrations were also not influenced by the diet. Higher (p = 0.006) ruminal fluid pH values were recorded for diets combining banana and gliricidia (6.54) or banana and soybean (6.39) until 3 h after a meal. As all animals on

  16. Management of Cosmopolites sordidus and Metamasius hemipterus in banana by pheromone-based mass trapping.

    PubMed

    Alpizar, D; Fallas, M; Oehlschlager, A C; Gonzalez, L M

    2012-03-01

    Mass trapping Cosmopolites sordidus (Coleoptera, Curculionidae) using a pheromone-baited pitfall trap and Metamasius hemipterus (Coleoptera, Curculionidae) using a pheromone-sugarcane-baited open gallon trap was conducted in commercial banana. Four traps for each insect per hectare were placed in each of two 5-hectare plots of banana. Two additional 5-hectare plots were designated as controls and treated according to the plantation protocol. Capture rates of C. sordidus and M. hemipterus declined by >75 % over 10-12 months. In the banana growing region studied, corm damage was due primarily to C. sordidus, while only a minor amount of damage was attributable to M. hemipterus. Corm damage reduction in trapping plots was, thus, attributed primarily to C. sordidus trapping. In trapping plots, corm damage decreased by 61-64 % during the experiment. Banana bunch weights increased 23 % relative to control plots after 11-12 months of trapping. Fruit diameter did not vary between bunches harvested from trapping plots vs. control plots. Plant vigor, however, as determined by stem circumference at one meter above ground increased in plots with traps compared to control plots. Trapping for C. sordidus in two plantations of over 200 hectares each, reduced corm damage 62-86 % relative to pre-trapping levels. Insecticide control measures in place when the experiment commenced resulted in about 20-30 % corm damage, while use of pheromone trapping to manage C. sordidus lowered corm damage to 10 % or less. It is estimated that the increase in value of increased yield obtained in this trial (23 %) is about $4,240 USD per year per hectare, while the cost of pheromone trapping is approximately $185 USD per year per hectare. The trapping program becomes revenue neutral if bunch weights increase by an average of 1 % per year of trapping. Approximately 10 % of all plantation area in Costa Rica use the pheromone trapping system described here. The system also is used in Martinique

  17. Ionic liquid based dispersive liquid-liquid microextraction for the extraction of pesticides from bananas.

    PubMed

    Ravelo-Pérez, Lidia M; Hernández-Borges, Javier; Asensio-Ramos, María; Rodríguez-Delgado, Miguel Angel

    2009-10-23

    This paper describes a dispersive liquid-liquid microextraction (DLLME) procedure using room temperature ionic liquids (RTILs) coupled to high-performance liquid chromatography with diode array detection capable of quantifying trace amounts of eight pesticides (i.e. thiophanate-methyl, carbofuran, carbaryl, tebuconazole, iprodione, oxyfluorfen, hexythiazox and fenazaquin) in bananas. Fruit samples were first homogenized and extracted (1g) with acetonitrile and after suitable evaporation and reconstitution of the extract in 10 mL of water, a DLLME procedure using 1-hexyl-3-methylimidazolium hexafluorophosphate ([C(6)MIM][PF(6)]) as extraction solvent was used. Experimental conditions affecting the DLLME procedure (sample pH, sodium chloride percentage, ionic liquid amount and volume of disperser solvent) were optimized by means of an experimental design. In order to determine the presence of a matrix effect, calibration curves for standards and fortified banana extracts (matrix matched calibration) were studied. Mean recovery values of the extraction of the pesticides from banana samples were in the range of 69-97% (except for thiophanate-methyl and carbofuran, which were 53-63%) with a relative standard deviation lower than 8.7% in all cases. Limits of detection achieved (0.320-4.66 microg/kg) were below the harmonized maximum residue limits established by the European Union (EU). The proposed method, was also applied to the analysis of this group of pesticides in nine banana samples taken from the local markets of the Canary Islands (Spain). To the best of our knowledge, this is the first application of RTILs as extraction solvents for DLLME of pesticides from samples different than water.

  18. [Analysis of soluble Ca content in banana pulp based on pretreatment of digestion model in vitro].

    PubMed

    Li, Ji-Hua; Huang, Mao-Fang; Xu, Fei; Tang, Yong-Fu; Fu, Tiao-Kun

    2010-04-01

    In the present paper, soluble Ca content in banana pulp was analyzed with pretreatment of digestion model in vitro. All the samples were digested by strong acid (perchloric acid and nitric acid with 1 : 4 ratio) and determined by AA700 flame atomic absorption spectrophotometry (FAAS). Meanwhile, the reproducibility of the analytical method was investigated. The results showed that (1) Content of Ca was 1.479 mg x g(-1) x DW in eighty percent maturity banana pulp. And the relative standard deviation was 4.12%. (2) Contents of Ca in the soluble and insoluble fractions were 1.108 and 0.412 mg x g(-1) x DW, respectively in eighty percent maturity banana pulp with pretreatment of digestion model in vitro. The extraction rate was 74.9% and the residue rate was 27.8%. (3) The relative standard deviations of the analytical results of Ca contents in those two fractions were 2.56% and 9.10%, respectively, in the reproducibility tests. It was showed that the digestion model in vitro did not affect the reproduction quality significantly. Moreover, the deviation between the theoretical value and the summation value of the extraction and the residue rates was only 2.7%, which showed good availability of the digestion model in vitro to be used as a pretreatment method in mineral element analysis process. (4) Relative standard deviation and recovery yield in the determination procedure were 0.11% (n = 9) and 99.2%, respectively.

  19. A Novel Electrochemical Genosensor Based on Banana and Nano-Gold Modified Electrode Using Tyrosinase Enzyme as Indicator.

    PubMed

    Asghary, Maryam; Raoof, Jahan-Bakhsh; Hamidi-Asl, Ezat; Ojani, Reza

    2015-05-01

    The electrochemical behavior of the tyrosinase enzyme at the surface of two electrodes, carbon paste electrode (CPE) and nano-gold modified carbon paste electrode (NGCPE), has been studied by cyclic voltammetry. Tyrosinase showed one oxidation peak (around +0.85 V) and one reduction peak at + 0.40 V versus Ag\\AgCl\\KCl (3 M). To calculate the values of a and k(s), the effect of potential scan rate on the electrochemical properties of tyrosinase was investigated. Cyclic voltammetry and UV-vis absorption techniques were used for the study of interaction between DNA and tyrosinase. The cyclic voltammogram of tyrosinase was obtained in the presence of different types of DNA bases for the study of tyrosinase-DNA binding. The results showed that the hydrogen binding and electrostatic interactions were important interaction mode. Moreover, a variation in tyrosinase signals intensity regarding the interaction to ssDNA and dsDNA was observed. The selectivity of the biosensor was studied using noncomplementary oligonucleotides. Finally, banana modified carbon paste electrode was also prepared to investigate the interaction of banana's tyrosinase with DNA. The limit of detection for DNA probe was calculated 0.33 pM by using the oxidation signal of accumulated tyrosinase in NGCPE.

  20. Phenotyping bananas for drought resistance

    PubMed Central

    Ravi, Iyyakkutty; Uma, Subbaraya; Vaganan, Muthu Mayil; Mustaffa, Mohamed M.

    2012-01-01

    Drought has emerged as one of the major constraints in banana production. Its effects are pronounced substantially in the tropics and sub-tropics of the world due to climate change. Bananas are quite sensitive to drought; however, genotypes with “B” genome are more tolerant to abiotic stresses than those solely based on “A” genome. In particular, bananas with “ABB” genomes are more tolerant to drought and other abiotic stresses than other genotypes. A good phenotyping plan is a prerequisite for any improvement program for targeted traits. In the present article, known drought tolerant traits of other crop plants are validated in bananas with different genomic backgrounds and presented. Since, banana is recalcitrant to breeding, strategies for making hybrids between different genomic backgrounds are also discussed. Stomatal conductance, cell membrane stability (CMS), leaf emergence rate, rate of leaf senescence, RWC, and bunch yield under soil moisture deficit stress are some of the traits associated with drought tolerance. Among these stress bunch yield under drought should be given top priority for phenotyping. In the light of recently released Musa genome draft sequence, the molecular breeders may have interest in developing molecular markers for drought resistance. PMID:23443573

  1. Banana orchard inventory using IRS LISS sensors

    NASA Astrophysics Data System (ADS)

    Nishant, Nilay; Upadhayay, Gargi; Vyas, S. P.; Manjunath, K. R.

    2016-04-01

    Banana is one of the major crops of India with increasing export potential. It is important to estimate the production and acreage of the crop. Thus, the present study was carried out to evolve a suitable methodology for estimating banana acreage. Area estimation methodology was devised around the fact that unlike other crops, the time of plantation of banana is different for different farmers as per their local practices or conditions. Thus in order to capture the peak signatures, biowindow of 6 months was considered, its NDVI pattern studied and the optimum two months were considered when banana could be distinguished from other competing crops. The final area of banana for the particular growing cycle was computed by integrating the areas of these two months using LISS III data with spatial resolution of 23m. Estimated banana acreage in the three districts were 11857Ha, 15202ha and 11373Ha for Bharuch, Anand and Vadodara respectively with corresponding accuracy of 91.8%, 90% and 88.16%. Study further compared the use of LISS IV data of 5.8m spatial resolution for estimation of banana using object based as well as per-pixel classification and the results were compared with statistical reports for both the approaches. In the current paper we depict the various methodologies to accurately estimate the banana acreage.

  2. Let's Go Bananas.

    ERIC Educational Resources Information Center

    Brown, Helen; And Others

    1995-01-01

    Presents a hands-on primary science unit of activities designed to teach students concepts about bananas. Real bananas are used as students investigate and use the process skills of observation, measurement, and communication. Using bananas as a theme, science, mathematics, social studies, music, and writing are integrated into the curriculum of…

  3. Metabolomics-Based Analysis of Banana and Pear Ingestion on Exercise Performance and Recovery.

    PubMed

    Nieman, David C; Gillitt, Nicholas D; Sha, Wei; Meaney, Mary Pat; John, Casey; Pappan, Kirk L; Kinchen, Jason M

    2015-12-04

    Bananas and pears vary in sugar and phenolic profiles, and metabolomics was utilized to measure their influence on exercise performance and recovery. Male athletes (N = 20) cycled for 75 km while consuming water (WATER), bananas (BAN), or pears (PEAR) (0.6 g carbohydrate/kg each hour) in randomized order. UPLC-MS/MS and the library of purified standards maintained by Metabolon (Durham, NC) were used to analyze metabolite shifts in pre- and postexercise (0-h, 1.5-h, 21-h) blood samples. Performance times were 5.0% and 3.3% faster during BAN and PEAR versus WATER (P = 0.018 and P = 0.091, respectively), with reductions in cortisol, IL-10, and total leukocytes, and increases in blood glucose, insulin, and FRAP. Partial Least Square Discriminant Analysis (PLS-DA) showed a distinct separation between trials immediately (R(2)Y = 0.877, Q(2)Y = 0.457) and 1.5-h postexercise (R(2)Y = 0.773, Q(2)Y = 0.441). A total of 107 metabolites (primarily lipid-related) increased more than 2-fold during WATER, with a 48% and 52% reduction in magnitude during BAN and PEAR recovery (P < 0.001). Increases in metabolites unique to BAN and PEAR included fructose and fruit constituents, and sulfated phenolics that were related to elevated FRAP. These data indicate that BAN and PEAR ingestion improves 75-km cycling performance, attenuates fatty acid utilization and oxidation, and contributes unique phenolics that augment antioxidant capacity.

  4. Application of multivariate statistical techniques for differentiation of ripe banana flour based on the composition of elements.

    PubMed

    Alkarkhi, Abbas F M; Ramli, Saifullah Bin; Easa, Azhar Mat

    2009-01-01

    Major (sodium, potassium, calcium, magnesium) and minor elements (iron, copper, zinc, manganese) and one heavy metal (lead) of Cavendish banana flour and Dream banana flour were determined, and data were analyzed using multivariate statistical techniques of factor analysis and discriminant analysis. Factor analysis yielded four factors explaining more than 81% of the total variance: the first factor explained 28.73%, comprising magnesium, sodium, and iron; the second factor explained 21.47%, comprising only manganese and copper; the third factor explained 15.66%, comprising zinc and lead; while the fourth factor explained 15.50%, comprising potassium. Discriminant analysis showed that magnesium and sodium exhibited a strong contribution in discriminating the two types of banana flour, affording 100% correct assignation. This study presents the usefulness of multivariate statistical techniques for analysis and interpretation of complex mineral content data from banana flour of different varieties.

  5. The use of principle component and cluster analyses to differentiate banana pulp flours based on starch and dietary fiber components.

    PubMed

    Ramli, Saifullah Bin; Alkarkhi, Abbas F M; Yong, Yeoh Shin; Easa, Azhar Mat

    2009-01-01

    Flour prepared from green and ripe Cavendish and Dream banana fruits were assessed for total starch, digestible starch, resistant starch, total dietary fiber, soluble dietary fiber and insoluble dietary fiber. Principle component analysis identified only one component responsible for explaining 83.83% of the total variance in the starch and dietary fiber components data to indicate that ripe banana flour had different characteristics from the green. Cluster analysis applied on similar data obtained two statistically significant clusters of green and ripe banana to indicate difference in behaviors according to the stages of ripeness. In conclusion, starch and dietary fiber components could be used to discriminate between flour prepared from fruits of different stage of ripeness. Results are also suggestive of the potential of green as well as the ripe banana flour as functional ingredients in food.

  6. Pesticide residues in heterogeneous plant populations, a model-based approach applied to nematicides in banana (Musa spp.).

    PubMed

    Tixier, Philippe; Chabrier, Christian; Malézieux, Eric

    2007-03-21

    Nematicides are widely used to control plant-parasitic nematodes in intensive export banana (Musa spp.) cropping systems. Data show that the concentration of fosthiazate in banana fruits varies from zero to 0.035 g kg-1, under the maximal residue limit (MRL=0.05 mg kg-1). The fosthiazate concentration in fruit is described by a Gaussian envelope curve function of the interval between pesticide application and fruit harvest (preharvest interval). The heterogeneity of phenological stages in a banana population increases over time, and thus the preharvest interval of fruits harvested after a pesticide application varies over time. A phenological model was used to simulate the long-term harvest dynamics of banana at field scale. Simulations show that the mean fosthiazate concentration in fruits varies according to nematicide application program, climate (temperature), and planting date of the banana field. This method is used to assess the percentage of harvested bunches that exceed a residue threshold and to help farmers minimize fosthiazate residues in bananas.

  7. Adsorption kinetics, isotherms and thermodynamics of atrazine removal using a banana peel based sorbent.

    PubMed

    Chaparadza, Allen; Hossenlopp, Jeanne M

    2012-01-01

    Atrazine removal from water by treated banana peels was studied. The effect of pH, contact time, initial atrazine concentration, and temperature were investigated. Batch experiments demonstrated that 15 g L(-1) adsorbent dosage removed 90-99% of atrazine from 1-150 ppm aqueous solutions. The removal was both pH and temperature dependent with the most atrazine removed between pH 7 and 8.2 and increased with increasing temperature. Equilibrium data fitted well to the Langmuir and Redlich-Peterson models in the concentration and temperature ranges investigated, with a maximum adsorption capacity of 14 mg g(-1). Simple mass transfer models were applied to the experimental data to examine the adsorption mechanism and it was found that both external mass transfer and intraparticle diffusion played important roles in the adsorption mechanisms. The enthalpy of atrazine adsorption was evaluated to be 67.8 ± 6.3 kJ mol(-l) with a Gibbs free energy of -5.7 ± 1.2 kJ mol(-1).

  8. Drying characteristics and quality of bananas under infrared radiation heating

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Hot air (HA) drying of banana has low drying efficiency and results in undesirable product quality. The objectives of this research were to investigate the feasibility of infrared (IR) heating to improve banana drying rate, evaluate quality of the dried product, and establish models for predicting d...

  9. VIEWPOINT: Bananas go paraelectric

    NASA Astrophysics Data System (ADS)

    Loidl, A.; Krohns, S.; Hemberger, J.; Lunkenheimer, P.

    2008-05-01

    Using a banana as an example, we demonstrate how the ferroelectric-like hysteresis loops measured in inhomogeneous, conducting materials can easily be identified as non-intrinsic. With simple experiments, the response of a banana to electric fields is revealed as characteristic for an inhomogeneous paraelectric ion conductor. Not even absolute beginners in dielectrics should identify this biological matter as ferroelectric.

  10. The banana genome hub.

    PubMed

    Droc, Gaëtan; Larivière, Delphine; Guignon, Valentin; Yahiaoui, Nabila; This, Dominique; Garsmeur, Olivier; Dereeper, Alexis; Hamelin, Chantal; Argout, Xavier; Dufayard, Jean-François; Lengelle, Juliette; Baurens, Franc-Christophe; Cenci, Alberto; Pitollat, Bertrand; D'Hont, Angélique; Ruiz, Manuel; Rouard, Mathieu; Bocs, Stéphanie

    2013-01-01

    Banana is one of the world's favorite fruits and one of the most important crops for developing countries. The banana reference genome sequence (Musa acuminata) was recently released. Given the taxonomic position of Musa, the completed genomic sequence has particular comparative value to provide fresh insights about the evolution of the monocotyledons. The study of the banana genome has been enhanced by a number of tools and resources that allows harnessing its sequence. First, we set up essential tools such as a Community Annotation System, phylogenomics resources and metabolic pathways. Then, to support post-genomic efforts, we improved banana existing systems (e.g. web front end, query builder), we integrated available Musa data into generic systems (e.g. markers and genetic maps, synteny blocks), we have made interoperable with the banana hub, other existing systems containing Musa data (e.g. transcriptomics, rice reference genome, workflow manager) and finally, we generated new results from sequence analyses (e.g. SNP and polymorphism analysis). Several uses cases illustrate how the Banana Genome Hub can be used to study gene families. Overall, with this collaborative effort, we discuss the importance of the interoperability toward data integration between existing information systems. Database URL: http://banana-genome.cirad.fr/

  11. Remote quality monitoring in the banana chain

    PubMed Central

    Jedermann, Reiner; Praeger, Ulrike; Geyer, Martin; Lang, Walter

    2014-01-01

    Quality problems occurring during or after sea transportation of bananas in refrigerated containers are mainly caused by insufficient cooling and non-optimal atmospheric conditions, but also by the heat generated by respiration activity. Tools to measure and evaluate these effects can largely help to reduce losses along the banana supply chain. The presented green life model provides a tool to predict the effect of deviating temperature, relative humidity, and CO2 and O2 gas concentrations on the storage stability of bananas. A second thermal model allows evaluation of the cooling efficiency, the effect of changes in packaging and stowage and the amount of respiration heat from the measured temperature curves. Spontaneous ripening causes higher respiration heat and CO2 production rate. The resulting risk for creation of hot spots increases in positions in which the respiration heat exceeds the available cooling capacity. In case studies on the transport of bananas from Costa Rica to Europe, we validated the models and showed how they can be applied to generate automated warning messages for containers with reduced banana green life or with temperature problems and also for remote monitoring of the ripening process inside the container. PMID:24797132

  12. Remote quality monitoring in the banana chain.

    PubMed

    Jedermann, Reiner; Praeger, Ulrike; Geyer, Martin; Lang, Walter

    2014-06-13

    Quality problems occurring during or after sea transportation of bananas in refrigerated containers are mainly caused by insufficient cooling and non-optimal atmospheric conditions, but also by the heat generated by respiration activity. Tools to measure and evaluate these effects can largely help to reduce losses along the banana supply chain. The presented green life model provides a tool to predict the effect of deviating temperature, relative humidity, and CO2 and O2 gas concentrations on the storage stability of bananas. A second thermal model allows evaluation of the cooling efficiency, the effect of changes in packaging and stowage and the amount of respiration heat from the measured temperature curves. Spontaneous ripening causes higher respiration heat and CO2 production rate. The resulting risk for creation of hot spots increases in positions in which the respiration heat exceeds the available cooling capacity. In case studies on the transport of bananas from Costa Rica to Europe, we validated the models and showed how they can be applied to generate automated warning messages for containers with reduced banana green life or with temperature problems and also for remote monitoring of the ripening process inside the container.

  13. Natural Radioactivity in Bananas

    NASA Astrophysics Data System (ADS)

    Zagatto, V. A. B.; Medina, N. H.; Okuno, E.; Umisedo, N. K.

    2008-08-01

    The content of 40K natural radionuclide in bananas (Musa sapientum) from the Vale do Ribeira region, São Paulo, Brazil, has been measured. We have collected several samples of bananas prata and nanica, its peels, leaves, and also different soils where the banana tree was planted, such as soil with a standard amount of fertilizer, the fertilizer itself and also soil without fertilizer for comparison. We have used the gamma-ray spectroscopy technique with a NaI(T1) crystal inside a 12 cm thick lead shield to detect the gamma-radiation. The results indicate that only part of the available potassium is absorbed by the plant, which is mainly concentrated in the banana peel.

  14. Natural Radioactivity in Bananas

    SciTech Connect

    Zagatto, V. A. B.; Medina, N. H.; Okuno, E.; Umisedo, N. K.

    2008-08-07

    The content of {sup 40}K natural radionuclide in bananas (Musa sapientum) from the Vale do Ribeira region, Sao Paulo, Brazil, has been measured. We have collected several samples of bananas prata and nanica, its peels, leaves, and also different soils where the banana tree was planted, such as soil with a standard amount of fertilizer, the fertilizer itself and also soil without fertilizer for comparison. We have used the gamma-ray spectroscopy technique with a NaI(T1) crystal inside a 12 cm thick lead shield to detect the gamma-radiation. The results indicate that only part of the available potassium is absorbed by the plant, which is mainly concentrated in the banana peel.

  15. Did backcrossing contribute to the origin of hybrid edible bananas?

    PubMed Central

    De Langhe, Edmond; Hřibová, Eva; Carpentier, Sebastien; Doležel, Jaroslav; Swennen, Rony

    2010-01-01

    Background Bananas and plantains (Musa spp.) provide a staple food for many millions of people living in the humid tropics. The cultivated varieties (cultivars) are seedless parthenocarpic clones of which the origin remains unclear. Many are believed to be diploid and polyploid hybrids involving the A genome diploid M. acuminata and the B genome M. balbisiana, with the hybrid genomes consisting of a simple combination of the parental ones. Thus the genomic constitution of the diploids has been classified as AB, and that of the triploids as AAB or ABB. However, the morphology of many accessions is biased towards either the A or B phenotype and does not conform to predictions based on these genomic formulae. Scope On the basis of published cytotypes (mitochondrial and chloroplast genomes), we speculate here that the hybrid banana genomes are unbalanced with respect to the parental ones, and/or that inter-genome translocation chromosomes are relatively common. We hypothesize that the evolution under domestication of cultivated banana hybrids is more likely to have passed through an intermediate hybrid, which was then involved in a variety of backcrossing events. We present experimental data supporting our hypothesis and we propose a set of experimental approaches to test it, thereby indicating other possibilities for explaining some of the unbalanced genome expressions. Progress in this area would not only throw more light on the origin of one of the most important crops, but provide data of general relevance for the evolution under domestication of many other important clonal crops. At the same time, a complex origin of the cultivated banana hybrids would imply a reconsideration of current breeding strategies. PMID:20858591

  16. Modeling the Flushing Response to the Construction of a Low Crested Weir in the Banana River

    NASA Astrophysics Data System (ADS)

    Saberi, A.; Weaver, R. J.

    2014-12-01

    The ADCIRC hydrodynamic model coupled with a Lagrangian Particle Tracking Model (LPTM) is applied to study circulation in the Banana River. The purpose of this study is to determine the extent to which constructing a low crested weir adjacent to Port Canaveral can improve flushing in this region. The Banana River a 50 km long sub-basin of the Indian River Lagoon (IRL), located on the central-east coast of Florida in Brevard County between Cape Canaveral and Merritt Island. Although Banana River has an outlet to the ocean through the Port Canaveral locks, the locks remain closed when there is no passing vessel resulting in limited circulation, long flushing time and poor water quality. Recent high mortality events of different species, e.g. dolphins, manatees and pelicans in the lagoon ecosystem, can be linked to the decline in the water quality. ADCIRC is used to simulate the hydrodynamic properties of the study area and determine the 2D depth-averaged velocity field for two separate cases: one with only tidal and another with both tidal and meteorological forces considered. Simulations are run, first to establish the baseline hydrodynamics of the unmodified system, and then to predict the effects of modifying the domain. Passive particles are placed in the Banana River portion of our domain, and the movement of these particles is tracked using LPTM for both cases. Flushing and residence time are then computed. Results indicate an improvement in flushing in both the Banana River and the central Indian River Lagoon, driven by an induced southerly current. In the portion of the Banana River to the south of the port complex, tidal flushing time is significantly reduced for the case of modified domain. In this southern region the flushing time based on 50% renewal time, is decreased from 100 days down to 15 days, after the addition of the weir to the domain.

  17. A possible scenario for the evolution of Banana streak virus in banana.

    PubMed

    Iskra-Caruana, Marie-Line; Chabannes, Matthieu; Duroy, Pierre-Olivier; Muller, Emmanuelle

    2014-06-24

    Outbreaks of Banana streak virus (BSV) have been recorded worldwide where Musa spp. is grown during the last 20 years with no convincing evidence of epidemics. Epidemics were previously reported in Uganda where BSV is currently endemic. BSV is a plant pararetrovirus of the family Caulimoviridae, genus Badnavirus it causes chlorosis leaf streak disease. The information currently available on banana streak disease makes it possible to identify a complex of distinct BSV species each causing the same disease. BSV exists in two states: one as an episomal form, infecting plant cells; the other as viral DNA integrated within the B genome of banana (endogenous BSV-eBSV) forming a viral genome for de novo viral particles. Both forms can be infectious in banana plants. The BSV phylogeny is polyphyletic with BSV distributed in two clades. Clade 1 clusters BSV species that occur worldwide and may have an eBSV counterpart, whereas Clade 3 only comprises BSV species from Uganda. Clearly, two distinct origins explain such BSV diversity. However, the epidemiology/outbreaks of BSV remains unclear and the role of eBSV needs to be clarified. In this review, the biodiversity of BSV is explained and discussed in the light of field and molecular epidemiology data. A scheme is proposed for the co-evolution of BSV and banana based on old or recent infection hypotheses related to African domestication sites and banana dissemination to explain the disease context.

  18. DEBDOM: Database Exploring Banana Diversity of Manipur

    PubMed Central

    Singh, Warepam Amuchou; Gopalrao, Somkuwar Bharat; Gourshyam, Thingnam; Handique, Pratap Jyoti; Devi, Huidrom Sunitibala

    2013-01-01

    Being poor man's apple, banana has a wide popularity worldwide. It's one of the important horticultural crops used irrespective of rich and poor alike. Manipur along with the other states of Northeast India harboured with plenty of wild and cultivated species of banana that are not fully explored. A data base named DEBDOM has been developed here describing the diversity of banana resources of Manipur and it comprises twenty eight genotypes of Musaceae. The database DEBDOM provides a sophisticated web base access to the details of the taxonomy, morphological characteristics, utility as well as sites of collection of Musa genotypes, and it would have contribute as a potential gene pool sources for the conservation, sustainability as well as for crop improvement in the future breeding programmes. Availability http://ibsd.gov.in/debdom/ PMID:23516335

  19. Going Bananas over The Rainforest

    ERIC Educational Resources Information Center

    Curriculum Review, 2005

    2005-01-01

    With a market of nearly $5 billion a year, the banana is the world's most popular fruit, and the most important food crop after rice, wheat, and maize. Banana businesses are economic pillars in many tropical countries, providing millions of jobs for rural residents. But, for much of its history, the banana industry was notorious for destructive…

  20. Fusarium Wilt of Banana.

    PubMed

    Ploetz, Randy C

    2015-12-01

    Banana (Musa spp.) is one of the world's most important fruits. In 2011, 145 million metric tons, worth an estimated $44 billion, were produced in over 130 countries. Fusarium wilt (also known as Panama disease) is one of the most destructive diseases of this crop. It devastated the 'Gros Michel'-based export trades before the mid-1900s, and threatens the Cavendish cultivars that were used to replace it; in total, the latter cultivars are now responsible for approximately 45% of all production. An overview of the disease and its causal agent, Fusarium oxysporum f. sp. cubense, is presented below. Despite a substantial positive literature on biological, chemical, or cultural measures, management is largely restricted to excluding F. oxysporum f. sp. cubense from noninfested areas and using resistant cultivars where the pathogen has established. Resistance to Fusarium wilt is poor in several breeding targets, including important dessert and cooking cultivars. Better resistance to this and other diseases is needed. The history and impact of Fusarium wilt is summarized with an emphasis on tropical race 4 (TR4), a 'Cavendish'-killing variant of the pathogen that has spread dramatically in the Eastern Hemisphere.

  1. Fighting Baddies and Collecting Bananas: Teachers' Perceptions of Games-Based Literacy Learning

    ERIC Educational Resources Information Center

    Gerber, Hannah R.; Price, Debra P.

    2013-01-01

    This paper discusses how practicing teachers conceptualize commercial off the shelf (COTS) videogames within classroom-based English language arts instruction. Understanding how today's teachers perceive virtual worlds and videogames as an instructional tool for schema building within literacy development will help researchers better understand…

  2. New microsatellite markers for bananas (Musa spp).

    PubMed

    Amorim, E P; Silva, P H; Ferreira, C F; Amorim, V B O; Santos, V J; Vilarinhos, A D; Santos, C M R; Souza Júnior, M T; Miller, R N G

    2012-04-27

    Thirty-four microsatellite markers (SSRs) were identified in EST and BAC clones from Musa acuminata burmannicoides var. Calcutta 4 and validated in 22 Musa genotypes from the Banana Germplasm Bank of Embrapa-CNPMF, which includes wild and improved diploids. The number of alleles per locus ranged from 2 to 14. The markers were considered highly informative based on their polymorphism information content values; more than 50% were above 0.5. These SSRs will be useful for banana breeding programs, for studies of genetic diversity, germplasm characterization and selection, development of saturated genetic linkage maps, and marker assisted selection.

  3. A molecular marker-based linkage map of diploid bananas (Musa acuminata).

    PubMed

    Fauré, S; Noyer, J L; Horry, J P; Bakry, F; Lanaud, C; Gońzalez de León, D

    1993-12-01

    A partial molecular linkage map of the Musa acuminata diploid genome is presented. This map is based on 58 RFLP, four isozyme and 28 RAPD markers segregating in an F2 population of 92 individuals. A total of 90 loci was detected, 77 of which were placed on 15 linkage groups while 13 segregated independently. Segregation distortions were shown by 36% of all loci, mostly favoring the male parent. Chromosome structural rearrangements were believed to be one of the main causes of these distortions. The use of genetic linkage data to further the genetic and evolutionary knowledge of the genus Musa, as well as to help improve the design of breeding strategies, is discussed.

  4. Cloning and sequence analysis of banana streak virus DNA.

    PubMed

    Harper, G; Hull, R

    1998-01-01

    Banana streak virus (BSV), a member of the Badnavirus group of plant viruses, causes severe problems in banana cultivation, reducing fruit yield and restricting plant breeding and the movement of germplasm. Current detection methods are relatively insensitive. In order to develop a PCR-based diagnostic method that is both reliable and sensitive, the genome of a Nigerian isolate of BSV has been sequenced and shown to comprise 7389 bp and to be organized in a manner characteristic of badnaviruses. Comparison of this sequence with those of other badnaviruses showed that BSV is a distinct virus. PCR with primers based on sequence data indicated that BSV sequences are present in the banana genome.

  5. Suitability Analysis and Projected Climate Change Impact on Banana and Coffee Production Zones in Nepal.

    PubMed

    Ranjitkar, Sailesh; Sujakhu, Nani M; Merz, Juerg; Kindt, Roeland; Xu, Jianchu; Matin, Mir A; Ali, Mostafa; Zomer, Robert J

    The Government of Nepal has identified opportunities in agricultural commercialization, responding to a growing internal demand and expansion of export markets to reduce the immense trade deficit. Several cash crops, including coffee and bananas, have been identified in the recently approved Agriculture Development Strategy. Both of these crops have encouraged smallholder farmers to convert their subsistence farming practices to more commercial cultivation. Identification of suitable agro-ecological zones and understanding climate-related issues are important for improved production and livelihoods of smallholder farmers. Here, the suitability of coffee and banana crops is analyzed for different agro-ecological zones represented by Global Environmental Stratification (GEnS). Future shifts in these suitability zones are also predicted. Plantation sites in Nepal were geo-referenced and used as input in species distribution modelling. The multi-model ensemble model suggests that climate change will reduce the suitable growing area for coffee by about 72% across the selected emission scenarios from now to 2050. Impacts are low for banana growing, with a reduction in suitability by about 16% by 2050. Bananas show a lot of potential for playing an important role in Nepal as a sustainable crop in the context of climate change, as this study indicates that the amount of area suited to banana growing will grow by 40% by 2050. Based on our analysis we recommend possible new locations for coffee plantations and one method for mitigating climate change-related problems on existing plantations. These findings are expected to support planning and policy dialogue for mitigation and support better informed and scientifically based decision-making relating to these two crops.

  6. Suitability Analysis and Projected Climate Change Impact on Banana and Coffee Production Zones in Nepal

    PubMed Central

    Sujakhu, Nani M.; Merz, Juerg; Kindt, Roeland; Xu, Jianchu; Matin, Mir A.; Ali, Mostafa; Zomer, Robert J.

    2016-01-01

    The Government of Nepal has identified opportunities in agricultural commercialization, responding to a growing internal demand and expansion of export markets to reduce the immense trade deficit. Several cash crops, including coffee and bananas, have been identified in the recently approved Agriculture Development Strategy. Both of these crops have encouraged smallholder farmers to convert their subsistence farming practices to more commercial cultivation. Identification of suitable agro-ecological zones and understanding climate-related issues are important for improved production and livelihoods of smallholder farmers. Here, the suitability of coffee and banana crops is analyzed for different agro-ecological zones represented by Global Environmental Stratification (GEnS). Future shifts in these suitability zones are also predicted. Plantation sites in Nepal were geo-referenced and used as input in species distribution modelling. The multi-model ensemble model suggests that climate change will reduce the suitable growing area for coffee by about 72% across the selected emission scenarios from now to 2050. Impacts are low for banana growing, with a reduction in suitability by about 16% by 2050. Bananas show a lot of potential for playing an important role in Nepal as a sustainable crop in the context of climate change, as this study indicates that the amount of area suited to banana growing will grow by 40% by 2050. Based on our analysis we recommend possible new locations for coffee plantations and one method for mitigating climate change-related problems on existing plantations. These findings are expected to support planning and policy dialogue for mitigation and support better informed and scientifically based decision-making relating to these two crops. PMID:27689354

  7. Prototheca associated with banana.

    PubMed

    Pore, R S

    1985-06-01

    Prototheca stagnora was found to be a habitant of older harvested banana (Musa sapientum) and plantain (M. paradisiaca) stumps while P. wickerhamii colonized fresh Musa sp. stumps and flower bract water of Heliconia sp. While Prototheca sp. were known to habituate woody plants, this is the first evidence that herbaceous plants also serve as habitats.

  8. Vitamin A Activity of Rice-based Weaning Foods Enriched with Germinated Cowpea Flour, Banana, Pumpkin and Milk Powder.

    PubMed

    Hashim, N; Pongjata, J

    2000-03-01

    The objective of this study was to identify the effect of different drying methods on vitamin A activity of formulated weaning food. Weaned foods on vitamin A activity of formulated using treated cowpea flour, locally available rice flour, banana-pumpkin, skim milk powder and sugar in the ratio 35:35:15:15:5. Treated cowpea flour consisted of original cowpea flour, 24 h germinated cowpea flour. Each treated flour was mixed separately with the other ingredients and cooked into a slurry. Each mixture was either oven-dried or freeze-dried to produce a dry flaky mixture. The carotenoid composition of the product was determined by HPLC. Vitamin A activity of oven-dried weaning food was significantly reduced (p<0.05) compared to freeze-dried weaning food. The freeze-dried weaning foods showed a higher retinol equivalent than oven-dried weaning foods for all treatments. The results of the study found that an intake of 100 g of freeze-dried weaning foods enriched with banana-pumpkin and cowpea flour provided an adequate amount of the recommended daily allowance (RDA) of vitamin A for infants.

  9. Dynamic headspace solid-phase microextraction combined with one-dimensional gas chromatography-mass spectrometry as a powerful tool to differentiate banana cultivars based on their volatile metabolite profile.

    PubMed

    Pontes, Marisela; Pereira, Jorge; Câmara, José S

    2012-10-15

    In this study the effect of the cultivar on the volatile profile of five different banana varieties was evaluated and determined by dynamic headspace solid-phase microextraction (dHS-SPME) combined with one-dimensional gas chromatography-mass spectrometry (1D-GC-qMS). This approach allowed the definition of a volatile metabolite profile to each banana variety and can be used as pertinent criteria of differentiation. The investigated banana varieties (Dwarf Cavendish, Prata, Maçã, Ouro and Platano) have certified botanical origin and belong to the Musaceae family, the most common genomic group cultivated in Madeira Island (Portugal). The influence of dHS-SPME experimental factors, namely, fibre coating, extraction time and extraction temperature, on the equilibrium headspace analysis was investigated and optimised using univariate optimisation design. A total of 68 volatile organic metabolites (VOMs) were tentatively identified and used to profile the volatile composition in different banana cultivars, thus emphasising the sensitivity and applicability of SPME for establishment of the volatile metabolomic pattern of plant secondary metabolites. Ethyl esters were found to comprise the largest chemical class accounting 80.9%, 86.5%, 51.2%, 90.1% and 6.1% of total peak area for Dwarf Cavendish, Prata, Ouro, Maçã and Platano volatile fraction, respectively. Gas chromatographic peak areas were submitted to multivariate statistical analysis (principal component and stepwise linear discriminant analysis) in order to visualise clusters within samples and to detect the volatile metabolites able to differentiate banana cultivars. The application of the multivariate analysis on the VOMs data set resulted in predictive abilities of 90% as evaluated by the cross-validation procedure.

  10. Characterisation of Colletotrichum Species Associated with Anthracnose of Banana

    PubMed Central

    Zakaria, Latiffah; Sahak, Shamsiah; Zakaria, Maziah; Salleh, Baharuddin

    2009-01-01

    A total of 13 Colletotrichum isolates were obtained from different banana cultivars (Musa spp.) with symptoms of anthracnose. Colletotrichum isolates from anthracnose of guava (Psidium guajava) and water apple (Syzygium aqueum) were also included in this study. Based on cultural and morphological characteristics, isolates from banana and guava were identified as Colletotrichum musae and from water apple as Colletotrichum gloeosporiodes. Isolates of C. musae from banana and guava had similar banding patterns in a randomly amplified polymorphic DNA (RAPD) analysis with four random primers, and they clustered together in a UPGMA analysis. C. gloeosporiodes from water apple was clustered in a separate cluster. Based on the present study, C. musae was frequently isolated from anthracnose of different banana cultivars and the RAPD banding patterns of C. musae isolates were highly similar but showed intraspecific variations. PMID:24575184

  11. Banana Dehydration Utilizing Infrared Radiation

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The enzyme of polyphenol oxidase (PPO) has been found to be the main cause of browning in bananas. Infrared radiation (IR) drying could be used to minimize biochemical degradation hence eliminating the need for pre-treatments. This study was to investigate quality characteristics of bananas dried ...

  12. Banana Gold: Problem or Solution?

    ERIC Educational Resources Information Center

    Joseph, Garnet

    1992-01-01

    Since 1955, the British banana industry has dominated the lives of the Caribs and other peoples in Dominica. Banana growing supplants other economic activities, including local food production; toxic chemicals and fertilizers pollute the land; community is dwindling; suicide is common; and child labor diminishes school attendance. (SV)

  13. Combating the Sigatoka disease complex on banana

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Banana is the fourth most important staple food in the world behind rice, wheat and maize, with more than 100 million tons produced annually. Although the majority of bananas produced are consumed locally, banana export is a multi-billion dollar business. Bananas are grown in more than 100 countri...

  14. Characterization of a new pathovar of Agrobacterium vitis causing banana leaf blight in China.

    PubMed

    Huang, Siliang; Long, Mengling; Fu, Gang; Lin, Shanhai; Qin, Liping; Hu, Chunjin; Cen, Zhenlu; Lu, Jie; Li, Qiqin

    2015-01-01

    A new banana leaf blight was found in Nanning city, China, during a 7-year survey (2003-2009) of the bacterial diseases on banana plants. Eight bacterial strains were isolated from affected banana leaves, and identified as an intraspecific taxon of Agrobacterium vitis based on their 16S rDNA sequence similarities with those of 37 randomly selected bacterial strains registered in GenBank database. The representative strain Ag-1 was virulent on banana leaves and shared similar growth and biochemical reactions with the reference strain IAM14140 of A. vitis. The strains causing banana leaf blight were denominated as A. vitis pv. musae. The traditional A. vitis strains virulent to grapevines were proposed to be revised as A. vitis pv. vitis. This is the first record of a new type of A. vitis causing banana leaf blight in China.

  15. Protocol for simultaneous isolation of three important banana allergens.

    PubMed

    Nikolic, Jasna; Mrkic, Ivan; Grozdanovic, Milica; Popovic, Milica; Petersen, Arnd; Jappe, Uta; Gavrovic-Jankulovic, Marija

    2014-07-01

    Banana fruit (Musa acuminata) has become an important food allergen source in recent years. So far, 5 IgE reactive banana proteins have been identified, and the major allergens are: Mus a 2 (a class I chitinase, 31kDa), Mus a 4 (thaumatin-like protein, 21kDa), and Mus a 5 (β-1,3-glucanase, 33kDa). Due to variations in allergen expression levels, diagnostic reagents for food allergy can be improved by using individual allergen components instead of banana allergen extracts. The purpose of this study was to optimize the purification protocol of the three major allergens present in banana fruit: Mus a 2, Mus a 4 and Mus a 5. By employing a three-step purification protocol (a combination of anion-exchange, cation-exchange and reversed-phase chromatography) three important banana allergens were obtained in sufficient yield and high purity. Characterization of the purified proteins was performed by both biochemical (2-D PAGE, mass fingerprint and N-terminal sequencing) and immunochemical (immunoblot) methods. IgE reactivity to the purified allergens was tested by employing sera of five allergic patients. The purified allergens displayed higher sensitivity in IgE detection than the routinely used extracts. The three purified allergens are good candidates for reagents in component-based diagnosis of banana allergy.

  16. Degradation of Methyldopa by Banana.

    PubMed

    Uesawa, Yoshihiro; Mohri, Kiminori

    2010-03-02

    Methyldopa, an antihypertensive, is a very close analogue of DOPA. Drug interaction accompanied by degradation in a banana juice mixture was reported for DOPA. However, the effect of banana on methyldopa has not been reported. Therefore, we have investigated the impact of banana juice on methyldopa. The drug and supernatant of banana pulp were mixed, and the mixture was observed for changes in color, drug concentration, and ultraviolet-visible absorption spectra at 30 °C. The originally clear and colorless mixture started to acquire a yellow coloration after about 30 seconds after the mixing. The color tone increasingly deepened, then blistered solid particles that do not dissolve were observed after 3 hours. Concentration of methyldopa in the mixture decreased by 60% after 5 min, to 0.5% after 30 min of the mixing. From these findings, it was suggested that the drastic alterations were caused by banana polyphenol oxidase that plays a role in the biosynthesis of melanin pigment from levodopa in banana pulp. Because the degradation of methyldopa occurs extremely fast, it was suggested concomitant use of this anti-hypertensive and banana juice consumption should be avoided in clinical practice.

  17. Carotenoid-rich bananas: a potential food source for alleviating vitamin A deficiency.

    PubMed

    Englberger, Lois; Darnton-Hill, Ian; Coyne, Terry; Fitzgerald, Maureen H; Marks, Geoffrey C

    2003-12-01

    This review article points out that bananas are an important food for many people in the world. Thus, banana cultivars rich in provitamin A carotenoids may offer a potential food source for alleviating vitamin A deficiency, particularly in developing countries. Many factors are associated with the presently known food sources of vitamin A that limit their effectiveness in improving vitamin A status. Acceptable carotenoid-rich banana cultivars have been identified in Micronesia, and some carotenoid-rich bananas have been identified elsewhere. Bananas are an ideal food for young children and families for many regions of the world, because of their sweetness, texture, portion size, familiarity, availability, convenience, versatility, and cost. Foods containing high levels of carotenoids have been shown to protect against chronic disease, including certain cancers, cardiovascular disease, and diabetes. Because the coloration of the edible flesh of the banana appears to be a good indicator of likely carotenoid content, it may be possible to develop a simple method for selecting carotenoid-rich banana cultivars in the community. Research is needed on the identification of carotenoid-rich cultivars, targeting those areas of the world where bananas are a major staple food; investigating factors affecting production, consumption, and acceptability; and determining the impact that carotenoid-rich bananas may have on improving vitamin A status. Based on these results, interventions should be undertaken for initiating or increasing homestead and commercial production.

  18. Genetic dissimilarity of putative gamma-ray-induced 'Preciosa-AAAB-Pome type' banana (Musa sp) mutants based on multivariate statistical analysis.

    PubMed

    Pestana, R K N; Amorim, E P; Ferreira, C F; Amorim, V B O; Oliveira, L S; Ledo, C A S; Silva, S O

    2011-10-25

    Bananas are among the most important fruit crops worldwide, being cultivated in more than 120 countries, mainly by small-scale producers. However, short-stature high-yielding bananas presenting good agronomic characteristics are hard to find. Consequently, wind continues to damage a great number of plantations each year, leading to lodging of plants and bunch loss. Development of new cultivars through conventional genetic breeding methods is hindered by female sterility and the low number of seeds. Mutation induction seems to have great potential for the development of new cultivars. We evaluated genetic dissimilarity among putative 'Preciosa' banana mutants generated by gamma-ray irradiation, using morphoagronomic characteristics and ISSR markers. The genetic distances between the putative 'Preciosa' mutants varied from 0.21 to 0.66, with a cophenetic correlation coefficient of 0.8064. We found good variability after irradiation of 'Preciosa' bananas; this procedure could be useful for banana breeding programs aimed at developing short-stature varieties with good agronomic characteristics.

  19. Pervaporation of ethanol produced from banana waste.

    PubMed

    Bello, Roger Hoel; Linzmeyer, Poliana; Franco, Cláudia Maria Bueno; Souza, Ozair; Sellin, Noeli; Medeiros, Sandra Helena Westrupp; Marangoni, Cintia

    2014-08-01

    Banana waste has the potential to produce ethanol with a low-cost and sustainable production method. The present work seeks to evaluate the separation of ethanol produced from banana waste (rejected fruit) using pervaporation with different operating conditions. Tests were carried out with model solutions and broth with commercial hollow hydrophobic polydimethylsiloxane membranes. It was observed that pervaporation performance for ethanol/water binary mixtures was strongly dependent on the feed concentration and operating temperature with ethanol concentrations of 1-10%; that an increase of feed flow rate can enhance the permeation rate of ethanol with the water remaining at almost the same value; that water and ethanol fluxes was increased with the temperature increase; and that the higher effect in flux increase was observed when the vapor pressure in the permeate stream was close to the ethanol vapor pressure. Better results were obtained with fermentation broth than with model solutions, indicated by the permeance and membrane selectivity. This could be attributed to by-products present in the multicomponent mixtures, facilitating the ethanol permeability. By-products analyses show that the presence of lactic acid increased the hydrophilicity of the membrane. Based on this, we believe that pervaporation with hollow membrane of ethanol produced from banana waste is indeed a technology with the potential to be applied.

  20. Image analysis to evaluate the browning degree of banana (Musa spp.) peel.

    PubMed

    Cho, Jeong-Seok; Lee, Hyeon-Jeong; Park, Jung-Hoon; Sung, Jun-Hyung; Choi, Ji-Young; Moon, Kwang-Deog

    2016-03-01

    Image analysis was applied to examine banana peel browning. The banana samples were divided into 3 treatment groups: no treatment and normal packaging (Cont); CO2 gas exchange packaging (CO); normal packaging with an ethylene generator (ET). We confirmed that the browning of banana peels developed more quickly in the CO group than the other groups based on sensory test and enzyme assay. The G (green) and CIE L(∗), a(∗), and b(∗) values obtained from the image analysis sharply increased or decreased in the CO group. And these colour values showed high correlation coefficients (>0.9) with the sensory test results. CIE L(∗)a(∗)b(∗) values using a colorimeter also showed high correlation coefficients but comparatively lower than those of image analysis. Based on this analysis, browning of the banana occurred more quickly for CO2 gas exchange packaging, and image analysis can be used to evaluate the browning of banana peels.

  1. The influence of crop management on banana weevil, Cosmopolites sordidus (Coleoptera: Curculionidae) populations and yield of highland cooking banana (cv. Atwalira) in Uganda.

    PubMed

    Rukazambuga, N D T M; Gold, C S; Gowen, S R; Ragama, P

    2002-10-01

    A field study was undertaken in Uganda using highland cooking banana (cv. Atwalira) to test the hypothesis that bananas grown under stressed conditions are more susceptible to attack by Cosmopolites sordidus (Germar). Four banana treatments were employed to create different levels of host-plant vitality: (1) high stress: intercrop with finger millet; (2) moderate stress: monoculture without soil amendments; (3) low stress: monoculture with manure; (4) high vigour: monoculture with continuous mulch and manure. Adult C. sordidus were released at the base of banana mats 11 months after planting and populations were monitored for three years using mark and recapture methods. Cosmopolites sordidus density was greatest in the mulched plots which may have reflected increased longevity and/or longer tenure time in moist soils. Lowest C. sordidus numbers were found in intercropped banana. Damage, estimated as percentage corm tissue consumed by larvae, was similar among treatments. However, the total amount of tissue consumed was greater in mulched banana than in other systems. Plants supporting the heaviest levels of C. sordidus damage displayed bunch size reductions of 40-55%. Banana yield losses ranged from 14-20% per plot with similar levels in the intercropped and mulched systems. Yield reductions, reported as t ha-1, were twice as high in the mulched system as in the intercrop. The results from this study indicate that C. sordidus problems are not confined to stressed banana systems or those with low levels of management, but that the weevil can also attain pest status in well-managed and productive banana stands.

  2. The banana E2 gene family: Genomic identification, characterization, expression profiling analysis.

    PubMed

    Dong, Chen; Hu, Huigang; Jue, Dengwei; Zhao, Qiufang; Chen, Hongliang; Xie, Jianghui; Jia, Liqiang

    2016-04-01

    The E2 is at the center of a cascade of Ub1 transfers, and it links activation of the Ub1 by E1 to its eventual E3-catalyzed attachment to substrate. Although the genome-wide analysis of this family has been performed in some species, little is known about analysis of E2 genes in banana. In this study, 74 E2 genes of banana were identified and phylogenetically clustered into thirteen subgroups. The predicted banana E2 genes were distributed across all 11 chromosomes at different densities. Additionally, the E2 domain, gene structure and motif compositions were analyzed. The expression of all of the banana E2 genes was analyzed in the root, stem, leaf, flower organs, five stages of fruit development and under abiotic stresses. All of the banana E2 genes, with the exception of few genes in each group, were expressed in at least one of the organs and fruit developments, which indicated that the E2 genes might involve in various aspects of the physiological and developmental processes of the banana. Quantitative RT-PCR (qRT-PCR) analysis identified that 45 E2s under drought and 33 E2s under salt were induced. To the best of our knowledge, this report describes the first genome-wide analysis of the banana E2 gene family, and the results should provide valuable information for understanding the classification, cloning and putative functions of this family.

  3. 7 CFR 318.13-22 - Bananas from Hawaii.

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... From Hawaii and the Territories § 318.13-22 Bananas from Hawaii. (a) Green bananas (Musa spp.) of the... picked while green and packed for shipment within 24 hours after harvest. If the green bananas will be... bananas in a cluster of otherwise green bananas) may be harvested or packed for shipment; (3) The...

  4. 7 CFR 318.13-22 - Bananas from Hawaii.

    Code of Federal Regulations, 2014 CFR

    2014-01-01

    ... From Hawaii and the Territories § 318.13-22 Bananas from Hawaii. (a) Green bananas (Musa spp.) of the... picked while green and packed for shipment within 24 hours after harvest. If the green bananas will be... bananas in a cluster of otherwise green bananas) may be harvested or packed for shipment; (3) The...

  5. 7 CFR 318.13-22 - Bananas from Hawaii.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... From Hawaii and the Territories § 318.13-22 Bananas from Hawaii. (a) Green bananas (Musa spp.) of the... picked while green and packed for shipment within 24 hours after harvest. If the green bananas will be... bananas in a cluster of otherwise green bananas) may be harvested or packed for shipment; (3) The...

  6. 7 CFR 318.13-22 - Bananas from Hawaii.

    Code of Federal Regulations, 2012 CFR

    2012-01-01

    ... From Hawaii and the Territories § 318.13-22 Bananas from Hawaii. (a) Green bananas (Musa spp.) of the... picked while green and packed for shipment within 24 hours after harvest. If the green bananas will be... bananas in a cluster of otherwise green bananas) may be harvested or packed for shipment; (3) The...

  7. 7 CFR 318.13-22 - Bananas from Hawaii.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... From Hawaii and the Territories § 318.13-22 Bananas from Hawaii. (a) Green bananas (Musa spp.) of the... picked while green and packed for shipment within 24 hours after harvest. If the green bananas will be... bananas in a cluster of otherwise green bananas) may be harvested or packed for shipment; (3) The...

  8. Genome-Wide Identification, Phylogeny, and Expression Analyses of the 14-3-3 Family Reveal Their Involvement in the Development, Ripening, and Abiotic Stress Response in Banana

    PubMed Central

    Li, Meiying; Ren, Licheng; Xu, Biyu; Yang, Xiaoliang; Xia, Qiyu; He, Pingping; Xiao, Susheng; Guo, Anping; Hu, Wei; Jin, Zhiqiang

    2016-01-01

    Plant 14-3-3 proteins act as critical components of various cellular signaling processes and play an important role in regulating multiple physiological processes. However, less information is known about the 14-3-3 gene family in banana. In this study, 25 14-3-3 genes were identified from the banana genome. Based on the evolutionary analysis, banana 14-3-3 proteins were clustered into ε and non-ε groups. Conserved motif analysis showed that all identified banana 14-3-3 genes had the typical 14-3-3 motif. The gene structure of banana 14-3-3 genes showed distinct class-specific divergence between the ε group and the non-ε group. Most banana 14-3-3 genes showed strong transcript accumulation changes during fruit development and postharvest ripening in two banana varieties, indicating that they might be involved in regulating fruit development and ripening. Moreover, some 14-3-3 genes also showed great changes after osmotic, cold, and salt treatments in two banana varieties, suggested their potential role in regulating banana response to abiotic stress. Taken together, this systemic analysis reveals the involvement of banana 14-3-3 genes in fruit development, postharvest ripening, and response to abiotic stress and provides useful information for understanding the functions of 14-3-3 genes in banana. PMID:27713761

  9. Genome-Wide Identification and Expression Analyses of Aquaporin Gene Family during Development and Abiotic Stress in Banana.

    PubMed

    Hu, Wei; Hou, Xiaowan; Huang, Chao; Yan, Yan; Tie, Weiwei; Ding, Zehong; Wei, Yunxie; Liu, Juhua; Miao, Hongxia; Lu, Zhiwei; Li, Meiying; Xu, Biyu; Jin, Zhiqiang

    2015-08-20

    Aquaporins (AQPs) function to selectively control the flow of water and other small molecules through biological membranes, playing crucial roles in various biological processes. However, little information is available on the AQP gene family in bananas. In this study, we identified 47 banana AQP genes based on the banana genome sequence. Evolutionary analysis of AQPs from banana, Arabidopsis, poplar, and rice indicated that banana AQPs (MaAQPs) were clustered into four subfamilies. Conserved motif analysis showed that all banana AQPs contained the typical AQP-like or major intrinsic protein (MIP) domain. Gene structure analysis suggested the majority of MaAQPs had two to four introns with a highly specific number and length for each subfamily. Expression analysis of MaAQP genes during fruit development and postharvest ripening showed that some MaAQP genes exhibited high expression levels during these stages, indicating the involvement of MaAQP genes in banana fruit development and ripening. Additionally, some MaAQP genes showed strong induction after stress treatment and therefore, may represent potential candidates for improving banana resistance to abiotic stress. Taken together, this study identified some excellent tissue-specific, fruit development- and ripening-dependent, and abiotic stress-responsive candidate MaAQP genes, which could lay a solid foundation for genetic improvement of banana cultivars.

  10. Genome-Wide Identification and Expression Analyses of Aquaporin Gene Family during Development and Abiotic Stress in Banana

    PubMed Central

    Hu, Wei; Hou, Xiaowan; Huang, Chao; Yan, Yan; Tie, Weiwei; Ding, Zehong; Wei, Yunxie; Liu, Juhua; Miao, Hongxia; Lu, Zhiwei; Li, Meiying; Xu, Biyu; Jin, Zhiqiang

    2015-01-01

    Aquaporins (AQPs) function to selectively control the flow of water and other small molecules through biological membranes, playing crucial roles in various biological processes. However, little information is available on the AQP gene family in bananas. In this study, we identified 47 banana AQP genes based on the banana genome sequence. Evolutionary analysis of AQPs from banana, Arabidopsis, poplar, and rice indicated that banana AQPs (MaAQPs) were clustered into four subfamilies. Conserved motif analysis showed that all banana AQPs contained the typical AQP-like or major intrinsic protein (MIP) domain. Gene structure analysis suggested the majority of MaAQPs had two to four introns with a highly specific number and length for each subfamily. Expression analysis of MaAQP genes during fruit development and postharvest ripening showed that some MaAQP genes exhibited high expression levels during these stages, indicating the involvement of MaAQP genes in banana fruit development and ripening. Additionally, some MaAQP genes showed strong induction after stress treatment and therefore, may represent potential candidates for improving banana resistance to abiotic stress. Taken together, this study identified some excellent tissue-specific, fruit development- and ripening-dependent, and abiotic stress-responsive candidate MaAQP genes, which could lay a solid foundation for genetic improvement of banana cultivars. PMID:26307965

  11. Collective prediction based on community structure

    NASA Astrophysics Data System (ADS)

    Jiang, Yasong; Li, Taisong; Zhang, Yan; Yan, Yonghong

    2017-01-01

    Collective prediction algorithms have been used to improve performances when network structures are involved in prediction tasks. The training dataset of such tasks often contain information of content, links and labels, while the testing dataset have only content and link information. Conventional collective prediction algorithms conduct predictions based on the content of a node and the information of its direct neighbors with a base classifier. However, the information of some direct neighbor nodes may be not consistent with the target one. In addition, the information of indirect neighbors can be helpful when that of direct neighbors is scant. In this paper, instead of using information of direct neighbors, we propose to apply community structures in networks to prediction tasks. A community detection method is aggregated into the collective prediction process to improve prediction performance. Experimental results show that the proposed algorithm outperforms a number of standard prediction algorithms specially under conditions that labeled training dataset are limited.

  12. Antioxidant activity of banana flavonoids.

    PubMed

    Vijayakumar, S; Presannakumar, G; Vijayalakshmi, N R

    2008-06-01

    The antioxidant activity of flavonoids from banana (Musa paradisiaca) was studied in rats fed normal as well as high fat diets. Concentrations of peroxidation products namely malondialdehyde, hydroperoxides and conjugated diens were significantly decreased whereas the activities of catalase and superoxide dismutase were enhanced significantly. Concentrations of glutathione were also elevated in the treated animals.

  13. Biochemical and molecular tools reveal two diverse Xanthomonas groups in bananas.

    PubMed

    Adriko, J; Aritua, V; Mortensen, C N; Tushemereirwe, W K; Mulondo, A L; Kubiriba, J; Lund, O S

    2016-02-01

    Xanthomonas campestris pv. musacearum (Xcm) causing the banana Xanthomonas wilt (BXW) disease has been the main xanthomonad associated with bananas in East and Central Africa based on phenotypic and biochemical characteristics. However, biochemical methods cannot effectively distinguish between pathogenic and non-pathogenic xanthomonads. In this study, gram-negative and yellow-pigmented mucoid bacteria were isolated from BXW symptomatic and symptomless bananas collected from different parts of Uganda. Biolog, Xcm-specific (GspDm), Xanthomonas vasicola species-specific (NZ085) and Xanthomonas genus-specific (X1623) primers in PCR, and sequencing of ITS region were used to identify and characterize the isolates. Biolog tests revealed several isolates as xanthomonads. The GspDm and NZ085 primers accurately identified three isolates from diseased bananas as Xcm and these were pathogenic when re-inoculated into bananas. DNA from more isolates than those amplified by GspDm and NZ085 primers were amplified by the X1623 primers implying they are xanthomonads, these were however non-pathogenic on bananas. In the 16-23 ITS sequence based phylogeny, the pathogenic bacteria clustered together with the Xcm reference strain, while the non-pathogenic xanthomonads isolated from both BXW symptomatic and symptomless bananas clustered with group I xanthomonads. The findings reveal dynamic Xanthomonas populations in bananas, which can easily be misrepresented by only using phenotyping and biochemical tests. A combination of tools provides the most accurate identity and characterization of these plant associated bacteria. The interactions between the pathogenic and non-pathogenic xanthomonads in bananas may pave way to understanding effect of microbial interactions on BXW disease development and offer clues to biocontrol of Xcm.

  14. Basis for the development of a scenario for ground water risk assessment of plant protection products to banana crop in the frame work of regulation 1107/2009

    NASA Astrophysics Data System (ADS)

    Alonso-Prados, Elena; Fernández-Getino, Ana Patricia; Alonso-Prados, Jose Luis

    2014-05-01

    The risk assessment to ground water of pesticides and their main metabolites is a data requirement under regulation 1107/2009, concerning the placing of plant protection products on the market. Predicted environmental concentrations (PEC) are calculated according to the recommendations of Forum for the Co-ordination of pesticide fate models and Their Use (FOCUS). The FOCUS groundwater working group developed scenarios for the main crops in European Union. However there are several crops which grow under specific agro-environmental conditions not covered by these scenarios and it is frequent to use the defined scenarios as surrogates. This practice adds an uncertainty factor in the risk assessment. One example is represented by banana crop which in Europe is limited to sub-tropical environmental conditions and with specific agronomic practices. The Canary Islands concentrates the higher production of banana in the European Union characterized by volcanic soils. Banana is located at low altitudes where soils have been eroded or degraded, and it is a common practice to transport soil materials from the high-mid altitudes to the low lands for cultivation. These cultivation plots are locally named "sorribas". These volcanic soils, classified as Andosols according to the FAO classification, have special physico-chemical properties due to noncrystalline materials and layer silicates. The good stability of these soils and their high permeability to water make them relatively resistant to water erosion. Physical properties of volcanic clayey soils are strongly affected by allophone and Fe and Al oxyhidroxides. The rapid weathering of porous volcanic material results in accumulation of stable organo-mineral complexes and short-range-order mineral such as allophane, imogolite and ferrihydrite. These components induce strong aggregation that partly favors properties such as: reduced swelling, increased aggregate stability of clay minerals, high soil water retention capacity

  15. Transgenic banana plants expressing small interfering RNAs targeted against viral replication initiation gene display high-level resistance to banana bunchy top virus infection.

    PubMed

    Shekhawat, Upendra K S; Ganapathi, Thumballi R; Hadapad, Ashok B

    2012-08-01

    The banana aphid-transmitted Banana bunchy top virus (BBTV) is the most destructive viral pathogen of bananas and plantains worldwide. Lack of natural sources of resistance to BBTV has necessitated the exploitation of proven transgenic technologies for obtaining BBTV-resistant banana cultivars. In this study, we have explored the concept of using intron-hairpin-RNA (ihpRNA) transcripts corresponding to viral master replication initiation protein (Rep) to generate BBTV-resistant transgenic banana plants. Two ihpRNA constructs namely ihpRNA-Rep and ihpRNA-ProRep generated using Rep full coding sequence or Rep partial coding sequence together with its 5' upstream regulatory region, respectively, and castor bean catalase intron were successfully transformed into banana embryogenic cells. ihpRNA-Rep- and ihpRNA-ProRep-derived transgenic banana plants, selected based on preliminary screening for efficient reporter gene expression, were completely resistant to BBTV infection as indicated by the absence of disease symptoms after 6 months of viruliferous aphid inoculation. The resistance to BBTV infection was also evident by the inability to detect cDNAs coding for viral coat protein, movement protein and Rep protein by RT-PCR from inoculated transgenic leaf extracts. Southern analysis of the two groups of transgenics showed that ihpRNA transgene was stably integrated into the banana genome. The detection of small interfering RNAs (siRNAs) derived from the ihpRNA transgene sequence in transformed BBTV-resistant plants positively established RNA interference as the mechanism underlying the observed resistance to BBTV. Efficient screening of optimal transformants in this vegetatively propagated non-segregating fruit crop ensured that all the transgenic plants assayed were resistant to BBTV infection.

  16. Production of ethyl alcohol from bananas

    SciTech Connect

    Jones, R.L.; Towns, T.

    1983-12-01

    The production of ethyl alcohol from waste bananas presents many special problems. During cooking, matting of the latex fibers from the banana peel recongeal when cooled and left untreated. This problem has been addressed by Alfaro by the use of CaC1/sub 2/. Separation of solids prior to distillation of the mashes in an economical fashion and use of the by product are also of concern to banana processors.

  17. 33 CFR 117.263 - Banana River.

    Code of Federal Regulations, 2013 CFR

    2013-07-01

    ... 33 Navigation and Navigable Waters 1 2013-07-01 2013-07-01 false Banana River. 117.263 Section 117.263 Navigation and Navigable Waters COAST GUARD, DEPARTMENT OF HOMELAND SECURITY BRIDGES DRAWBRIDGE OPERATION REGULATIONS Specific Requirements Florida § 117.263 Banana River. (a) The draw of the Mathers...

  18. 33 CFR 117.263 - Banana River.

    Code of Federal Regulations, 2012 CFR

    2012-07-01

    ... 33 Navigation and Navigable Waters 1 2012-07-01 2012-07-01 false Banana River. 117.263 Section 117.263 Navigation and Navigable Waters COAST GUARD, DEPARTMENT OF HOMELAND SECURITY BRIDGES DRAWBRIDGE OPERATION REGULATIONS Specific Requirements Florida § 117.263 Banana River. (a) The draw of the Mathers...

  19. 33 CFR 117.263 - Banana River.

    Code of Federal Regulations, 2014 CFR

    2014-07-01

    ... 33 Navigation and Navigable Waters 1 2014-07-01 2014-07-01 false Banana River. 117.263 Section 117.263 Navigation and Navigable Waters COAST GUARD, DEPARTMENT OF HOMELAND SECURITY BRIDGES DRAWBRIDGE OPERATION REGULATIONS Specific Requirements Florida § 117.263 Banana River. (a) The draw of the Mathers...

  20. 33 CFR 117.263 - Banana River.

    Code of Federal Regulations, 2011 CFR

    2011-07-01

    ... 33 Navigation and Navigable Waters 1 2011-07-01 2011-07-01 false Banana River. 117.263 Section 117.263 Navigation and Navigable Waters COAST GUARD, DEPARTMENT OF HOMELAND SECURITY BRIDGES DRAWBRIDGE OPERATION REGULATIONS Specific Requirements Florida § 117.263 Banana River. (a) The draw of the Mathers...

  1. 33 CFR 117.263 - Banana River.

    Code of Federal Regulations, 2010 CFR

    2010-07-01

    ... 33 Navigation and Navigable Waters 1 2010-07-01 2010-07-01 false Banana River. 117.263 Section 117.263 Navigation and Navigable Waters COAST GUARD, DEPARTMENT OF HOMELAND SECURITY BRIDGES DRAWBRIDGE OPERATION REGULATIONS Specific Requirements Florida § 117.263 Banana River. (a) The draw of the Mathers...

  2. Advances in industrial prospective of cellulosic macromolecules enriched banana biofibre resources: A review.

    PubMed

    Pappu, Asokan; Patil, Vikas; Jain, Sonal; Mahindrakar, Amit; Haque, Ruhi; Thakur, Vijay Kumar

    2015-08-01

    Biological macromolecules enriched resources are rapidly emerging as sustainable, cost effective and environmental friendly materials for several industrial applications. Among different biological macromolecules enriched resources, banana fibres are one of the unexplored high potential bio-resources. Compared to various natural fibres such as jute, coir, palm etc., the banana fibres exhibits a better tensile strength i.e. 458 MPa with 17.14 GPa tensile modulus. Traditionally used petroleum based synthetic fibres have been proven to be toxic, non-biodegradable and energy intensive for manufacturing. Cellulosic banana fibres are potential engineering materials having considerable scope to be used as an environmental friendly reinforcing element for manufacturing of polymer based green materials. This paper summarizes the world scenario of current production of biological macromolecules rich banana residues and fibres; major user's of banana fibres. The quality and quantity of biological macromolecules especially the cellulose, hemicellulose, lignin, wax, engineering and mechanical properties of banana biofibre resources are reported and discussed. Subsequently, the findings of the recent research on bio resource composites, materials performance and opportunities have been discussed which would be a real challenge for the tomorrow world to enhance the livelihood environmental friendly advancement.

  3. Link prediction based on local community properties

    NASA Astrophysics Data System (ADS)

    Yang, Xu-Hua; Zhang, Hai-Feng; Ling, Fei; Cheng, Zhi; Weng, Guo-Qing; Huang, Yu-Jiao

    2016-09-01

    The link prediction algorithm is one of the key technologies to reveal the inherent rule of network evolution. This paper proposes a novel link prediction algorithm based on the properties of the local community, which is composed of the common neighbor nodes of any two nodes in the network and the links between these nodes. By referring to the node degree and the condition of assortativity or disassortativity in a network, we comprehensively consider the effect of the shortest path and edge clustering coefficient within the local community on node similarity. We numerically show the proposed method provide good link prediction results.

  4. Agroforestry leads to shifts within the gammaproteobacterial microbiome of banana plants cultivated in Central America.

    PubMed

    Köberl, Martina; Dita, Miguel; Martinuz, Alfonso; Staver, Charles; Berg, Gabriele

    2015-01-01

    Bananas (Musa spp.) belong to the most important global food commodities, and their cultivation represents the world's largest monoculture. Although the plant-associated microbiome has substantial influence on plant growth and health, there is a lack of knowledge of the banana microbiome and its influencing factors. We studied the impact of (i) biogeography, and (ii) agroforestry on the banana-associated gammaproteobacterial microbiome analyzing plants grown in smallholder farms in Nicaragua and Costa Rica. Profiles of 16S rRNA genes revealed high abundances of Pseudomonadales, Enterobacteriales, Xanthomonadales, and Legionellales. An extraordinary high diversity of the gammaproteobacterial microbiota was observed within the endophytic microenvironments (endorhiza and pseudostem), which was similar in both countries. Enterobacteria were identified as dominant group of above-ground plant parts (pseudostem and leaves). Neither biogeography nor agroforestry showed a statistically significant impact on the gammaproteobacterial banana microbiome in general. However, indicator species for each microenvironment and country, as well as for plants grown in Coffea intercropping systems with and without agri-silvicultural production of different Fabaceae trees (Inga spp. in Nicaragua and Erythrina poeppigiana in Costa Rica) could be identified. For example, banana plants grown in agroforestry systems were characterized by an increase of potential plant-beneficial bacteria, like Pseudomonas and Stenotrophomonas, and on the other side by a decrease of Erwinia. Hence, this study could show that as a result of legume-based agroforestry the indigenous banana-associated gammaproteobacterial community noticeably shifted.

  5. Effect of chitosan coating and bamboo FSC (fruit storage chamber) to expand banana shelf life

    NASA Astrophysics Data System (ADS)

    Pratiwi, Aksarani'Sa; Dwivany, Fenny M.; Larasati, Dwinita; Islamia, Hana Cahya; Martien, Ronny

    2015-09-01

    Chitosan has been widely used as fruit preserver and proven to extend the shelf life of many fruits, such as banana. However, banana producers and many industries in Indonesia still facing storage problems which may lead to mechanical damage of the fruits and ripening acceleration. Therefore, we have designed food storage chamber (FSC) based on bamboo material. Bamboo was selected because of material abundance in Indonesia, economically effective, and not causing an autocatalytic reaction to the ethylene gas produced by the banana. In this research, Cavendish banana that has reached the maturity level of mature green were coated with 1% chitosan and placed inside the FSC. As control treatments, uncoated banana was also placed inside the FSC as well as uncoated banana that were placed at open space. All of the treatments were placed at 25°C temperature and observed for 9 days. Water produced by respiration was reduced by the addition of charcoal inside a fabric pouch. The result showed that treatment using FSC and chitosan can delay ripening process.

  6. [Climatic risk zoning for banana and litchi's chilling injury in South China].

    PubMed

    Li, Na; Huo, Zhi-guo; He, Nan; Xiao, Jing-jing; Wen, Quan-pei

    2010-05-01

    Based on the 1951-2006 climatic observation data from 224 meteorological stations in South China (Guangdong Province, Guangxi Autonomous Region, and Fujian Province) and the historical information about the chilling injury losses of banana and litchi, the accumulated harmful chilling for the processes with minimum daily temperature < or = 5.0 degrees C and more than 3 days was used to indicate the climatic risk of chilling injury during the whole growth season, and an integrated climatic index with the background of climate change was constructed. The maps of geographical distribution of climatic risk probability for each grade chilling injury, and of integrated climatic risk zoning for banana and litchi's chilling injury were drawn, and the spatial variation of climatic risk for banana and litchi's chilling injury was commented. The results indicated that in the study area, climate warming might lead to the decrease of cold resistance of banana and litchi, which could increase the disaster risk of chilling injury. The geographical distribution of climatic risk probability for banana and litchi's chilling injury showed a zonal pattern. According to the integrated climatic risk index, the banana and litchi's chilling injury region was divided into three risk types, i.e., high risk, moderate risk, and low risk, which provided an important basis for the adjustment of agricultural production structure.

  7. Agroforestry leads to shifts within the gammaproteobacterial microbiome of banana plants cultivated in Central America

    PubMed Central

    Köberl, Martina; Dita, Miguel; Martinuz, Alfonso; Staver, Charles; Berg, Gabriele

    2015-01-01

    Bananas (Musa spp.) belong to the most important global food commodities, and their cultivation represents the world's largest monoculture. Although the plant-associated microbiome has substantial influence on plant growth and health, there is a lack of knowledge of the banana microbiome and its influencing factors. We studied the impact of (i) biogeography, and (ii) agroforestry on the banana-associated gammaproteobacterial microbiome analyzing plants grown in smallholder farms in Nicaragua and Costa Rica. Profiles of 16S rRNA genes revealed high abundances of Pseudomonadales, Enterobacteriales, Xanthomonadales, and Legionellales. An extraordinary high diversity of the gammaproteobacterial microbiota was observed within the endophytic microenvironments (endorhiza and pseudostem), which was similar in both countries. Enterobacteria were identified as dominant group of above-ground plant parts (pseudostem and leaves). Neither biogeography nor agroforestry showed a statistically significant impact on the gammaproteobacterial banana microbiome in general. However, indicator species for each microenvironment and country, as well as for plants grown in Coffea intercropping systems with and without agri-silvicultural production of different Fabaceae trees (Inga spp. in Nicaragua and Erythrina poeppigiana in Costa Rica) could be identified. For example, banana plants grown in agroforestry systems were characterized by an increase of potential plant-beneficial bacteria, like Pseudomonas and Stenotrophomonas, and on the other side by a decrease of Erwinia. Hence, this study could show that as a result of legume-based agroforestry the indigenous banana-associated gammaproteobacterial community noticeably shifted. PMID:25717322

  8. Ripening influences banana and plantain peels composition and energy content.

    PubMed

    Emaga, Thomas Happi; Bindelle, Jérôme; Agneesens, Richard; Buldgen, André; Wathelet, Bernard; Paquot, Michel

    2011-01-01

    Musa sp. peels are widely used by smallholders as complementary feeds for cattle in the tropics. A study of the influence of the variety and the maturation stage of the fruit on fermentability and metabolisable energy (ME) content of the peels was performed using banana (Yangambi Km5) and plantain (Big Ebanga) peels at three stages of maturation in an in vitro model of the rumen. Peel samples were analysed for starch, free sugars and fibre composition. Samples were incubated in the presence of rumen fluid. Kinetics of gas production were modelled, ME content was calculated using prediction equation and short-chain fatty acids production and molar ratio were measured after 72 h of fermentation. Final gas production was higher in plantain (269-339 ml g(-1)) compared to banana (237-328 ml g(-1)) and plantain exhibited higher ME contents (8.9-9.7 MJ/kg of dry matter, DM) compared to banana (7.7-8.8 MJ/kg of DM). Butyrate molar ratio decreased with maturity of the peels. The main influence of the variety and the stage of maturation on all fermentation parameters as well as ME contents of the peels was correlated to changes in the carbohydrate fraction of the peels, including starch and fibre.

  9. Optimization-based Dynamic Human Lifting Prediction

    DTIC Science & Technology

    2008-06-01

    Anith Mathai, Steve Beck,Timothy Marler , Jingzhou Yang, Jasbir S. Arora, Karim Abdel-Malek Virtual Soldier Research Program, Center for Computer Aided...Rahmatalla, S., Kim, J., Marler , T., Beck, S., Yang, J., busek, J., Arora, J.S., and Abdel-Malek, K. Optimization-based dynamic human walking prediction

  10. Predicting Learned Helplessness Based on Personality

    ERIC Educational Resources Information Center

    Maadikhah, Elham; Erfani, Nasrollah

    2014-01-01

    Learned helplessness as a negative motivational state can latently underlie repeated failures and create negative feelings toward the education as well as depression in students and other members of a society. The purpose of this paper is to predict learned helplessness based on students' personality traits. The research is a predictive…

  11. Multidisciplinary perspectives on banana (Musa spp.) domestication.

    PubMed

    Perrier, Xavier; De Langhe, Edmond; Donohue, Mark; Lentfer, Carol; Vrydaghs, Luc; Bakry, Frédéric; Carreel, Françoise; Hippolyte, Isabelle; Horry, Jean-Pierre; Jenny, Christophe; Lebot, Vincent; Risterucci, Ange-Marie; Tomekpe, Kodjo; Doutrelepont, Hugues; Ball, Terry; Manwaring, Jason; de Maret, Pierre; Denham, Tim

    2011-07-12

    Original multidisciplinary research hereby clarifies the complex geodomestication pathways that generated the vast range of banana cultivars (cvs). Genetic analyses identify the wild ancestors of modern-day cvs and elucidate several key stages of domestication for different cv groups. Archaeology and linguistics shed light on the historical roles of people in the movement and cultivation of bananas from New Guinea to West Africa during the Holocene. The historical reconstruction of domestication processes is essential for breeding programs seeking to diversify and improve banana cvs for the future.

  12. Detection of episomal banana streak badnavirus by IC-PCR.

    PubMed

    Harper, G; Dahal, G; Thottappilly, G; Hull, R

    1999-04-01

    A polymerase chain reaction (PCR) based strategy to detect episomal banana streak badnavirus (BSV) in banana and plantain plants that carry integrated BSV sequences was developed. Antisera used in immuno-capture polymerase chain reaction (IC-PCR) are capable of binding a large number of BSV serotypes. The primers used for PCR are capable of annealing to and amplifying across the aspartic protease-reverse transcriptase domain boundaries of both episomal and integrated BSV sequences and result in similar or identical sequence size fragments from either template. However, we show that under the conditions selected for IC-PCR, nuclear, mitochondrial or chloroplast genomic sequences are not amplified and thus only captured episomal BSV is amplified. IC-PCR is suitable for the large-scale screening of Musa for episomal BSV which is necessary for germplasm movement.

  13. The diversity of Banana streak virus isolates in Uganda.

    PubMed

    Harper, G; Hart, D; Moult, S; Hull, R; Geering, A; Thomas, J

    2005-12-01

    In a study of the variation among isolates of Banana streak virus (BSV) in Uganda, 140 sequences were obtained from 49 samples by PCR across the conserved reverse transcriptase/RNaseH region of the genome. Pairwise comparison of these sequences suggested that they represented 15 different species and phylogenetic analyses showed that all species fell into three major clades based on 28% sequence difference. In addition to the Ugandan sequences, clade I also contained BSV species that are known as both integrated sequences and episomal viruses; clade II also contained integrated BSV sequences but which have not previously been identified as episomal viruses. Clade III comprised of Sugarcane bacilliform virus isolates and Ugandan BSV sequences and for which there is no evidence of integration. The possible reasons for the extraordinary levels of virus sequence variation and the potential origins and epidemiology of these viruses causing banana streak disease are discussed.

  14. Prediction of rigid silica based insulation conductivity

    NASA Technical Reports Server (NTRS)

    Williams, Stanley D.; Curry, Donald M.

    1993-01-01

    A method is presented for predicting the thermal conductivity of low density, silica based fibrous insulators. It is shown that the method can be used to extend data values to the upper material temperature limits from those obtained from the test data. It is demonstrated that once the conductivity is accurately determined by the analytical model the conductivity for other atmospheres can be predicted. The method is similar to that presented by previous investigators, but differs significantly in the contribution due to gas and internal radiation.

  15. Structure-Based Predictions of Activity Cliffs

    PubMed Central

    Husby, Jarmila; Bottegoni, Giovanni; Kufareva, Irina; Abagyan, Ruben; Cavalli, Andrea

    2015-01-01

    In drug discovery, it is generally accepted that neighboring molecules in a given descriptors' space display similar activities. However, even in regions that provide strong predictability, structurally similar molecules can occasionally display large differences in potency. In QSAR jargon, these discontinuities in the activity landscape are known as ‘activity cliffs’. In this study, we assessed the reliability of ligand docking and virtual ligand screening schemes in predicting activity cliffs. We performed our calculations on a diverse, independently collected database of cliff-forming co-crystals. Starting from ideal situations, which allowed us to establish our baseline, we progressively moved toward simulating more realistic scenarios. Ensemble- and template-docking achieved a significant level of accuracy, suggesting that, despite the well-known limitations of empirical scoring schemes, activity cliffs can be accurately predicted by advanced structure-based methods. PMID:25918827

  16. Plasma Stabilization Based on Model Predictive Control

    NASA Astrophysics Data System (ADS)

    Sotnikova, Margarita

    The nonlinear model predictive control algorithms for plasma current and shape stabilization are proposed. Such algorithms are quite suitable for the situations when the plant to be controlled has essentially nonlinear dynamics. Besides that, predictive model based control algorithms allow to take into account a lot of requirements and constraints involved both on the controlled and manipulated variables. The significant drawback of the algorithms is that they require a lot of time to compute control input at each sampling instant. In this paper the model predictive control algorithms are demonstrated by the example of plasma vertical stabilization for ITER-FEAT tokamak. The tuning of parameters of algorithms is performed in order to decrease computational load.

  17. Highway traffic noise prediction based on GIS

    NASA Astrophysics Data System (ADS)

    Zhao, Jianghua; Qin, Qiming

    2014-05-01

    Before building a new road, we need to predict the traffic noise generated by vehicles. Traditional traffic noise prediction methods are based on certain locations and they are not only time-consuming, high cost, but also cannot be visualized. Geographical Information System (GIS) can not only solve the problem of manual data processing, but also can get noise values at any point. The paper selected a road segment from Wenxi to Heyang. According to the geographical overview of the study area and the comparison between several models, we combine the JTG B03-2006 model and the HJ2.4-2009 model to predict the traffic noise depending on the circumstances. Finally, we interpolate the noise values at each prediction point and then generate contours of noise. By overlaying the village data on the noise contour layer, we can get the thematic maps. The use of GIS for road traffic noise prediction greatly facilitates the decision-makers because of GIS spatial analysis function and visualization capabilities. We can clearly see the districts where noise are excessive, and thus it becomes convenient to optimize the road line and take noise reduction measures such as installing sound barriers and relocating villages and so on.

  18. Space Curvature and the "Heavy Banana 'Paradox.'"

    ERIC Educational Resources Information Center

    Gruber, Ronald P.; And Others

    1991-01-01

    Two ways to visually enhance the concept of space curvature are described. Viewing space curvature as a meterstick contraction and the heavy banana "paradox" are discussed. The meterstick contraction is mathematically explained. (KR)

  19. Saliency-based gaze prediction based on head direction.

    PubMed

    Nakashima, Ryoichi; Fang, Yu; Hatori, Yasuhiro; Hiratani, Akinori; Matsumiya, Kazumichi; Kuriki, Ichiro; Shioiri, Satoshi

    2015-12-01

    Despite decades of attempts to create a model for predicting gaze locations by using saliency maps, a highly accurate gaze prediction model for general conditions has yet to be devised. In this study, we propose a gaze prediction method based on head direction that can improve the accuracy of any model. We used a probability distribution of eye position based on head direction (static eye-head coordination) and added this information to a model of saliency-based visual attention. Using empirical data on eye and head directions while observers were viewing natural scenes, we estimated a probability distribution of eye position. We then combined the relationship between eye position and head direction with visual saliency to predict gaze locations. The model showed that information on head direction improved the prediction accuracy. Further, there was no difference in the gaze prediction accuracy between the two models using information on head direction with and without eye-head coordination. Therefore, information on head direction is useful for predicting gaze location when it is available. Furthermore, this gaze prediction model can be applied relatively easily to many daily situations such as during walking.

  20. Enhanced oxidative stability of fish oil by encapsulating in culled banana resistant starch-soy protein isolate based microcapsules in functional bakery products.

    PubMed

    Nasrin, Taslima Ayesha Aktar; Anal, Anil Kumar

    2015-08-01

    Oil in water emulsions were produced by the mixture of culled banana resistant starch (CBRS) & soy protein isolate (SPI), mixture of Hylon VII & SPI and SPI with 7.5 and 5 % (w/w) Menhaden fish oil. The emulsions were further freeze- dried obtaining 33 and 50 % oil load microcapsules. The range of particles diameter was 4.11 to 7.25 μm and viscosity was 34.6 to 146.48 cP of the emulsions. Compressibility index (CI), Hasner ratio (HR) and angle of repose (AR) was significantly (p < 0.01) lower of the microcapsules made with starch and protein (CBRS & SPI and Hylon VII & SPI) than that made with protein (SPI) only. Microcapsules composed of CBRS & SPI with 33 % oil load had maximum microencapsulation efficiency (82.49 %) and highest oxidative stability. Muffin made with emulsions containing mixture of CBRS & SPI exhibited less fishy flavour than that containing mixture of Hylon VII & SPI.

  1. Detection of Cardamom mosaic virus and Banana bract mosaic virus in cardamom using SYBR Green based reverse transcription-quantitative PCR.

    PubMed

    Siljo, A; Bhat, A I; Biju, C N

    2014-01-01

    Cardamom being perennial, propagated vegetatively, detecting viruses in planting material is important to check the spread of viruses through infected material. Thus development of effective and sensitive assay for detection of viruses is need of the time. In this view, assay for the detection of Cardamom mosaic virus (CdMV) and Banana bract mosaic virus (BBrMV), infecting cardamom was developed using SYBR Green one step reverse transcription-quantitative PCR (RT-qPCR). The RT-qPCR assay amplified all isolates of CdMV and BBrMV tested but no amplification was obtained with RNA of healthy plants. Recombinant plasmids carrying target virus regions corresponding to both viruses were quantified, serially diluted and used as standards in qPCR to develop standard curve to enable quantification. When tenfold serial dilutions of the total RNAs from infected plants were tested through RT-qPCR, the detection limit of the assay was estimated to be 16 copies for CdMV and 10 copies for BBrMV, which was approximately 1,000-fold higher than the conventional RT-PCR. The RT-qPCR assay was validated by testing field samples collected from different cardamom growing regions of India. This is the first report of RT-qPCR assay for the detection of CdMV and BBrMV in cardamom.

  2. Phenotypic and molecular characterization of Colletotrichum species associated with anthracnose of banana (Musa spp) in Malaysia.

    PubMed

    Intan Sakinah, M A; Suzianti, I V; Latiffah, Z

    2014-05-09

    Anthracnose caused by Colletotrichum species is a common postharvest disease of banana fruit. We investigated and identified Colletotrichum species associated with anthracnose in several local banana cultivars based on morphological characteristics and sequencing of ITS regions and of the β-tubulin gene. Thirty-eight Colletotrichum isolates were encountered in anthracnose lesions of five local banana cultivars, 'berangan', 'mas', 'awak', 'rastali', and 'nangka'. Based on morphological characteristics, 32 isolates were identified as Colletotrichum gloeosporioides and 6 isolates as C. musae. C. gloeosporioides isolates were divided into two morphotypes, with differences in colony color, shape of the conidia and growth rate. Based on ITS regions and β-tubulin sequences, 35 of the isolates were identified as C. gloeosporioides and only 3 isolates as C. musae; the percentage of similarity from BLAST ranged from 95-100% for ITS regions and 97-100% for β-tubulin. C. gloeosporioides isolates were more prevalent compared to C. musae. This is the first record of C. gloeosporioides associated with banana anthracnose in Malaysia. In a phylogenetic analysis of the combined dataset of ITS regions and β-tubulin using a maximum likelihood method, C. gloeosporioides and C. musae isolates were clearly separated into two groups. We concluded that C. gloeosporioides and C. musae isolates are associated with anthracnose in the local banana cultivars and that C. gloeosporioides is more prevalent than C. musae.

  3. Banana-Associated Microbial Communities in Uganda Are Highly Diverse but Dominated by Enterobacteriaceae

    PubMed Central

    Rossmann, Bettina; Müller, Henry; Smalla, Kornelia; Mpiira, Samuel; Tumuhairwe, John Baptist; Staver, Charles

    2012-01-01

    Bananas are among the most widely consumed foods in the world. In Uganda, the country with the second largest banana production in the world, bananas are the most important staple food. The objective of this study was to analyze banana-associated microorganisms and to select efficient antagonists against fungal pathogens which are responsible for substantial yield losses. We studied the structure and function of microbial communities (endosphere, rhizosphere, and soil) obtained from three different traditional farms in Uganda by cultivation-independent (PCR-SSCP fingerprints of 16S rRNA/ITS genes, pyrosequencing of enterobacterial 16S rRNA gene fragments, quantitative PCR, fluorescence in situ hybridization coupled with confocal laser scanning microscopy, and PCR-based detection of broad-host-range plasmids and sulfonamide resistance genes) and cultivation-dependent methods. The results showed microhabitat-specific microbial communities that were significant across sites and treatments. Furthermore, all microhabitats contained a high number and broad spectrum of indigenous antagonists toward identified fungal pathogens. While bacterial antagonists were found to be enriched in banana plants, fungal antagonists were less abundant and mainly found in soil. The banana stem endosphere was the habitat with the highest bacterial counts (up to 109 gene copy numbers g−1). Here, enterics were found to be enhanced in abundance and diversity; they provided one-third of the bacteria and were identified by pyrosequencing with 14 genera, including not only potential human (Escherichia, Klebsiella, Salmonella, and Yersinia spp.) and plant (Pectobacterium spp.) pathogens but also disease-suppressive bacteria (Serratia spp.). The dominant role of enterics can be explained by the permanent nature and vegetative propagation of banana and the amendments of human, as well as animal, manure in these traditional cultivations. PMID:22562988

  4. Banana-associated microbial communities in Uganda are highly diverse but dominated by Enterobacteriaceae.

    PubMed

    Rossmann, Bettina; Müller, Henry; Smalla, Kornelia; Mpiira, Samuel; Tumuhairwe, John Baptist; Staver, Charles; Berg, Gabriele

    2012-07-01

    Bananas are among the most widely consumed foods in the world. In Uganda, the country with the second largest banana production in the world, bananas are the most important staple food. The objective of this study was to analyze banana-associated microorganisms and to select efficient antagonists against fungal pathogens which are responsible for substantial yield losses. We studied the structure and function of microbial communities (endosphere, rhizosphere, and soil) obtained from three different traditional farms in Uganda by cultivation-independent (PCR-SSCP fingerprints of 16S rRNA/ITS genes, pyrosequencing of enterobacterial 16S rRNA gene fragments, quantitative PCR, fluorescence in situ hybridization coupled with confocal laser scanning microscopy, and PCR-based detection of broad-host-range plasmids and sulfonamide resistance genes) and cultivation-dependent methods. The results showed microhabitat-specific microbial communities that were significant across sites and treatments. Furthermore, all microhabitats contained a high number and broad spectrum of indigenous antagonists toward identified fungal pathogens. While bacterial antagonists were found to be enriched in banana plants, fungal antagonists were less abundant and mainly found in soil. The banana stem endosphere was the habitat with the highest bacterial counts (up to 10(9) gene copy numbers g(-1)). Here, enterics were found to be enhanced in abundance and diversity; they provided one-third of the bacteria and were identified by pyrosequencing with 14 genera, including not only potential human (Escherichia, Klebsiella, Salmonella, and Yersinia spp.) and plant (Pectobacterium spp.) pathogens but also disease-suppressive bacteria (Serratia spp.). The dominant role of enterics can be explained by the permanent nature and vegetative propagation of banana and the amendments of human, as well as animal, manure in these traditional cultivations.

  5. An evaluation of aerobic and anaerobic composting of banana peels treated with different inoculums for soil nutrient replenishment.

    PubMed

    Kalemelawa, Frank; Nishihara, Eiji; Endo, Tsuneyoshi; Ahmad, Zahoor; Yeasmin, Rumana; Tenywa, Moses M; Yamamoto, Sadahiro

    2012-12-01

    This study sought to evaluate the efficacy of aerobic and anaerobic composting of inoculated banana peels, and assess the agronomic value of banana peel-based compost. Changes in the chemical composition under aerobic and anaerobic conditions were examined for four formulations of banana peel-based wastes over a period of 12 weeks. The formulations i.e. plain banana peel (B), and a mixture with either cow dung (BC), poultry litter (BP) or earthworm (BE) were separately composted under aerobic and anaerobic conditions under laboratory conditions. Inoculation with either cow dung or poultry litter significantly facilitated mineralization in the order: BP>BC>B. The rate of decomposition was significantly faster under aerobic than in anaerobic composting conditions. The final composts contained high K (>100 g kg(-1)) and TN (>2%), indicating high potential as a source of K and N fertilizer.

  6. Immunodiagnosis of episomal Banana streak MY virus using polyclonal antibodies to an expressed putative coat protein.

    PubMed

    Sharma, Susheel Kumar; Kumar, P Vignesh; Baranwal, Virendra Kumar

    2014-10-01

    A cryptic Badnavirus species complex, known as banana streak viruses (BSV) poses a serious threat to banana production and genetic improvement worldwide. Due to the presence of integrated BSV sequences in the banana genome, routine detection is largely based on serological and nucleo-serological diagnostic methods which require high titre specific polyclonal antiserum. Viral structural proteins like coat protein (CP) are the best target for in vitro expression, to be used as antigen for antiserum production. However, in badnaviruses precise CP sequences are not known. In this study, two putative CP coding regions (p48 and p37) of Banana streak MY virus (BSMYV) were identified in silico by comparison with caulimoviruses, retroviruses and Rice tungro bacilliform virus. The putative CP coding region (p37) was in vitro expressed in pMAL system and affinity purified. The purified fusion protein was used as antigen for raising polyclonal antiserum in rabbit. The specificity of antiserum was confirmed in Western blots, immunosorbent electron microscopy (ISEM) and antigen coated plate-enzyme linked immunosorbent assay (ACP-ELISA). The antiserum (1:2000) was successfully used in ACP-ELISA for specific detection of BSMYV infection in field and tissue culture raised banana plants. The antiserum was also utilized in immuno-capture PCR (IC-PCR) based indexing of episomal BSMYV infection. This is the first report of in silico identification of putative CP region of BSMYV, production of polyclonal antiserum against recombinant p37 and its successful use in immunodetection.

  7. Statistical Seasonal Sea Surface based Prediction Model

    NASA Astrophysics Data System (ADS)

    Suarez, Roberto; Rodriguez-Fonseca, Belen; Diouf, Ibrahima

    2014-05-01

    The interannual variability of the sea surface temperature (SST) plays a key role in the strongly seasonal rainfall regime on the West African region. The predictability of the seasonal cycle of rainfall is a field widely discussed by the scientific community, with results that fail to be satisfactory due to the difficulty of dynamical models to reproduce the behavior of the Inter Tropical Convergence Zone (ITCZ). To tackle this problem, a statistical model based on oceanic predictors has been developed at the Universidad Complutense of Madrid (UCM) with the aim to complement and enhance the predictability of the West African Monsoon (WAM) as an alternative to the coupled models. The model, called S4CAST (SST-based Statistical Seasonal Forecast) is based on discriminant analysis techniques, specifically the Maximum Covariance Analysis (MCA) and Canonical Correlation Analysis (CCA). Beyond the application of the model to the prediciton of rainfall in West Africa, its use extends to a range of different oceanic, atmospheric and helth related parameters influenced by the temperature of the sea surface as a defining factor of variability.

  8. I Have a Banana Tree in My Classroom

    ERIC Educational Resources Information Center

    Williams, Patricia A.

    2007-01-01

    When the banana is growing, the broadest part of the banana is located at the bottom, while the tapered end points upward. It appears upside down, however, from the banana tree's perspective, it is growing right side up. The author observes that the students in her classroom labeled by society as "at risk," are also, in a sense, "upside down."…

  9. Postharvest quality of specialty bananas after irradiation for quarantine security

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Fruit quality and ripening of 'Dwarf Brazilian' ("apple") bananas were determined following x-ray irradiation for disinfestation of quarantine pests. The USDA-approved minimum absorbed dosage for banana exports from Hawaii is either 400 Gy with inspection for the presence of banana moth, or 150 Gy ...

  10. Physically based prediction of earthquake induced landsliding

    NASA Astrophysics Data System (ADS)

    Marc, Odin; Meunier, Patrick; Hovius, Niels; Gorum, Tolga; Uchida, Taro

    2015-04-01

    Earthquakes are an important trigger of landslides and can contribute significantly to sedimentary or organic matter fluxes. We present a new physically based expression for the prediction of total area and volume of populations of earthquake-induced landslides. This model implements essential seismic processes, linking key parameters such as ground acceleration, fault size, earthquake source depth and seismic moment. To assess the model we have compiled and normalized a database of landslide inventories for 40 earthquakes. We have found that low landscape steepness systematically leads to overprediction of the total area and volume of landslides. When this effect is accounted for, the model is able to predict within a factor of 2 the landslide areas and associated volumes for about two thirds of the cases in our databases. This is a significant improvement on a previously published empirical expression based only on earthquake moment, even though the prediction of total landslide area is more difficult than that of volume because it is affected by additional parameters such as the depth and continuity of soil cover. Some outliers in terms of observed landslide intensity are likely to be associated with exceptional rock mass properties in the epicentral area. Others may be related to seismic source complexities ignored by the model. However, most cases in our catalogue seem to be relatively unaffected by these two effects despite the variety of lithologies and tectonic settings they cover. This makes the model suitable for integration into landscape evolution models, and application to the assessment of secondary hazards and risks associated with earthquakes.

  11. Olfactory responses of banana weevil predators to volatiles from banana pseudostem tissue and synthetic pheromone.

    PubMed

    Tinzaara, W; Gold, C S; Dicke, M; van Huis, A

    2005-07-01

    As a response to attack by herbivores, plants can emit a variety of volatile substances that attract natural enemies of these insect pests. Predators of the banana weevil, Cosmopolites sordidus (Germar) (Coleoptera: Curculionidae) such as Dactylosternum abdominale (Coleoptera: Hydrophilidae) and Pheidole megacephala (Hymenoptera: Formicidae), are normally found in association with weevil-infested rotten pseudostems and harvested stumps. We investigated whether these predators are attracted to such environments in response to volatiles produced by the host plant, by the weevil, or by the weevil plant complex. We evaluated predator responses towards volatiles from banana pseudostem tissue (synomones) and the synthetic banana weevil aggregation pheromone Cosmolure+ in a two-choice olfactometer. The beetle D. abdominale was attracted to fermenting banana pseudostem tissue and Cosmolure+, whereas the ant P. megacephala was attracted only to fermented pseudostem tissue. Both predators were attracted to banana pseudostem tissue that had been damaged by weevil larvae irrespective of weevil presence. Adding pheromone did not enhance predator response to volatiles from pseudostem tissue fed on by weevils. The numbers of both predators recovered with pseudostem traps in the field from banana mats with a pheromone trap were similar to those in pseudostem traps at different distance ranges from the pheromone. Our study shows that the generalist predators D. abdominale and P. megacephala use volatiles from fermented banana pseudostem tissue as the major chemical cue when searching for prey.

  12. Thermotherapy, chemotherapy, and meristem culture in banana.

    PubMed

    Lassois, Ludivine; Lepoivre, Philippe; Swennen, Rony; van den Houwe, Ines; Panis, Bart

    2013-01-01

    Bananas that provide a staple food to the millions of people are adversely affected by several viruses such as Banana bunchy Top Virus (BBTV), Banana Streak Virus (BSV), and Cucumber Mosaic Virus (CMV). These viruses are known to have a devastating effect on crop production and constraint to the international exchange and conservation of banana germplasm-a cornerstone for breeding new cultivars. The viruses are particularly problematic in vegetative propagated crops, like bananas, because of their transmission in the planting material. Different virus eradication techniques have been developed, such as thermotherapy, chemotherapy, and meristem culture for providing virus-free planting material. Meristem culture proved to be the most effective procedure to eradicate phloem-associated viruses. This method requires isolation of meristematic dome of plant under the aseptic conditions and culture in an appropriate nutrient medium to develop new virus-free plants. Thermotherapy is another widely used virus eradication technique, which is initially carried out on in vivo or in vitro plants and eventually combined with meristem culture technique. The plantlets are initially grown at 28°C day temperature and increase it by 2°C per day until reaches 40°C and the night temperature at 28°C; maintain plants at 40°C for 4 weeks; excise meristem and culture onto the regeneration medium. In chemotherapy technique, antiviral chemical compound Virazole(®) is applied on meristem culture. Combination of these techniques is also applied to improve the eradication rate.

  13. Differential gene expression in ripening banana fruit.

    PubMed

    Clendennen, S K; May, G D

    1997-10-01

    During banana (Musa acuminata L.) fruit ripening ethylene production triggers a developmental cascade that is accompanied by a massive conversion of starch to sugars, an associated burst of respiratory activity, and an increase in protein synthesis. Differential screening of cDNA libraries representing banana pulp at ripening stages 1 and 3 has led to the isolation of 11 nonredundant groups of differentially expressed mRNAs. Identification of these transcripts by partial sequence analysis indicates that two of the mRNAs encode proteins involved in carbohydrate metabolism, whereas others encode proteins thought to be associated with pathogenesis, senescence, or stress responses in plants. Their relative abundance in the pulp and tissue-specific distribution in greenhouse-grown banana plants were determined by northern-blot analyses. The relative abundance of transcripts encoding starch synthase, granule-bound starch synthase, chitinase, lectin, and a type-2 metallothionein decreased in pulp during ripening. Transcripts encoding endochitinase, beta-1,3-glucanase, a thaumatin-like protein, ascorbate peroxidase, metallothionein, and a putative senescence-related protein increased early in ripening. The elucidation of the molecular events associated with banana ripening will facilitate a better understanding and control of these processes, and will allow us to attain our long-term goal of producing candidate oral vaccines in transgenic banana plants.

  14. Production of haploids from anther culture of banana [Musa balbisiana (BB)].

    PubMed

    Assani, A; Bakry, F; Kerbellec, F; Haïcour, R; Wenzel, G; Foroughi-Wehr, B

    2003-02-01

    We report here, for the first time, the production of haploid plants of banana Musa balbisiana (BB). Callus was induced from anthers in which the majority of the microspores were at the uninucleate stage. The frequency of callus induction was 77%. Callus proliferation usually preceded embryo formation. About 8% of the anthers developed androgenic embryos. Of the 147 plantlets obtained, 41 were haploids (n=x=11). The frequency of haploid production depended on genotypes used: 18 haploid plants were produced from genotype Pisang klutuk, 12 from Pisang batu, seven from Pisang klutuk wulung and four from Tani. The frequency of regeneration was 1.1%, which was based on the total number of anthers cultured. Diploid plants (2n=2x=22) were also observed in the regenerated plants. The haploid banana plants that were developed will be important material for the improvement of banana through breeding programmes.

  15. Banana peel reductant for leaching medium grade manganese ore in sulfuric acid solution

    NASA Astrophysics Data System (ADS)

    Aripin, H.; Joni, I. Made; Busaeri, Nundang; Usrah, Ifkar; Sudiana, I. Nyoman; Sabchevski, Svilen

    2017-03-01

    In this investigation, manganese has been produced from medium grade manganese ore from Karangnunggal mine (West Java, Indonesia). The effects of weighed amount of banana peels on the structural and leaching properties have been studied. The material's properties have been characterized on the basis of the experimental data obtained using X-ray fluorescence (XRF), X-ray diffraction (XRD), and Fourier transforms infrared (FTIR) spectroscopy. It has been found that an increase of the weighed amount of banana peels up to 4 g leads to an increase of the leaching efficiency of manganese from manganese ore. Above 4 g, however, the leaching efficiency does not change significantly. The analysis based on the interpretation of both XRD patterns and FTIR spectrum allows one to explain the increase in the leaching efficiencies of manganese by the reduction of MnO2 minerals and by the removal of hemicelluloses groups of banana peel in the samples.

  16. BANANAS: providing child care services to a multi-ethnic community.

    PubMed

    Vu, Catherine M; Schwartz, Sara L; Austin, Michael J

    2011-01-01

    BANANAS, Inc. is a nonprofit organization that has provided child care resource and referral services for over 35 years. BANANAS emerged as a grassroots effort initiated by a group of female volunteers who sought to build a network of women with children who needed childcare. As the organization developed, its leaders recognized and responded to additional needs, including resource and information sharing, workshops and classes, and political advocacy. Beginning as a collective, BANANAS has grown into a multifaceted service delivery and advocacy nonprofit operating with an annual budget of $12 million. This history of the agency reflects the development of a unique community-based effort, its challenges and rewards, and the multiple successes that this pioneering nonprofit has experienced.

  17. Unfolding energetics and stability of banana lectin.

    PubMed

    Gupta, Garima; Sinha, Sharmistha; Surolia, Avadhesha

    2008-08-01

    The unfolding pathway of banana lectin from Musa paradisiaca was determined by isothermal denaturation induced by the chaotrope GdnCl. The unfolding was found to be a reversible process. The data obtained by isothermal denaturation provided information on conformational stability of banana lectin. The high values of DeltaG of unfolding at various temperatures indicated the strength of intersubunit interactions. It was found that banana lectin is a very stable and denatures at high chaotrope concentrations only. The basis of the stability may be attributed to strong hydrogen bonds of the order 2.5-3.1 A at the dimeric interface along with the presence of water bridges. This is perhaps very unique example in proteins where subunit association is not a consequence of the predominance of hydrophobic interactions.

  18. TOPPER: topology prediction of transmembrane protein based on evidential reasoning.

    PubMed

    Deng, Xinyang; Liu, Qi; Hu, Yong; Deng, Yong

    2013-01-01

    The topology prediction of transmembrane protein is a hot research field in bioinformatics and molecular biology. It is a typical pattern recognition problem. Various prediction algorithms are developed to predict the transmembrane protein topology since the experimental techniques have been restricted by many stringent conditions. Usually, these individual prediction algorithms depend on various principles such as the hydrophobicity or charges of residues. In this paper, an evidential topology prediction method for transmembrane protein is proposed based on evidential reasoning, which is called TOPPER (topology prediction of transmembrane protein based on evidential reasoning). In the proposed method, the prediction results of multiple individual prediction algorithms can be transformed into BPAs (basic probability assignments) according to the confusion matrix. Then, the final prediction result can be obtained by the combination of each individual prediction base on Dempster's rule of combination. The experimental results show that the proposed method is superior to the individual prediction algorithms, which illustrates the effectiveness of the proposed method.

  19. Phenylphenalenones Accumulate in Plant Tissues of Two Banana Cultivars in Response to Herbivory by the Banana Weevil and Banana Stem Weevil.

    PubMed

    Hölscher, Dirk; Buerkert, Andreas; Schneider, Bernd

    2016-08-25

    Phenylphenalenone-type compounds accumulated in the tissues of two banana cultivars-Musa acuminata cv. "Grande Naine" (AAA) and Musa acuminata × balbisiana Colla cv. "Bluggoe" (ABB)-when these were fed on by the banana weevil (Cosmopolites sordidus (Germ.) (Coleoptera: Curculionidae)) and the banana stem weevil (Odoiporus longicollis (Oliver) (Coleoptera: Curculionidae)). The chemical constituents of the banana material were separated by means of chromatographic techniques and identified by NMR spectroscopy. One new compound, 2-methoxy-4-phenylphenalen-1-one, was found exclusively in the corm material of "Bluggoe" that had been fed on by the weevils.

  20. Phenylphenalenones Accumulate in Plant Tissues of Two Banana Cultivars in Response to Herbivory by the Banana Weevil and Banana Stem Weevil

    PubMed Central

    Hölscher, Dirk; Buerkert, Andreas; Schneider, Bernd

    2016-01-01

    Phenylphenalenone-type compounds accumulated in the tissues of two banana cultivars—Musa acuminata cv. “Grande Naine” (AAA) and Musa acuminata × balbisiana Colla cv. “Bluggoe” (ABB)—when these were fed on by the banana weevil (Cosmopolites sordidus (Germ.) (Coleoptera: Curculionidae)) and the banana stem weevil (Odoiporus longicollis (Oliver) (Coleoptera: Curculionidae)). The chemical constituents of the banana material were separated by means of chromatographic techniques and identified by NMR spectroscopy. One new compound, 2-methoxy-4-phenylphenalen-1-one, was found exclusively in the corm material of “Bluggoe” that had been fed on by the weevils. PMID:27571112

  1. Ecuadorian banana farms should consider organic banana with low price risks in their land-use portfolios.

    PubMed

    Castro, Luz Maria; Calvas, Baltazar; Knoke, Thomas

    2015-01-01

    Organic farming is a more environmentally friendly form of land use than conventional agriculture. However, recent studies point out production tradeoffs that often prevent the adoption of such practices by farmers. Our study shows with the example of organic banana production in Ecuador that economic tradeoffs depend much on the approach of the analysis. We test, if organic banana should be included in economic land-use portfolios, which indicate how much of the land is provided for which type of land-use. We use time series data for productivity and prices over 30 years to compute the economic return (as annualized net present value) and its volatility (with standard deviation as risk measure) for eight crops to derive land-use portfolios for different levels of risk, which maximize economic return. We find that organic banana is included in land-use portfolios for almost every level of accepted risk with proportions from 1% to maximally 32%, even if the same high uncertainty as for conventional banana is simulated for organic banana. A more realistic, lower simulated price risk increased the proportion of organic banana substantially to up to 57% and increased annual economic returns by up to US$ 187 per ha. Under an assumed integration of both markets, for organic and conventional banana, simulated by an increased coefficient of correlation of economic return from organic and conventional banana (ρ up to +0.7), organic banana holds significant portions in the land-use portfolios tested only, if a low price risk of organic banana is considered. We conclude that uncertainty is a key issue for the adoption of organic banana. As historic data support a low price risk for organic banana compared to conventional banana, Ecuadorian farmers should consider organic banana as an advantageous land-use option in their land-use portfolios.

  2. Ecuadorian Banana Farms Should Consider Organic Banana with Low Price Risks in Their Land-Use Portfolios

    PubMed Central

    Castro, Luz Maria; Calvas, Baltazar; Knoke, Thomas

    2015-01-01

    Organic farming is a more environmentally friendly form of land use than conventional agriculture. However, recent studies point out production tradeoffs that often prevent the adoption of such practices by farmers. Our study shows with the example of organic banana production in Ecuador that economic tradeoffs depend much on the approach of the analysis. We test, if organic banana should be included in economic land-use portfolios, which indicate how much of the land is provided for which type of land-use. We use time series data for productivity and prices over 30 years to compute the economic return (as annualized net present value) and its volatility (with standard deviation as risk measure) for eight crops to derive land-use portfolios for different levels of risk, which maximize economic return. We find that organic banana is included in land-use portfolios for almost every level of accepted risk with proportions from 1% to maximally 32%, even if the same high uncertainty as for conventional banana is simulated for organic banana. A more realistic, lower simulated price risk increased the proportion of organic banana substantially to up to 57% and increased annual economic returns by up to US$ 187 per ha. Under an assumed integration of both markets, for organic and conventional banana, simulated by an increased coefficient of correlation of economic return from organic and conventional banana (ρ up to +0.7), organic banana holds significant portions in the land-use portfolios tested only, if a low price risk of organic banana is considered. We conclude that uncertainty is a key issue for the adoption of organic banana. As historic data support a low price risk for organic banana compared to conventional banana, Ecuadorian farmers should consider organic banana as an advantageous land-use option in their land-use portfolios. PMID:25799506

  3. Love Is Like a Squished Banana

    ERIC Educational Resources Information Center

    Brown, Stephen

    1976-01-01

    An unemployed poet obtained a CETA public service job as a teacher's aide in Marin County, California, where he has guided elementary children's imaginative projects. His experiences are described. He has published a volume of the children's verse under the title "Love Is Like a Squished Banana." (AJ)

  4. Prediction of Mortality Based on Facial Characteristics

    PubMed Central

    Delorme, Arnaud; Pierce, Alan; Michel, Leena; Radin, Dean

    2016-01-01

    Recent studies have shown that characteristics of the face contain a wealth of information about health, age and chronic clinical conditions. Such studies involve objective measurement of facial features correlated with historical health information. But some individuals also claim to be adept at gauging mortality based on a glance at a person’s photograph. To test this claim, we invited 12 such individuals to see if they could determine if a person was alive or dead based solely on a brief examination of facial photographs. All photos used in the experiment were transformed into a uniform gray scale and then counterbalanced across eight categories: gender, age, gaze direction, glasses, head position, smile, hair color, and image resolution. Participants examined 404 photographs displayed on a computer monitor, one photo at a time, each shown for a maximum of 8 s. Half of the individuals in the photos were deceased, and half were alive at the time the experiment was conducted. Participants were asked to press a button if they thought the person in a photo was living or deceased. Overall mean accuracy on this task was 53.8%, where 50% was expected by chance (p < 0.004, two-tail). Statistically significant accuracy was independently obtained in 5 of the 12 participants. We also collected 32-channel electrophysiological recordings and observed a robust difference between images of deceased individuals correctly vs. incorrectly classified in the early event related potential (ERP) at 100 ms post-stimulus onset. Our results support claims of individuals who report that some as-yet unknown features of the face predict mortality. The results are also compatible with claims about clairvoyance warrants further investigation. PMID:27242466

  5. Genetic diversity and recombination analysis in the coat protein gene of Banana bract mosaic virus.

    PubMed

    Balasubramanian, V; Selvarajan, R

    2014-06-01

    Banana bract mosaic virus (BBrMV), a member of the genus Potyvirus, family Potyviridae, is the causal agent of the bract mosaic disease (BBrMD) that causes serious yield losses in banana and plantain in India and the Philippines. In this study, global genetic diversity and molecular evolution of BBrMV based on the capsid protein (CP) gene were investigated. Multiple alignments of CP gene of 49 BBrMV isolates showed nucleotide (nt) and amino acid (aa) identity of 79-100 and 80-100 %, respectively. Phylogenetic analysis revealed that except two Indians isolates (TN14 and TN16), all isolates clustered together. Eleven recombination events were detected using Recombination Detection Program. Codon-based maximum-likelihood methods revealed that most of the codons in the CP gene were under negative or neutral selection except for codons 28, 43, and 92 which were under positive selection. Gene flow between BBrMV populations of banana and cardamom was relatively frequent but not between two different populations of banana infecting isolates identified in this study. This is the first report on genetic diversity, and evolution of BBrMV isolates based on recombination and phylogenetic analysis in India.

  6. Anthocyanin composition of wild bananas in Thailand.

    PubMed

    Kitdamrongsont, Kasipong; Pothavorn, Pongsagon; Swangpol, Sasivimon; Wongniam, Siripope; Atawongsa, Kanokporn; Svasti, Jisnuson; Somana, Jamorn

    2008-11-26

    Anthocyanins were isolated from male bracts of 10 wild species of bananas (Musa spp. and Ensete spp.) distributed in Thailand. Six major anthocyanin pigments were identified by high performance liquid chromatography (HPLC), mass spectrometry (MS), and tandem mass spectrometry (MS/MS). They are delphinidin-3-rutinoside (m/z 611.2), cyanidin-3-rutinoside (m/z 595.8), petunidin-3-rutinoside (m/z 624.9), pelargonidin-3-rutinoside (m/z 579.4), peonidin-3-rutinoside (m/z 608.7), and malvidin-3-rutinoside (m/z 638.8). On the basis of the types of pigment present, the wild bananas can be divided into 5 groups. The first group comprises M. itinerans, Musa sp. one, Musa sp. two, and M. acuminata accessions, which contain almost or all anthocyanin pigments except for pelargonidin-3-rutinoside, including both nonmethylated and methylated anthocyanins. The second group, M. acuminata subsp. truncata, contains only malvidin-3-rutinoside while the third group, M. coccinea, contains cyanidin-3-rutinoside and pelargonidin-3-rutinoside. The forth group, M. acuminata yellow bract and E. glaucum do not appear to contain any anthocyanin pigment. The fifth group consists of M. balbisiana, M. velutina, M. laterita, and E. superbum which contain only nonmethylated anthocyanin, delphinidin-3-rutinoside, and cyanidin-3-rutinoside. Total anthocyanin content in the analyzed bracts ranged from 0-119.70 mg/100 g bract fresh weight. The differences in the type of anthocyanin and variation in the amounts present indicate that wild bananas show biochemical diversity, which may be useful for identifying specific groups of bananas or for clarifying the evolution of flavonoid metabolism in each banana group.

  7. Differentiation between cooking bananas and dessert bananas. 2. Thermal and functional characterization of cultivated Colombian Musaceae (Musa sp.).

    PubMed

    Dufour, Dominique; Gibert, Olivier; Giraldo, Andrés; Sánchez, Teresa; Reynes, Max; Pain, Jean-Pierre; González, Alonso; Fernández, Alejandro; Díaz, Alberto

    2009-09-09

    The starch and flour thermal and functional characteristics of 23 cultivated varieties of bananas in Colombia were assessed. Onset temperature for gelatinization of starches measured by differential scanning calorimetry (DSC) varied from 59.7 to 67.8 degrees C, thereby significantly differentiating dessert bananas (63.2 degrees C) from nonplantain cooking bananas (65.7 degrees C) from FHIA hybrids (66.6 degrees C) and plantains (67.1 degrees C). FHIA hybrids are significantly discriminated from dessert banana landraces but not from the cooking group. The starch amylose contents varied from 15.4 to 24.9%; most dessert banana starch amylose contents were below 19%, whereas in cooking banana starches the contents were over 21%. Flour functional properties were assessed by Rapid ViscoAnalyser (RVA) using silver nitrate as alpha-amylase inhibitor. The flour pasting temperature was relevant to differentiate dessert bananas (69.5 degrees C) from FHIA dessert hybrids and nonplantain cooking bananas (72.8 degrees C) from cooking hybrids and plantains (75.8 degrees C). Among other criteria, the cooking ability also helped to differentiate dessert bananas and FHIA hybrids from cooking bananas. A close relation between cultivar genotypes and uses with the thermal and pasting properties were revealed.

  8. Beauveria bassiana (Balsamo) Vuillemin as an endophyte in tissue culture banana (Musa spp.).

    PubMed

    Akello, Juliet; Dubois, Thomas; Gold, Clifford S; Coyne, Daniel; Nakavuma, Jessica; Paparu, Pamela

    2007-09-01

    Beauveria bassiana is considered a virulent pathogen against the banana weevil Cosmopolites sordidus. However, current field application techniques for effective control against this pest remain a limitation and an alternative method for effective field application needs to be investigated. Three screenhouse experiments were conducted to determine the ability of B. bassiana to form an endophytic relationship with tissue culture banana (Musa spp.) plants and to evaluate the plants for possible harmful effects resulting from this relationship. Three Ugandan strains of B. bassiana (G41, S204 and WA) were applied by dipping the roots and rhizome in a conidial suspension, by injecting a conidial suspension into the plant rhizome and by growing the plants in sterile soil mixed with B. bassiana-colonized rice substrate. Four weeks after inoculation, plant growth parameters were determined and plant tissue colonization assessed through re-isolation of B. bassiana. All B. bassiana strains were able to colonize banana plant roots, rhizomes and pseudostem bases. Dipping plants in a conidial suspension achieved the highest colonization with no negative effect on plant growth or survival. Beauveria bassiana strain G41 was the best colonizer (up to 68%, 79% and 41% in roots, rhizome and pseudostem base, respectively) when plants were dipped. This study demonstrated that, depending on strain and inoculation method, B. bassiana can form an endophytic relationship with tissue culture banana plants, causing no harmful effects and might provide an alternative method for biological control of C. sordidus.

  9. Predicting mortality based on body composition analysis.

    PubMed Central

    Tellado, J M; Garcia-Sabrido, J L; Hanley, J A; Shizgal, H M; Christou, N V

    1989-01-01

    The role of the Nae/Ke ratio (the ratio of exchangeable sodium to exchangeable potassium) was examined as a nutritional marker in surgical patients in relation to anthropometrical and biochemical indexes by its ability to identify patients at risk for mortality after hospitalization. In 73 patients with sepsis and malnutrition (Training Group, Madrid) the following were determined: percentage of recent weight loss, triceps skin fold, midarm muscle circumference, serum albumin, serum transferrin, delayed hypersensitivity skin test response, total lymphocytes, and Nae/Ke ratio by multiple isotope dilution. The predictive power of Nae/Ke ratio was so strong (F = 105.1; p less than 0.00001) that it displaced anthropometric, biochemical, and immunologic variables from the linear equation derived from stepwise discriminant analysis using hospital mortality as the dependent variable. A theoretical curve of expected deaths was developed, based on an equation obtained by logistic regression analysis: Pr/death/ = 1/(1 + e[11.8-5.2 Nae/Ke]). Pre- and post-test probabilities on that curve allowed us to determine two cut-off values, Nae/Ke ratios of 1.5 and 2.5, which were markers for nonrisk and mortality, respectively. The model was tested in a heterogeneous data base of surgical patients (n = 417) in another hospital (Validation Group, Montreal). For patients exhibiting an abnormal Nae/Ke ratio (greater than 1.2) and a greater than 10% of probability of death, 54 deaths were expected and 53 observed (X2 = 1.8 NS). Two tests confirmed the basic agreement between the model and its performance, a G statistic of -0.704 and the area beneath the "receiver-operating-characteristic" (ROC) curve (Az = 0.904 + 0.0516 for the Madrid group vs. Az = 0.915 + 0.0349 for the Montreal group, NS). It was concluded from this analysis that, compared with the usual anthropometric measurements, the Nae/Ke ratio, if available, is the best method for identifying malnourished patients at risk of

  10. Artificial neural network modelling of the antioxidant activity and phenolic compounds of bananas submitted to different drying treatments.

    PubMed

    Guiné, Raquel P F; Barroca, Maria João; Gonçalves, Fernando J; Alves, Mariana; Oliveira, Solange; Mendes, Mateus

    2015-02-01

    Bananas (cv. Musa nana and Musa cavendishii) fresh and dried by hot air at 50 and 70°C and lyophilisation were analysed for phenolic contents and antioxidant activity. All samples were subject to six extractions (three with methanol followed by three with acetone/water solution). The experimental data served to train a neural network adequate to describe the experimental observations for both output variables studied: total phenols and antioxidant activity. The results show that both bananas are similar and air drying decreased total phenols and antioxidant activity for both temperatures, whereas lyophilisation decreased the phenolic content in a lesser extent. Neural network experiments showed that antioxidant activity and phenolic compounds can be predicted accurately from the input variables: banana variety, dryness state and type and order of extract. Drying state and extract order were found to have larger impact in the values of antioxidant activity and phenolic compounds.

  11. Natural product of wild Zingiberaceae Elettariopsis slahmong: biopesticide to control the vector of banana blood disease bacterium in West Sumatera, Indonesia.

    PubMed

    Nasir, N; Dharma, A; Efdi, M; Yuhendra; Eliesti, F

    2013-01-01

    Banana is one of the most important food crops in Indonesia. Its production is greater than any other agricultural commodity. With the population of 230 million in 2010, banana was consumed up to three million tons in this country. However, Banana Blood Disease Bacterium (BDB), one of the most devastating banana pathogens in the world, which is only found in Indonesia, threatens not only the growth of this plant but also the lives and the livelihoods for most of the Indonesian society. BDB is caused by a lethal bacteria, Ralstonia solanacearum Phylotype-4, which infects a wide range of bananas, from bananas used for consumption to wild bananas. In West Sumatera, the disease killed 1.40% of bananas in 1998, and then increased dramatically to 37.9% in 2003. The total banana production dropped to 62% in this province. The search for controlling the vector has led to the pre-investigation of Wild Zingiberaceae Elettariopsis slahmong C.K. Lim which has a stink bug odour similar to a methidathion insecticide. The plant was collected around the conservation area of Lembah Anal in West Sumatra. The goal of this study was to investigate the effectiveness of natural insecticides compound contained in E. slahmong against D. melanogaster. This study tested the effect of E. slahmong on the mortality, anti-feedant and repellent levels against Drosophila melanogaster, the vector of BDB. The essential oil of E. slahmong was obtained by steam distillation of fresh rhizomes, pseudo stems and leaves. We found that the extract of E. slahmong significantly affected the mortality of D. melanogaster of 30-40% and also acted as an antifeedant (with success rate of 73-93%) and repellent (with success rate of 99-99.6%). The long- term objective of this study is to develop green biopesticide to control BDB in Indonesia, based on an environmentally friendly pest management.

  12. Prediction-based dynamic load-sharing heuristics

    NASA Technical Reports Server (NTRS)

    Goswami, Kumar K.; Devarakonda, Murthy; Iyer, Ravishankar K.

    1993-01-01

    The authors present dynamic load-sharing heuristics that use predicted resource requirements of processes to manage workloads in a distributed system. A previously developed statistical pattern-recognition method is employed for resource prediction. While nonprediction-based heuristics depend on a rapidly changing system status, the new heuristics depend on slowly changing program resource usage patterns. Furthermore, prediction-based heuristics can be more effective since they use future requirements rather than just the current system state. Four prediction-based heuristics, two centralized and two distributed, are presented. Using trace driven simulations, they are compared against random scheduling and two effective nonprediction based heuristics. Results show that the prediction-based centralized heuristics achieve up to 30 percent better response times than the nonprediction centralized heuristic, and that the prediction-based distributed heuristics achieve up to 50 percent improvements relative to their nonprediction counterpart.

  13. Isolation of retro-transcribed RNA from in vitro Mycosphaerella fijiensis-infected banana leaves.

    PubMed

    Rodríguez-García, C M; Peraza-Echeverría, L; Islas-Flores, I R; Canto-Canché, B B; Grijalva-Arango, R

    2010-07-27

    High polyphenol and polysaccharide levels in plant tissues such as banana fruit and leaves constitute a significant challenge to the extraction of sufficient amounts of high-quality RNA required for cDNA library synthesis and molecular analysis. To determine their comparative effectiveness at eliminating polyphenols, polysaccharides and proteins, three protocols for RNA extraction from in vitro banana plantlet leaves were tested: Concert(TM) Plant RNA isolation kit, a small-scale protocol based on Valderrama-Cháirez, and a modified version of the Valderrama-Cháirez protocol. RNA quantity and purity were evaluated by UV-spectrophotometry using DEPC-treated water and Tris-HCl, pH 7.5. Purity was greater using Tris-HCl. The Concert(TM) Plant protocol produced the poorest quality RNA. Reverse transcription into cDNAs from RNA isolated from in vitro banana plantlet leaves infected with Mycosphaerella fijiensis using the modified Valderrama-Cháirez protocol, followed by PCR using primers designed against gamma-actin from banana and M. fijiensis, yielded products of the anticipated size. In addition, this protocol reduced the processing time, lowered costs, used less expensive equipment, and could be used for other plants that have the same problems with high polyphenol and polysaccharide levels.

  14. Structural properties and digestion of green banana flour as a functional ingredient in pasta.

    PubMed

    Zheng, Zeqi; Stanley, Roger; Gidley, Michael J; Dhital, Sushil

    2016-02-01

    Gluten free pasta was made from raw banana flour in combination with vegetable gums and protein for comparison to pasta similarly made from wheat flour. After cooking, it was found that the banana flour pasta was less susceptible to alpha-amylase digestion compared to conventional wheat flour pasta. Release of glucose by alpha-amylase digestion followed first order kinetics with an initial rapid rate of digestion and a subsequent second slower phase. The structure of green banana pasta starch at the inner and outer pasta surfaces was observed under confocal laser scanning microscopy (CLSM) and the viscosities of the flour mixtures were measured by a Rapid Visco Analyser (RVA). The digestibility of banana flour pasta was found to be related, not only to the properties of the starch granules, but also to the protein network of the surrounding food matrix. The effects of gums and proteins on pasta formation and digestibility are discussed in the context of its potential use as a gluten free lower glycaemic alternative to conventional wheat based pastas.

  15. Allergy to banana in a 5-month-old infant.

    PubMed

    Moreno-Ancillo, Alvaro; Domínguez-Noche, Carmen; Gil-Adrados, Ana C; Cosmes, Pedro M

    2004-06-01

    Food proteins can sensitize the infants via different sources. A 5-month-old boy suffered three episodes of generalized urticaria 20 min after the ingestion of a fruit purée containing apple, banana and orange. Skin testing showed positive results to banana and chestnut. Other tests were negative. The value of specific immunoglobulin E (Pharmacia CAP-FEIA, Uppsala, Sweden) to banana was 58 KU/l, to orange was 9.7 KU/l, to chestnut was 5.6 KU/l and to latex was 1.6 KU/l. Orange, apple and latex products were well tolerated. He never had eaten chestnut. The parents rejected a banana challenge test. The route of sensitization in our case might be via placenta, breast-milk, and inadvertent oral intake of food or even via inhalation. An early frequent exposure to banana allergens was considered a possibility factor for the development of banana sensitization. We found that the banana consumption during pregnancy and lactation by the mother of our patient was greater than usual. It is not frequent to find so high levels of sensitization to any fruit in first year of life. In our case, latex, chestnut and orange sensitizations did not seem to be clinically relevant. However, latex and foods known to cross-react with banana antigens should be given to banana-sensitive individuals with great caution.

  16. Domestication, Genomics and the Future for Banana

    PubMed Central

    Heslop-Harrison, J. S.; Schwarzacher, Trude

    2007-01-01

    Background Cultivated bananas and plantains are giant herbaceous plants within the genus Musa. They are both sterile and parthenocarpic so the fruit develops without seed. The cultivated hybrids and species are mostly triploid (2n = 3x = 33; a few are diploid or tetraploid), and most have been propagated from mutants found in the wild. With a production of 100 million tons annually, banana is a staple food across the Asian, African and American tropics, with the 15 % that is exported being important to many economies. Scope There are well over a thousand domesticated Musa cultivars and their genetic diversity is high, indicating multiple origins from different wild hybrids between two principle ancestral species. However, the difficulty of genetics and sterility of the crop has meant that the development of new varieties through hybridization, mutation or transformation was not very successful in the 20th century. Knowledge of structural and functional genomics and genes, reproductive physiology, cytogenetics, and comparative genomics with rice, Arabidopsis and other model species has increased our understanding of Musa and its diversity enormously. Conclusions There are major challenges to banana production from virulent diseases, abiotic stresses and new demands for sustainability, quality, transport and yield. Within the genepool of cultivars and wild species there are genetic resistances to many stresses. Genomic approaches are now rapidly advancing in Musa and have the prospect of helping enable banana to maintain and increase its importance as a staple food and cash crop through integration of genetical, evolutionary and structural data, allowing targeted breeding, transformation and efficient use of Musa biodiversity in the future. PMID:17766312

  17. Feature Selection for Neural Network Based Stock Prediction

    NASA Astrophysics Data System (ADS)

    Sugunnasil, Prompong; Somhom, Samerkae

    We propose a new methodology of feature selection for stock movement prediction. The methodology is based upon finding those features which minimize the correlation relation function. We first produce all the combination of feature and evaluate each of them by using our evaluate function. We search through the generated set with hill climbing approach. The self-organizing map based stock prediction model is utilized as the prediction method. We conduct the experiment on data sets of the Microsoft Corporation, General Electric Co. and Ford Motor Co. The results show that our feature selection method can improve the efficiency of the neural network based stock prediction.

  18. Banana Blossom (Musa acuminate Colla) Incorporated Experimental Diets Modulate Serum Cholesterol and Serum Glucose Level in Wistar Rats Fed with Cholesterol

    PubMed Central

    Gunasegaram, Saranya; Jayathilake, Chathuni; Weththasinghe, Pabodha; Jayawardana, Barana Chaminda; Vidanarachchi, Janak Kamil

    2016-01-01

    Hypocholesterolaemic and hypoglycaemic effect of banana blossom were studied in high-cholesterol fed rats. Experimental groups were fed for 4 weeks, with casein as the basal diet (CN), in comparison with two diets containing 0.5% cholesterol (CD) and 0.5% cholesterol + 21% banana blossom powder (CDB). Serum total cholesterol, non-HDL-cholesterol level, and serum glucose concentrations were lower in CDB fed group compared with CD fed group. Lower serum cholesterol and glucose level (P < 0.05) in CDB fed group were followed by higher faecal weight, caecal weight, caecal Lactobacilli, and Bifidobacteria population in CDB fed group compared to CD diet fed group. Lower serum AST level in banana blossom fed rats showed the reduction in oxidative stress induced by high cholesterol diet. Based on these data, it could be speculated that banana blossom incorporated experimental diets may modulate the hypocholesterolaemic and hypoglycaemic responses in Wistar rats. PMID:28042480

  19. Analysis of genetic diversity in banana cultivars (Musa cvs.) from the South of Oman using AFLP markers and classification by phylogenetic, hierarchical clustering and principal component analyses.

    PubMed

    Opara, Umezuruike Linus; Jacobson, Dan; Al-Saady, Nadiya Abubakar

    2010-05-01

    Banana is an important crop grown in Oman and there is a dearth of information on its genetic diversity to assist in crop breeding and improvement programs. This study employed amplified fragment length polymorphism (AFLP) to investigate the genetic variation in local banana cultivars from the southern region of Oman. Using 12 primer combinations, a total of 1094 bands were scored, of which 1012 were polymorphic. Eighty-two unique markers were identified, which revealed the distinct separation of the seven cultivars. The results obtained show that AFLP can be used to differentiate the banana cultivars. Further classification by phylogenetic, hierarchical clustering and principal component analyses showed significant differences between the clusters found with molecular markers and those clusters created by previous studies using morphological analysis. Based on the analytical results, a consensus dendrogram of the banana cultivars is presented.

  20. Formulation and nutritional evaluation of weaning food processed from cooking banana, supplemented with cowpea and peanut

    PubMed Central

    Bassey, Francisca I; Mcwatters, Kay H; Edem, Christopher A; Iwegbue, Chukwujindu M A

    2013-01-01

    The possibility of processing a ready-to-eat nutrient-rich weaning food (WF) for infants within the age group of 0.5–0.9 years from cooking banana fortified with popular and affordable legumes (cowpea and peanut) was investigated with the aid of computer software and available technology in Nigeria. A composite of 47% cowpea, 40% ripe banana, and 13% peanut was processed, analyzed to compare the actual nutrient composition to that predicted by the software and that of two popular commercial WFs produced by Gerber Products Company: rice with banana (RB) and oats with banana (OB). Proximate composition was determined by Association of Official Analytical Chemists (AOAC) methods, in vitro digestibility by the pH drop method, and amino acid was determined using high performance liquid chromatography. Essential amino acid values were comparable to the predicted values. Protein and oil contents had values of 16.89% and 8.38%, 6.9% and 1.10%, and 12.03% and 3.16% for WF, RB, and OB, respectively. Octadecenoic (oleic) acid had the highest value of 3.65% followed by octadecadienoic (linoleic) acid with a value of 2.64% amounting to 76.69% of the total fatty acid. Total sugar content of WF was recorded as 15.96 g/100 g, with fructose having the highest value of 8.07 g/100 g, followed by dextrose with a value of 7.66 g/100 g. In vitro-digestibility was in the order OB>WF>RB. The results show that it is feasible to produce precooked WF which has the potential to meet the nutritional needs of an infant, from local staples using computer-assisted technique and inexpensive technology available in Nigeria. PMID:24804045

  1. Fermentation of Foc TR4-infected bananas and Trichoderma spp.

    PubMed

    Yang, J; Li, B; Liu, S W; Biswas, M K; Liu, S; Wei, Y R; Zuo, C W; Deng, G M; Kuang, R B; Hu, C H; Yi, G J; Li, C Y

    2016-10-17

    Fusarium wilt (also known as Panama disease) is one of the most destructive banana diseases, and greatly hampers the global production of bananas. Consequently, it has been very detrimental to the Chinese banana industry. An infected plant is one of the major causes of the spread of Fusarium wilt to nearby regions. It is essential to develop an efficient and environmentally sustainable disease control method to restrict the spread of Fusarium wilt. We isolated Trichoderma spp from the rhizosphere soil, roots, and pseudostems of banana plants that showed Fusarium wilt symptoms in the infected areas. Their cellulase activities were measured by endoglucanase activity, β-glucosidase activity, and filter paper activity assays. Safety analyses of the Trichoderma isolates were conducted by inoculating them into banana plantlets. The antagonistic effects of the Trichoderma spp on the Fusarium pathogen Foc tropical Race 4 (Foc TR4) were tested by the dual culture technique. Four isolates that had high cellulase activity, no observable pathogenicity to banana plants, and high antagonistic capability were identified. The isolates were used to biodegrade diseased banana plants infected with GFP-tagged Foc TR4, and the compost was tested for biological control of the infectious agent; the results showed that the fermentation suppressed the incidence of wilt and killed the pathogen. This study indicates that Trichoderma isolates have the potential to eliminate the transmission of Foc TR4, and may be developed into an environmentally sustainable treatment for controlling Fusarium wilt in banana plants.

  2. Using banana to generate lactic acid through batch process fermentation.

    PubMed

    Chan-Blanco, Y; Bonilla-Leiva, A R; Velázquez, A C

    2003-12-01

    We evaluated the usefulness of waste banana for generating lactic acid through batch fermentation, using Lactobacillus casei under three treatments. Two treatments consisted of substrates of diluted banana purée, one of which was enriched with salts and amino acids. The control treatment comprised a substrate suitable for L. casei growth. When fermentation was evaluated over time, significant differences (P<0.05) were found in the three treatments for each of five variables analyzed (generation and productivity of lactic acid, and consumption of glucose, fructose, and sucrose). Maximum productivity was (in g l(-1) h(-1)) 0.13 for the regular banana treatment, 1.49 for the enriched banana, and 1.48 for the control, with no significant differences found between the latter two treatments. Glucose consumption curves showed that L. casei made greater use of the substrate in the enriched banana and control treatments than in the regular banana treatment. For fructose intake, the enriched banana treatment showed significantly better (P<0.05) results than the regular one. Sucrose consumption was insignificant (P<0.05), probably because fermentation time was too short. Even when enriched, diluted banana purée is an ineffective substrate for L. casei, probably because it lacks nutrients.

  3. Agronomic performance of five banana cultivars under protected cultivation

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Banana has been grown both in open-field and protected cultivation in Turkey. So far protected cultivation is very popular due to the high yield and quality. The objective of the study was to evaluate agronomic performance of five new banana cultivars under plastic greenhouse. ‘MA 13’, ‘Williams’, ‘...

  4. [Banana tree pests attacking Heliconia latispatha Benth. (Heliconiaceae)].

    PubMed

    Watanabe, Maria A

    2007-01-01

    In mid-May 2005, the caterpillars Antichloris eriphia (Fabr.) (Lepidoptera: Arctiidae) and Calligo illioneus (Cramer) (Lepidoptera: Nymphalidae) which are banana tree pests, were found attacking six-month old stalks of Heliconia latispatha Benth., planted near a banana tree plantation in Jaguariuna, SP, Brazil. The attack by C. illioneus is observed by the first time in Brazil.

  5. A windows based mechanistic subsidence prediction model for longwall mining

    SciTech Connect

    Begley, R.; Beheler, P.; Khair, A.W.

    1996-12-31

    The previously developed Mechanistic Subsidence Prediction Model (MSPM) has been incorporated into the graphical interface environment of MS Windows. MSPM has the unique capability of predicting maximum subsidence, angle of draw and the subsidence profile of a longwall panel at various locations for both the transverse and longitudinal orientations. The resultant enhanced model can be operated by individuals with little knowledge of subsidence prediction theories or little computer programming experience. In addition, predictions of subsidence can be made in a matter of seconds without the need to develop input data files or use the keyboard in some cases. The predictions are based upon the following input parameters: panel width, mining height, overburden depth, rock quality designation, and percent hard rock in the immediate roof, main roof and the entire overburden. The recently developed enhanced model has the capability to compare predictions in a graphical format for one half of the predicted subsidence profile based upon changes in input parameters easily and instantly on the same screen. In addition another screen can be obtained from a pull down menu where the operator can compare predictions for the entire subsidence profiles. This paper presents the background of the subsidence prediction model and the methodology of the enhanced model development. The paper also presents comparisons of subsidence predictions for several different sets of input parameters in addition to comparisons of the subsidence predictions with actual field data.

  6. 33 CFR 334.570 - Banana River near Orsino, Fla.; restricted area.

    Code of Federal Regulations, 2014 CFR

    2014-07-01

    ... 33 Navigation and Navigable Waters 3 2014-07-01 2014-07-01 false Banana River near Orsino, Fla... THE ARMY, DEPARTMENT OF DEFENSE DANGER ZONE AND RESTRICTED AREA REGULATIONS § 334.570 Banana River near Orsino, Fla.; restricted area. (a) The area. That part of Banana River N of the NASA Banana...

  7. 33 CFR 334.570 - Banana River near Orsino, Fla.; restricted area.

    Code of Federal Regulations, 2013 CFR

    2013-07-01

    ... 33 Navigation and Navigable Waters 3 2013-07-01 2013-07-01 false Banana River near Orsino, Fla... THE ARMY, DEPARTMENT OF DEFENSE DANGER ZONE AND RESTRICTED AREA REGULATIONS § 334.570 Banana River near Orsino, Fla.; restricted area. (a) The area. That part of Banana River N of the NASA Banana...

  8. 33 CFR 334.570 - Banana River near Orsino, Fla.; restricted area.

    Code of Federal Regulations, 2012 CFR

    2012-07-01

    ... 33 Navigation and Navigable Waters 3 2012-07-01 2012-07-01 false Banana River near Orsino, Fla... THE ARMY, DEPARTMENT OF DEFENSE DANGER ZONE AND RESTRICTED AREA REGULATIONS § 334.570 Banana River near Orsino, Fla.; restricted area. (a) The area. That part of Banana River N of the NASA Banana...

  9. 33 CFR 334.570 - Banana River near Orsino, Fla.; restricted area.

    Code of Federal Regulations, 2011 CFR

    2011-07-01

    ... 33 Navigation and Navigable Waters 3 2011-07-01 2011-07-01 false Banana River near Orsino, Fla... THE ARMY, DEPARTMENT OF DEFENSE DANGER ZONE AND RESTRICTED AREA REGULATIONS § 334.570 Banana River near Orsino, Fla.; restricted area. (a) The area. That part of Banana River N of the NASA Banana...

  10. 33 CFR 334.570 - Banana River near Orsino, Fla.; restricted area.

    Code of Federal Regulations, 2010 CFR

    2010-07-01

    ... 33 Navigation and Navigable Waters 3 2010-07-01 2010-07-01 false Banana River near Orsino, Fla... THE ARMY, DEPARTMENT OF DEFENSE DANGER ZONE AND RESTRICTED AREA REGULATIONS § 334.570 Banana River near Orsino, Fla.; restricted area. (a) The area. That part of Banana River N of the NASA Banana...

  11. Banana streak virus is very diverse in Uganda.

    PubMed

    Harper, Glyn; Hart, Darren; Moult, Sarah; Hull, Roger

    2004-03-01

    Banana streak virus (BSV) is a badnavirus that causes a viral leaf streak disease of banana and plantain (Musa spp.). Identified in essentially all Musa growing areas of the world, it has a deleterious effect on the productivity of infected plants as well as being a major constraint to Musa breeding programmes and germplasm dissemination. Banana is a staple food in Uganda which is, per capita, one of the worlds largest banana producers and consumers. BSV was isolated from infected plants sampled across the Ugandan Musa growing area and the isolates were analysed using molecular and serological techniques. These analyses showed that BSV is very highly variable in Uganda. They suggest that the variability is, in part, due to a series of introductions of banana into Uganda, each with a different complement of infecting viruses.

  12. Prediction of residential radon exposure of the whole Swiss population: comparison of model-based predictions with measurement-based predictions.

    PubMed

    Hauri, D D; Huss, A; Zimmermann, F; Kuehni, C E; Röösli, M

    2013-10-01

    Radon plays an important role for human exposure to natural sources of ionizing radiation. The aim of this article is to compare two approaches to estimate mean radon exposure in the Swiss population: model-based predictions at individual level and measurement-based predictions based on measurements aggregated at municipality level. A nationwide model was used to predict radon levels in each household and for each individual based on the corresponding tectonic unit, building age, building type, soil texture, degree of urbanization, and floor. Measurement-based predictions were carried out within a health impact assessment on residential radon and lung cancer. Mean measured radon levels were corrected for the average floor distribution and weighted with population size of each municipality. Model-based predictions yielded a mean radon exposure of the Swiss population of 84.1 Bq/m(3) . Measurement-based predictions yielded an average exposure of 78 Bq/m(3) . This study demonstrates that the model- and the measurement-based predictions provided similar results. The advantage of the measurement-based approach is its simplicity, which is sufficient for assessing exposure distribution in a population. The model-based approach allows predicting radon levels at specific sites, which is needed in an epidemiological study, and the results do not depend on how the measurement sites have been selected.

  13. Using intron position conservation for homology-based gene prediction

    PubMed Central

    Keilwagen, Jens; Wenk, Michael; Erickson, Jessica L.; Schattat, Martin H.; Grau, Jan; Hartung, Frank

    2016-01-01

    Annotation of protein-coding genes is very important in bioinformatics and biology and has a decisive influence on many downstream analyses. Homology-based gene prediction programs allow for transferring knowledge about protein-coding genes from an annotated organism to an organism of interest. Here, we present a homology-based gene prediction program called GeMoMa. GeMoMa utilizes the conservation of intron positions within genes to predict related genes in other organisms. We assess the performance of GeMoMa and compare it with state-of-the-art competitors on plant and animal genomes using an extended best reciprocal hit approach. We find that GeMoMa often makes more precise predictions than its competitors yielding a substantially increased number of correct transcripts. Subsequently, we exemplarily validate GeMoMa predictions using Sanger sequencing. Finally, we use RNA-seq data to compare the predictions of homology-based gene prediction programs, and find again that GeMoMa performs well. Hence, we conclude that exploiting intron position conservation improves homology-based gene prediction, and we make GeMoMa freely available as command-line tool and Galaxy integration. PMID:26893356

  14. Transgenic expression of the rice Xa21 pattern-recognition receptor in banana (Musa sp.) confers resistance to Xanthomonas campestris pv. musacearum.

    PubMed

    Tripathi, Jaindra N; Lorenzen, Jim; Bahar, Ofir; Ronald, Pamela; Tripathi, Leena

    2014-08-01

    Banana Xanthomonas wilt (BXW), caused by the bacterium Xanthomonas campestris pv. musacearum (Xcm), is the most devastating disease of banana in east and central Africa. The spread of BXW threatens the livelihood of millions of African farmers who depend on banana for food security and income. There are no commercial chemicals, biocontrol agents or resistant cultivars available to control BXW. Here, we take advantage of the robust resistance conferred by the rice pattern-recognition receptor (PRR), XA21, to the rice pathogen Xanthomonas oryzae pv. oryzae (Xoo). We identified a set of genes required for activation of Xa21-mediated immunity (rax) that were conserved in both Xoo and Xcm. Based on the conservation, we hypothesized that intergeneric transfer of Xa21 would confer resistance to Xcm. We evaluated 25 transgenic lines of the banana cultivar 'Gonja manjaya' (AAB) using a rapid bioassay and 12 transgenic lines in the glasshouse for resistance against Xcm. About 50% of the transgenic lines showed complete resistance to Xcm in both assays. In contrast, all of the nontransgenic control plants showed severe symptoms that progressed to complete wilting. These results indicate that the constitutive expression of the rice Xa21 gene in banana results in enhanced resistance against Xcm. Furthermore, this work demonstrates the feasibility of PRR gene transfer between monocotyledonous species and provides a valuable new tool for controlling the BXW pandemic of banana, a staple food for 100 million people in east Africa.

  15. Entropy-based link prediction in weighted networks

    NASA Astrophysics Data System (ADS)

    Xu, Zhongqi; Pu, Cunlai; Ramiz Sharafat, Rajput; Li, Lunbo; Yang, Jian

    2017-01-01

    Information entropy has been proved to be an effective tool to quantify the structural importance of complex networks. In the previous work (Xu et al, 2016 \\cite{xu2016}), we measure the contribution of a path in link prediction with information entropy. In this paper, we further quantify the contribution of a path with both path entropy and path weight, and propose a weighted prediction index based on the contributions of paths, namely Weighted Path Entropy (WPE), to improve the prediction accuracy in weighted networks. Empirical experiments on six weighted real-world networks show that WPE achieves higher prediction accuracy than three typical weighted indices.

  16. Neoclassical toroidal plasma viscosity with effects of finite banana width for finite aspect ratio tokamaks

    NASA Astrophysics Data System (ADS)

    Shaing, K. C.; Sabbagh, S. A.

    2016-07-01

    Theory for neoclassical toroidal plasma viscosity has been developed to model transport phenomena, especially, toroidal plasma rotation for tokamaks with broken symmetry. Theoretical predictions are in agreement with the results of the numerical codes in the large aspect ratio limit. The theory has since been extended to include effects of finite aspect ratio and finite plasma β. Here, β is the ratio of the plasma thermal pressure to the magnetic field pressure. However, there are cases where the radial wavelength of the self-consistent perturbed magnetic field strength B on the perturbed magnetic surface is comparable to the width of the trapped particles, i.e., bananas. To accommodate those cases, the theory for neoclassical toroidal plasma viscosity is further extended here to include the effects of the finite banana width. The extended theory is developed using the orbit averaged drift kinetic equation in the low collisionality regimes. The results of the theory can now be used to model plasma transport, including toroidal plasma rotation, in real finite aspect ratio, and finite plasma β tokamaks with the radial wavelength of the perturbed symmetry breaking magnetic field strength comparable to or longer than the banana width.

  17. Genome-based prediction of testcross values in maize.

    PubMed

    Albrecht, Theresa; Wimmer, Valentin; Auinger, Hans-Jürgen; Erbe, Malena; Knaak, Carsten; Ouzunova, Milena; Simianer, Henner; Schön, Chris-Carolin

    2011-07-01

    This is the first large-scale experimental study on genome-based prediction of testcross values in an advanced cycle breeding population of maize. The study comprised testcross progenies of 1,380 doubled haploid lines of maize derived from 36 crosses and phenotyped for grain yield and grain dry matter content in seven locations. The lines were genotyped with 1,152 single nucleotide polymorphism markers. Pedigree data were available for three generations. We used best linear unbiased prediction and stratified cross-validation to evaluate the performance of prediction models differing in the modeling of relatedness between inbred lines and in the calculation of genome-based coefficients of similarity. The choice of similarity coefficient did not affect prediction accuracies. Models including genomic information yielded significantly higher prediction accuracies than the model based on pedigree information alone. Average prediction accuracies based on genomic data were high even for a complex trait like grain yield (0.72-0.74) when the cross-validation scheme allowed for a high degree of relatedness between the estimation and the test set. When predictions were performed across distantly related families, prediction accuracies decreased significantly (0.47-0.48). Prediction accuracies decreased with decreasing sample size but were still high when the population size was halved (0.67-0.69). The results from this study are encouraging with respect to genome-based prediction of the genetic value of untested lines in advanced cycle breeding populations and the implementation of genomic selection in the breeding process.

  18. Microbiological and physicochemical factors affecting Aspergillus section Flavi incidence in Cavendish banana (Musa cavendishii) chips production in Southern Philippines.

    PubMed

    Sales, A C; Azanza, P V; Yoshizawa, T

    2005-01-01

    Microbiological and physicochemical factors affecting the incidence of Aspergillus section Flavi in dried Cavendish banana (Musa cavendishii) chips production in Southern Philippines were examined. The average counts of Aspergillus section Flavi (AFC) in fresh and dried Cavendish bananas from 10 production batches of the Philippine Agro-Industrial Development Cooperative in Davao del Norte, Southern Philippines were 1.2 x 10(2) and 1.6 x 10(2) cfu/g, respectively. Isolates from both samples were identified to be Aspergillus flavus based on spore type and conidial structure of isolates. An increasing trend in the AFC of Cavendish bananas was observed during dried banana chips processing. Variability in the AFC between production batches was attributed to differences in aerobic and fungal populations and physicochemical characteristics of the fruits, peel damage of the raw materials, concentration of AFC in the air and food-contact surfaces of the production area, and temperature and relative humidity (RH) conditions of the environment during production and storage. Physicochemical characteristics of Cavendish bananas from the receipt of raw materials up to the first day of drying were within the reported range of values allowing growth and toxin production by aflatoxigenic fungi. Air-borne AFC varied depending on the section of the production area examined. The close proximity of the waste disposal area from the production operation to the preparation, drying and storage areas suggests that cross-contamination, probably air-borne or insect-borne was a likely occurrence. The hands of workers were also identified as AFC sources. Results of this study highlight the need for the development of strategies to control aflatoxigenic fungi and aflatoxin contamination in Philippine dried Cavendish bananas.

  19. Vision-Based Predictive Robotic Tracking of a Moving Target.

    DTIC Science & Technology

    1982-01-01

    Carnegie-Mellon University VISION-BASED PREDICTIVE ROBOTIC TRACKING OF A MOVING TARGET Alison E. Hunt and Arthur C. Sanderson Department of...Electrical Engineering and The Robotics Institute Carnegie-Mellon University Pittsburgh, Pennsylvania 15213 DTIC 7LECTEa APR A a, C.- THE I Tis docment has...4. TITLE (and Subtfols) ,S. TYPE OF REPORT 6 PERIOD COVERED VISION-BASED PREDICTIVE ROBOTIC Interim TRACKING OF A MOVING TARGET . PERFORMING OG

  20. Predicting links based on knowledge dissemination in complex network

    NASA Astrophysics Data System (ADS)

    Zhou, Wen; Jia, Yifan

    2017-04-01

    Link prediction is the task of mining the missing links in networks or predicting the next vertex pair to be connected by a link. A lot of link prediction methods were inspired by evolutionary processes of networks. In this paper, a new mechanism for the formation of complex networks called knowledge dissemination (KD) is proposed with the assumption of knowledge disseminating through the paths of a network. Accordingly, a new link prediction method-knowledge dissemination based link prediction (KDLP)-is proposed to test KD. KDLP characterizes vertex similarity based on knowledge quantity (KQ) which measures the importance of a vertex through H-index. Extensive numerical simulations on six real-world networks demonstrate that KDLP is a strong link prediction method which performs at a higher prediction accuracy than four well-known similarity measures including common neighbors, local path index, average commute time and matrix forest index. Furthermore, based on the common conclusion that an excellent link prediction method reveals a good evolving mechanism, the experiment results suggest that KD is a considerable network evolving mechanism for the formation of complex networks.

  1. Mycotoxin Production by Fusarium Species Isolated from Bananas

    PubMed Central

    Jimenez, M.; Huerta, T.; Mateo, R.

    1997-01-01

    The ability of Fusarium species isolated from bananas to produce mycotoxins was studied with 66 isolates of the following species: F. semitectum var. majus (8 isolates), F. camptoceras (3 isolates), a Fusarium sp. (3 isolates), F. moniliforme (16 isolates), F. proliferatum (9 isolates), F. subglutinans (3 isolates), F. solani (3 isolates), F. oxysporum (5 isolates), F. graminearum (7 isolates), F. dimerum (3 isolates), F. acuminatum (3 isolates), and F. equiseti (3 isolates). All isolates were cultured on autoclaved corn grains. Their toxicity to Artemia salina L. larvae was examined. Some of the toxic effects observed arose from the production of known mycotoxins that were determined by thin-layer chromatography, gas chromatography, or high-performance liquid chromatography. All F. camptoceras and Fusarium sp. isolates proved toxic to A. salina larvae; however, no specific toxic metabolites could be identified. This was also the case with eight isolates of F. moniliforme and three of F. proliferatum. The following mycotoxins were encountered in the corn culture extracts: fumonisin B(inf1) (40 to 2,900 (mu)g/g), fumonisin B(inf2) (150 to 320 (mu)g/g), moniliformin (10 to 1,670 (mu)g/g), zearalenone (5 to 470 (mu)g/g), (alpha)-zearalenol (5 to 10 (mu)g/g), deoxynivalenol (8 to 35 (mu)g/g), 3-acetyldeoxynivalenol (5 to 10 (mu)g/g), neosolaniol (50 to 180 (mu)g/g), and T-2 tetraol (5 to 15 (mu)g/g). Based on the results, additional compounds produced by the fungal isolates may play prominent roles in the toxic effects on larvae observed. This is the first reported study on the mycotoxin-producing abilities of Fusarium species that contaminate bananas. PMID:16535503

  2. An improved choice of oscillator basis for banana shaped nuclides

    SciTech Connect

    Chasman, R.R.

    1994-03-01

    The question of the appropriate choice of oscillator basis functions for studying exotic nuclear shapes is raised. Difficulties with the conventional choice of oscillator basis states are noted for shapes having a large banana component. A prescription for an improved oscillator basis to study these shapes is given. It can be applied in a more general context. New calculations with this improved basis are presented for the banana deformation mode. The change of basis gives results that improve the prospects of finding states in the banana minimum for many isotopes of Tl, Pb and Bi.

  3. Carbohydrate Analysis: Can We Control the Ripening of Bananas?

    NASA Astrophysics Data System (ADS)

    Deal, S. Todd; Farmer, Catherine E.; Cerpovicz, Paul F.

    2002-04-01

    We have developed an experiment for nutritional/introductory biochemistry courses that focuses on carbohydrate analysis--specifically, the carbohydrates found in bananas and the change in carbohydrate composition as the banana ripens. Pairs of students analyze the starch and reducing sugar content of green, ripe, and overripe bananas. Using the techniques and knowledge gained from these analyses, they then investigate the influence of various storage methods on the ripening process. While this experiment was developed for an introductory-level biochemistry lab, it can easily be adapted for use in other laboratory programs that seek to teach the fundamentals of carbohydrate analysis.

  4. The natural impact of banana inflorescences (Musa acuminata) on human nutrition.

    PubMed

    Fingolo, Catharina E; Braga, João M A; Vieira, Ana C M; Moura, Mirian R L; Kaplan, Maria Auxiliadora C

    2012-12-01

    Banana inflorescences are popularly known as 'navels,' and they are used in Brazil as nutritional complements. However, the nutritional value of banana inflorescences (male flowers and bracts) has never been studied. Therefore, plant material of Musa acuminata, cultivar "ouro", was collected in Rio de Janeiro state, Brazil, and then submitted to chemical procedures to determine its nutritional composition. The experiment was arranged a completely randomized design and performed in triplicate. The sample composition analysis showed percentual average value for moisture, protein, fat and ash as 8.21, 14.50, 4.04 and 14.43, respectively. The dehydrated inflorescences were found to contain a significant nutritive complement based on their high content of potassium (5008.26 mg / 100 g) and fiber 49.83% (lignin, cellulose and hemicelluloses) revealing important functional and nutritional properties. In a parallel evaluation, the anatomical study revealed key elements for the recognition of Musa acuminata when reduced to fragments.

  5. Epitope prediction based on random peptide library screening: benchmark dataset and prediction tools evaluation.

    PubMed

    Sun, Pingping; Chen, Wenhan; Huang, Yanxin; Wang, Hongyan; Ma, Zhiqiang; Lv, Yinghua

    2011-06-16

    Epitope prediction based on random peptide library screening has become a focus as a promising method in immunoinformatics research. Some novel software and web-based servers have been proposed in recent years and have succeeded in given test cases. However, since the number of available mimotopes with the relevant structure of template-target complex is limited, a systematic evaluation of these methods is still absent. In this study, a new benchmark dataset was defined. Using this benchmark dataset and a representative dataset, five examples of the most popular epitope prediction software products which are based on random peptide library screening have been evaluated. Using the benchmark dataset, in no method did performance exceed a 0.42 precision and 0.37 sensitivity, and the MCC scores suggest that the epitope prediction results of these software programs are greater than random prediction about 0.09-0.13; while using the representative dataset, most of the values of these performance measures are slightly improved, but the overall performance is still not satisfactory. Many test cases in the benchmark dataset cannot be applied to these pieces of software due to software limitations. Moreover chances are that these software products are overfitted to the small dataset and will fail in other cases. Therefore finding the correlation between mimotopes and genuine epitope residues is still far from resolved and much larger dataset for mimotope-based epitope prediction is desirable.

  6. Genetic-based prediction of disease traits: prediction is very difficult, especially about the future.

    PubMed

    Schrodi, Steven J; Mukherjee, Shubhabrata; Shan, Ying; Tromp, Gerard; Sninsky, John J; Callear, Amy P; Carter, Tonia C; Ye, Zhan; Haines, Jonathan L; Brilliant, Murray H; Crane, Paul K; Smelser, Diane T; Elston, Robert C; Weeks, Daniel E

    2014-01-01

    Translation of results from genetic findings to inform medical practice is a highly anticipated goal of human genetics. The aim of this paper is to review and discuss the role of genetics in medically-relevant prediction. Germline genetics presages disease onset and therefore can contribute prognostic signals that augment laboratory tests and clinical features. As such, the impact of genetic-based predictive models on clinical decisions and therapy choice could be profound. However, given that (i) medical traits result from a complex interplay between genetic and environmental factors, (ii) the underlying genetic architectures for susceptibility to common diseases are not well-understood, and (iii) replicable susceptibility alleles, in combination, account for only a moderate amount of disease heritability, there are substantial challenges to constructing and implementing genetic risk prediction models with high utility. In spite of these challenges, concerted progress has continued in this area with an ongoing accumulation of studies that identify disease predisposing genotypes. Several statistical approaches with the aim of predicting disease have been published. Here we summarize the current state of disease susceptibility mapping and pharmacogenetics efforts for risk prediction, describe methods used to construct and evaluate genetic-based predictive models, and discuss applications.

  7. Genetic-based prediction of disease traits: prediction is very difficult, especially about the future†

    PubMed Central

    Schrodi, Steven J.; Mukherjee, Shubhabrata; Shan, Ying; Tromp, Gerard; Sninsky, John J.; Callear, Amy P.; Carter, Tonia C.; Ye, Zhan; Haines, Jonathan L.; Brilliant, Murray H.; Crane, Paul K.; Smelser, Diane T.; Elston, Robert C.; Weeks, Daniel E.

    2014-01-01

    Translation of results from genetic findings to inform medical practice is a highly anticipated goal of human genetics. The aim of this paper is to review and discuss the role of genetics in medically-relevant prediction. Germline genetics presages disease onset and therefore can contribute prognostic signals that augment laboratory tests and clinical features. As such, the impact of genetic-based predictive models on clinical decisions and therapy choice could be profound. However, given that (i) medical traits result from a complex interplay between genetic and environmental factors, (ii) the underlying genetic architectures for susceptibility to common diseases are not well-understood, and (iii) replicable susceptibility alleles, in combination, account for only a moderate amount of disease heritability, there are substantial challenges to constructing and implementing genetic risk prediction models with high utility. In spite of these challenges, concerted progress has continued in this area with an ongoing accumulation of studies that identify disease predisposing genotypes. Several statistical approaches with the aim of predicting disease have been published. Here we summarize the current state of disease susceptibility mapping and pharmacogenetics efforts for risk prediction, describe methods used to construct and evaluate genetic-based predictive models, and discuss applications. PMID:24917882

  8. The OASE project: Object-based Analysis and Seamless prediction

    NASA Astrophysics Data System (ADS)

    Troemel, Silke; Wapler, Kathrin; Bick, Theresa; Diederich, Malte; Deneke, Hartwig; Horvath, Akos; Senf, Fabian; Simmer, Clemens; Simon, Juergen

    2013-04-01

    The research group on Object-based Analysis and SEamless prediction (OASE) is part of the Hans Ertel Centre for Weather Research (HErZ). The group consists of scientists at the Meteorological Institute, University of Bonn, the Leibniz-Institute for Tropospheric Research in Leipzig and the German Weather Service. OASE addresses seamless prediction of convective events from nowcasting to daily predictions by combining radar/satellite compositing and tracking with high-resolution model-based ensemble generation and prediction. While observation-based nowcasting provides good results for lead times between 0-1 hours, numerical weather prediction addresses lead times between 3-21 hours. Especially the discontinuity between 1-3 hours needs to be addressed. Therefore a central goal of the project is a near real-time high-resolved unprecedented data base. A radar and satellite remote sensing-driven 3D observation-microphysics composite covering Germany, currently under development, contains gridded observations and estimated microphysical quantities. Observations and microphysics are intertwined via forward operators and estimated inverse relations, which also provide uncertainties for model ensemble initialisations. The lifetime evolution of dynamics and microphysics in (severe) convective storms is analysed based on 3D scale-space tracking. An object-based analysis condenses the information contained in the dynamic 3D distributions of observables and related microphysics into descriptors, which will allow identifying governing processes leading to the formation and evolution of severe weather events. The object-based approach efficiently characterises and quantifies the process structure and life cycles of severe weather events, and facilitates nowcasting and the generation and initialisation of model prediction ensembles. Observation-based nowcasting will exploit the dual-composite based 3D feature detection and tracking to generate a set of predictions (observation-based

  9. Iron absorption in raw and cooked bananas: a field study using stable isotopes in women

    PubMed Central

    García, Olga P.; Martínez, Mara; Romano, Diana; Camacho, Mariela; de Moura, Fabiana F.; Abrams, Steve A.; Khanna, Harjeet K.; Dale, James L.; Rosado, Jorge L.

    2015-01-01

    Background Banana is a staple food in many regions with high iron deficiency and may be a potential vehicle for iron fortification. However, iron absorption from bananas is not known. Objective The objective of this study was to evaluate total iron absorption from raw and cooked bananas. Design Thirty women (34.9±6.6 years) from rural Mexico were randomly assigned to one of two groups each consuming: 1) 480 g/day of raw banana for 6 days, or 2) 500 g/day of cooked banana for 4 days. Iron absorption was measured after extrinsically labeling with 2 mg of 58Fe and a reference dose of 6 mg 57Fe; analysis was done using ICP-MS. Results Iron content in cooked bananas was significantly higher than raw bananas (0.53 mg/100 g bananas vs. 0.33 mg/100 mg bananas, respectively) (p<0.001). Percent iron absorption was significantly higher in raw bananas (49.3±21.3%) compared with cooked banana (33.9±16.2%) (p=0.035). Total amount of iron absorbed from raw and cooked bananas was similar (0.77±0.33 mg vs. 0.86±0.41 mg, respectively). Conclusion Total amount of absorbed iron is similar between cooked and raw bananas. The banana matrix does not affect iron absorption and is therefore a potential effective target for genetic modification for iron biofortification. PMID:25660254

  10. Predictive Capability for Hot Spot Ignition of Double Base Propellants

    DTIC Science & Technology

    2009-08-01

    propellants are composed of nitrocellulose and stirred with a reactive plasticizer liquid nitrate ester such as nitroglycerine which also affects the oxygen...Predictive Capability for Hot Spot Ignition of Double Base Propellants by Stephan R. Bilyk ARL-RP-261 August 2009...Ignition of Double Base Propellants Stephan R. Bilyk Weapons and Materials Research Directorate, ARL A reprint from the 2006

  11. Prediction-based Dynamic Energy Management in Wireless Sensor Networks

    PubMed Central

    Wang, Xue; Ma, Jun-Jie; Wang, Sheng; Bi, Dao-Wei

    2007-01-01

    Energy consumption is a critical constraint in wireless sensor networks. Focusing on the energy efficiency problem of wireless sensor networks, this paper proposes a method of prediction-based dynamic energy management. A particle filter was introduced to predict a target state, which was adopted to awaken wireless sensor nodes so that their sleep time was prolonged. With the distributed computing capability of nodes, an optimization approach of distributed genetic algorithm and simulated annealing was proposed to minimize the energy consumption of measurement. Considering the application of target tracking, we implemented target position prediction, node sleep scheduling and optimal sensing node selection. Moreover, a routing scheme of forwarding nodes was presented to achieve extra energy conservation. Experimental results of target tracking verified that energy-efficiency is enhanced by prediction-based dynamic energy management.

  12. Noncausal spatial prediction filtering based on an ARMA model

    NASA Astrophysics Data System (ADS)

    Liu, Zhipeng; Chen, Xiaohong; Li, Jingye

    2009-06-01

    Conventional f-x prediction filtering methods are based on an autoregressive model. The error section is first computed as a source noise but is removed as additive noise to obtain the signal, which results in an assumption inconsistency before and after filtering. In this paper, an autoregressive, moving-average model is employed to avoid the model inconsistency. Based on the ARMA model, a noncasual prediction filter is computed and a self-deconvolved projection filter is used for estimating additive noise in order to suppress random noise. The 1-D ARMA model is also extended to the 2-D spatial domain, which is the basis for noncasual spatial prediction filtering for random noise attenuation on 3-D seismic data. Synthetic and field data processing indicate this method can suppress random noise more effectively and preserve the signal simultaneously and does much better than other conventional prediction filtering methods.

  13. Comparative susceptibility of two banana cultivars to Banana bunchy top virus under laboratory and field environments.

    PubMed

    Hooks, C R R; Manandhar, R; Perez, E P; Wang, K H; Almeida, R P P

    2009-06-01

    Field and laboratory experiments were carried out on the island of Oahu, HI, to compare the susceptibility of the two most commonly grown banana (Musa sp.) cultivars in the state ('Dwarf Brazilian' or Santa Catarina [locally known as dwarf apple] and 'Williams') to the aphid-borne Banana bunchy top virus (genus Babuvirus, family Nanoviridae, BBTV). Several morphological and physiological features of the two cultivars were monitored to determine whether the banana aphid, Pentalonia nigronervosa Coquerel (Hemiptera: Aphididae), transmits BBTV to both cultivars at a similar rate; and whether after successful inoculation, does each cultivar respond similarly to viral infection. Results from the laboratory experiment showed that a similar percentage of both cultivars were infected with BBTV by aphid vectors (> 90% for both cultivars). However, field results showed a significantly lower percentage of dwarf apple (39%) infected with BBTV compared with Williams (79%). We also found that all physiological and morphological features measured (i.e., plant height, leaf area, canopy, chlorophyll level, and moisture content) for both cultivars were impacted similarly by BBTV. The incubation period, or the time between plant infection and initial appearance of disease symptoms, was similar for both cultivars. Results also showed that BBTV transmission efficiency was lower in the field than in the laboratory, despite that more aphids per plant were used for field than laboratory inoculation tests. The results highlight the potential use of less susceptible cultivars to help manage BBTV and the importance of screening banana varieties in the field to determine their response to vectors and associated diseases.

  14. Propagating uncertainties in statistical model based shape prediction

    NASA Astrophysics Data System (ADS)

    Syrkina, Ekaterina; Blanc, Rémi; Székely, Gàbor

    2011-03-01

    This paper addresses the question of accuracy assessment and confidence regions estimation in statistical model based shape prediction. Shape prediction consists in estimating the shape of an organ based on a partial observation, due e.g. to a limited field of view or poorly contrasted images, and generally requires a statistical model. However, such predictions can be impaired by several sources of uncertainty, in particular the presence of noise in the observation, limited correlations between the predictors and the shape to predict, as well as limitations of the statistical shape model - in particular the number of training samples. We propose a framework which takes these into account and derives confidence regions around the predicted shape. Our method relies on the construction of two separate statistical shape models, for the predictors and for the unseen parts, and exploits the correlations between them assuming a joint Gaussian distribution. Limitations of the models are taken into account by jointly optimizing the prediction and minimizing the shape reconstruction error through cross-validation. An application to the prediction of the shape of the proximal part of the human tibia given the shape of the distal femur is proposed, as well as the evaluation of the reliability of the estimated confidence regions, using a database of 184 samples. Potential applications are reconstructive surgery, e.g. to assess whether an implant fits in a range of acceptable shapes, or functional neurosurgery when the target's position is not directly visible and needs to be inferred from nearby visible structures.

  15. OPTIMIZATION BIAS IN ENERGY-BASED STRUCTURE PREDICTION.

    PubMed

    Petrella, Robert J

    2013-12-01

    Physics-based computational approaches to predicting the structure of macromolecules such as proteins are gaining increased use, but there are remaining challenges. In the current work, it is demonstrated that in energy-based prediction methods, the degree of optimization of the sampled structures can influence the prediction results. In particular, discrepancies in the degree of local sampling can bias the predictions in favor of the oversampled structures by shifting the local probability distributions of the minimum sampled energies. In simple systems, it is shown that the magnitude of the errors can be calculated from the energy surface, and for certain model systems, derived analytically. Further, it is shown that for energy wells whose forms differ only by a randomly assigned energy shift, the optimal accuracy of prediction is achieved when the sampling around each structure is equal. Energy correction terms can be used in cases of unequal sampling to reproduce the total probabilities that would occur under equal sampling, but optimal corrections only partially restore the prediction accuracy lost to unequal sampling. For multiwell systems, the determination of the correction terms is a multibody problem; it is shown that the involved cross-correlation multiple integrals can be reduced to simpler integrals. The possible implications of the current analysis for macromolecular structure prediction are discussed.

  16. Weight prediction in complex networks based on neighbor set

    NASA Astrophysics Data System (ADS)

    Zhu, Boyao; Xia, Yongxiang; Zhang, Xue-Jun

    2016-12-01

    Link weights are essential to network functionality, so weight prediction is important for understanding weighted networks given incomplete real-world data. In this work, we develop a novel method for weight prediction based on the local network structure, namely, the set of neighbors of each node. The performance of this method is validated in two cases. In the first case, some links are missing altogether along with their weights, while in the second case all links are known and weight information is missing for some links. Empirical experiments on real-world networks indicate that our method can provide accurate predictions of link weights in both cases.

  17. Weight prediction in complex networks based on neighbor set

    PubMed Central

    Zhu, Boyao; Xia, Yongxiang; Zhang, Xue-Jun

    2016-01-01

    Link weights are essential to network functionality, so weight prediction is important for understanding weighted networks given incomplete real-world data. In this work, we develop a novel method for weight prediction based on the local network structure, namely, the set of neighbors of each node. The performance of this method is validated in two cases. In the first case, some links are missing altogether along with their weights, while in the second case all links are known and weight information is missing for some links. Empirical experiments on real-world networks indicate that our method can provide accurate predictions of link weights in both cases. PMID:27905497

  18. Cloud Based Metalearning System for Predictive Modeling of Biomedical Data

    PubMed Central

    Vukićević, Milan

    2014-01-01

    Rapid growth and storage of biomedical data enabled many opportunities for predictive modeling and improvement of healthcare processes. On the other side analysis of such large amounts of data is a difficult and computationally intensive task for most existing data mining algorithms. This problem is addressed by proposing a cloud based system that integrates metalearning framework for ranking and selection of best predictive algorithms for data at hand and open source big data technologies for analysis of biomedical data. PMID:24892101

  19. CRAFFT: An Activity Prediction Model based on Bayesian Networks.

    PubMed

    Nazerfard, Ehsan; Cook, Diane J

    2015-04-01

    Recent advances in the areas of pervasive computing, data mining, and machine learning offer unique opportunities to provide health monitoring and assistance for individuals facing difficulties to live independently in their homes. Several components have to work together to provide health monitoring for smart home residents including, but not limited to, activity recognition, activity discovery, activity prediction, and prompting system. Compared to the significant research done to discover and recognize activities, less attention has been given to predict the future activities that the resident is likely to perform. Activity prediction components can play a major role in design of a smart home. For instance, by taking advantage of an activity prediction module, a smart home can learn context-aware rules to prompt individuals to initiate important activities. In this paper, we propose an activity prediction model using Bayesian networks together with a novel two-step inference process to predict both the next activity features and the next activity label. We also propose an approach to predict the start time of the next activity which is based on modeling the relative start time of the predicted activity using the continuous normal distribution and outlier detection. To validate our proposed models, we used real data collected from physical smart environments.

  20. Lipophilic phytochemicals from banana fruits of several Musa species.

    PubMed

    Vilela, Carla; Santos, Sónia A O; Villaverde, Juan J; Oliveira, Lúcia; Nunes, Alberto; Cordeiro, Nereida; Freire, Carmen S R; Silvestre, Armando J D

    2014-11-01

    The chemical composition of the lipophilic extract of ripe pulp of banana fruit from several banana cultivars belonging to the Musa acuminata and Musa balbisiana species (namely 'Chinese Cavendish', 'Giant Cavendish', 'Dwarf Red', 'Grand Nain', 'Eilon', 'Gruesa', 'Silver', 'Ricasa', 'Williams' and 'Zelig') was studied by gas chromatography-mass spectrometry for the first time. The banana cultivars showed similar amounts of lipophilic extractives (ca. 0.4% of dry material weight) as well as qualitative chemical compositions. The major groups of compounds identified in these fractions were fatty acids and sterols making up 68.6-84.3% and 11.1-28.0%, respectively, of the total amount of lipophilic components. Smaller amounts of long chain aliphatic alcohols and α-tocopherol were also identified. These results are a relevant contribution for the valorisation of these banana cultivars as sources of valuable phytochemicals (ω-3 and ω-6 fatty acids, and sterols) with well-established beneficial nutritional and health effects.

  1. Acetylation and characterization of banana (Musa paradisiaca) starch.

    PubMed

    Bello-Pérez, L A; Contreras-Ramos, S M; Jìmenez-Aparicio, A; Paredes-López, O

    2000-01-01

    Banana native starch was acetylated and some of its functional properties were evaluated and compared to corn starch. In general, acetylated banana starch presented higher values in ash, protein and fat than corn acetylated starch. The modified starches had minor tendency to retrogradation assessed as % transmittance of starch pastes. At high temperature acetylated starches presented a water retention capacity similar to their native counterpart. The acetylation considerably increased the solubility of starches, and a similar behavior was found for swelling power. When freeze-thaw stability was studied, acetyl banana starch drained approximately 60% of water in the first and second cycles, but in the third and fourth cycles the percentage of separated water was low. However, acetyl corn starch showed lower freeze-thaw stability than the untreated sample. The modification increased the viscosity of banana starch pastes.

  2. Prediction Assessments: Using Video-Based Predictions to Assess Prospective Teachers' Knowledge of Students' Mathematical Thinking

    ERIC Educational Resources Information Center

    Norton, Anderson; McCloskey, Andrea; Hudson, Rick A.

    2011-01-01

    In order to evaluate the effectiveness of an experimental elementary mathematics field experience course, we have designed a new assessment instrument. These video-based prediction assessments engage prospective teachers in a video analysis of a child solving mathematical tasks. The prospective teachers build a model of that child's mathematics…

  3. Operationalizing climate-based epidemic prediction models: Rift Valley fever prediction system experience

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Background There is considerable optimism that climate data and predictions will facilitate early warning of infectious disease epidemics. Interest in climate-based epidemic forecasting stems from climate-disease associations and global climate change (rising temperatures may extend arthropod vecto...

  4. A vertical handoff decision algorithm based on ARMA prediction model

    NASA Astrophysics Data System (ADS)

    Li, Ru; Shen, Jiao; Chen, Jun; Liu, Qiuhuan

    2011-12-01

    With the development of computer technology and the increasing demand for mobile communications, the next generation wireless networks will be composed of various wireless networks (e.g., WiMAX and WiFi). Vertical handoff is a key technology of next generation wireless networks. During the vertical handoff procedure, handoff decision is a crucial issue for an efficient mobility. Based on auto regression moving average (ARMA) prediction model, we propose a vertical handoff decision algorithm, which aims to improve the performance of vertical handoff and avoid unnecessary handoff. Based on the current received signal strength (RSS) and the previous RSS, the proposed approach adopt ARMA model to predict the next RSS. And then according to the predicted RSS to determine whether trigger the link layer triggering event and complete vertical handoff. The simulation results indicate that the proposed algorithm outperforms the RSS-based scheme with a threshold in the performance of handoff and the number of handoff.

  5. A vertical handoff decision algorithm based on ARMA prediction model

    NASA Astrophysics Data System (ADS)

    Li, Ru; Shen, Jiao; Chen, Jun; Liu, Qiuhuan

    2012-01-01

    With the development of computer technology and the increasing demand for mobile communications, the next generation wireless networks will be composed of various wireless networks (e.g., WiMAX and WiFi). Vertical handoff is a key technology of next generation wireless networks. During the vertical handoff procedure, handoff decision is a crucial issue for an efficient mobility. Based on auto regression moving average (ARMA) prediction model, we propose a vertical handoff decision algorithm, which aims to improve the performance of vertical handoff and avoid unnecessary handoff. Based on the current received signal strength (RSS) and the previous RSS, the proposed approach adopt ARMA model to predict the next RSS. And then according to the predicted RSS to determine whether trigger the link layer triggering event and complete vertical handoff. The simulation results indicate that the proposed algorithm outperforms the RSS-based scheme with a threshold in the performance of handoff and the number of handoff.

  6. Genetic and functional diversity among fluorescent pseudomonads isolated from the rhizosphere of banana.

    PubMed

    Naik, Popavath Ravindra; Sahoo, Nirakar; Goswami, Devrishi; Ayyadurai, Niraikulam; Sakthivel, Natarajan

    2008-10-01

    Fluorescent pseudomonads from banana rhizospheric soil were isolated and screened for the production of enzymes and hormones such as phosphatase, indole-3-acetic acid (IAA), 1-aminocyclopropane-1-carboxylate (ACC) deaminase, protease, and antifungal metabolites. Of 95 isolates, 50 (52%) isolates solubilized tri-calcium phosphate (TCP), 63 (66%) isolates produced plant growth hormone IAA, 10 (11%) isolates exhibited ACC deaminase, and 23 (24%) isolates produced protease. Isolates were screened for antifungal activity toward phytopathogenic fungi. Gene-specific primers have identified the putative antibiotic producing isolates. These putative isolates were grown in the production media and production of antibiotics was confirmed by thin-layer chromatography (TLC) and high-performance liquid chromatography (HPLC). Genotypic analysis by BOX (bacterial repetitive BOX element)-polymerase chain reaction (PCR) resulted into three distinct genomic clusters at a 50% similarity level and 62 distinct BOX profiles. Based on the sequence similarity of 16S rRNA and construction of subsequent phylogenetic tree analysis, isolates were designated as Pseudomonas monteilii, P. plecoglossicida, P. fluorescens, P. fulva, P. mosselii, P. aeruginosa, P. alcaligenes, and P. pseudoalcaligenes. Present study revealed the genetic and functional diversity among isolates of fluorescent pseudomonads associated with rhizospheric soil of banana and also identified P. monteilii as dominant species. The knowledge on genetic and functional diversity of fluorescent pseudomonads associated with banana rhizosphere is useful to understand their ecological role and for their utilization in sustainable agriculture.

  7. Use of competitive PCR to assay copy number of repetitive elements in banana.

    PubMed

    Baurens, F C; Noyer, J L; Lanaud, C; Lagoda, P J

    1996-11-27

    Banana is one of the most important subtropical fruit crops. Genetic improvement by traditional breeding strategies is difficult and better knowledge of genomic structure is needed. Repeated sequences are powerful markers for genetic fingerprinting. The method proposed here to determine the copy number of nuclear repetitive elements is based on competitive reverse transcription-polymerase chain reaction and can also be used for quantifying cytosolic sequences. The reliability of this method was investigated on crude preparations of total DNA. Variations due to the heterogeneity of crude DNA extracts showed that a single locus reference is needed for accurate quantification. A mapped microsatellite locus was used to normalize copy number measurements. Copy number assay of repetitive elements using this method clearly distinguishes between the two banana subspecies investigated: Musa acuminata spp. banskii and M. acuminata spp. malaccensis. Two repetitive sequence families, pMaCIR1115 and pA9-26, were assayed that cover up to 1% of the M. acuminata genome. Their copy number varied up to six fold between the two subspecies. Furthermore, sequence quantification showed that mitochondrial genomes are present in crude leaf-extracted banana DNA at up to 40 copies per cell.

  8. Pretreatment of banana agricultural waste for bio-ethanol production: individual and interactive effects of acid and alkali pretreatments with autoclaving, microwave heating and ultrasonication.

    PubMed

    Gabhane, Jagdish; William, S P M Prince; Gadhe, Abhijit; Rath, Ritika; Vaidya, Atul Narayan; Wate, Satish

    2014-02-01

    Banana agricultural waste is one of the potential lignocellulosic substrates which are mostly un-utilized but sufficiently available in many parts of the world. In the present study, suitability of banana waste for biofuel production with respect to pretreatment and reducing sugar yield was assessed. The effectiveness of both acid and alkali pretreatments along with autoclaving, microwave heating and ultrasonication on different morphological parts of banana (BMPs) was studied. The data were statistically analyzed using ANOVA and numerical point prediction tool of MINITAB RELEASE 14. Accordingly, the optimum cumulative conditions for maximum recovery of reducing sugar through acid pretreatment are: leaf (LF) as the substrate with 25 min of reaction time and 180°C of reaction temperature using microwave. Whereas, the optimum conditions for alkaline pretreatments are: pith (PH) as the substrate with 51 min of reaction time and 50°C of reaction temperature using ultrasonication (US).

  9. Decadal prediction of Sahel rainfall using dynamics-based indices

    NASA Astrophysics Data System (ADS)

    Otero, Noelia; Mohino, Elsa; Gaetani, Marco

    2016-12-01

    At decadal time scales, the capability of state-of-the-art atmosphere-ocean coupled climate models in predicting the precipitation in Sahel is assessed. A set of 14 models participating in the Coupled Model Intercomparison Project Phase 5 (CMIP5) is selected and two experiments are analysed, namely initialized decadal hindcasts and forced historical simulations. Considering the strong linkage of the atmospheric circulation signatures over West Africa with the rainfall variability, this study aims to investigate the potential of using wind fields for decadal predictions. Namely, a West African monsoon index (WAMI) is defined, based on the coherence of low (925 hPa) and high (200 hPa) troposphere wind fields, which accounts for the intensity of the monsoonal circulation. A combined empirical orthogonal functions analysis is applied to explore the wind fields' covariance modes, and a set of indices is defined on the basis of the identified patterns. The WAMI predictive skill is assessed by comparing WAMI from coupled models with WAMI from reanalysis products and with a standardized precipitation index (SPI) from observations. Results suggest that the predictive skill is highly model dependent and it is strongly related to the WAMI definition. In addition, hindcasts are more skilful than historical simulations in both deterministic and probability forecasts, which suggests an added value of initialization for decadal predictability. Moreover, coupled models are more skilful in predicting the observed SPI than the WAMI obtained from reanalysis. WAMI performance is also compared with decadal predictions from CMIP5 models based on a Sahelian precipitation index, and an improvement in predictive skill is observed in some models when WAMI is used. Therefore, we conclude that dynamics-based indices are potentially more effective for decadal prediction of precipitation in Sahel than precipitation-based indices for those models in which Sahel rainfall variability is not well

  10. Sap phytochemical compositions of some bananas in Thailand.

    PubMed

    Pothavorn, Pongsagon; Kitdamrongsont, Kasipong; Swangpol, Sasivimon; Wongniam, Siripope; Atawongsa, Kanokporn; Savasti, Jisnuson; Somana, Jamorn

    2010-08-11

    Banana sap has some special properties relating to various phenomena such as browning of fruits after harvesting, permanent staining of cloth and fibers, and antioxidant and antibleeding properties. Analysis of banana sap using high-performance liquid chromatography-electrospray ionization-mass spectrometry (HPLC-ESI-MS) indicated the presence of phenolic and aromatic amino compounds of interest due to their special properties. With the online positive electrospray ionization mode (ESI), the possible structures of specific compounds were determined from the fragmentation patterns of each particular ion appearing in the mass spectra. The major compounds revealed from the sap of banana accessions, namely, Musa balbisiana , Musa laterita , Musa ornata , and Musa acuminata , and some cultivars were apigenin glycosides, myricetin glycoside, myricetin-3-O-rutinoside, naringenin glycosides, kaempferol-3-O-rutinoside, quercetin-3-O-rutinoside, dopamine, and N-acetylserotonin. The results indicated that there was a variety of phenolic and aromatic amino contents in many banana species. These compounds were reported to relate with biological activities. Moreover, the identities of these phytochemical compositions may be used as markers for banana diet, the assessment of physiochemical status, or the classification of banana clones.

  11. Metabolism of Flavonoids in Novel Banana Germplasm during Fruit Development

    PubMed Central

    Dong, Chen; Hu, Huigang; Hu, Yulin; Xie, Jianghui

    2016-01-01

    Banana is a commercially important fruit, but its flavonoid composition and characteristics has not been well studied in detail. In the present study, the metabolism of flavonoids was investigated in banana pulp during the entire developmental period of fruit. ‘Xiangfen 1,’ a novel flavonoid-rich banana germplasm, was studied with ‘Brazil’ serving as a control. In both varieties, flavonoids were found to exist mainly in free soluble form and quercetin was the predominant flavonoid. The most abundant free soluble flavonoid was cyanidin-3-O-glucoside chloride, and quercetin was the major conjugated soluble and bound flavonoid. Higher content of soluble flavonoids was associated with stronger antioxidant activity compared with the bound flavonoids. Strong correlation was observed between antioxidant activity and cyanidin-3-O-glucoside chloride content, suggesting that cyanidin-3-O-glucoside chloride is one of the major antioxidants in banana. In addition, compared with ‘Brazil,’ ‘Xiangfen 1’ fruit exhibited higher antioxidant activity and had more total flavonoids. These results indicate that soluble flavonoids play a key role in the antioxidant activity of banana, and ‘Xiangfen 1’ banana can be a rich source of natural antioxidants in human diets. PMID:27625665

  12. Effect of cooking on banana and plantain texture.

    PubMed

    Qi, B; Moore, K G; Orchard, J

    2000-09-01

    The effect of temperature and duration of cooking on plantain and banana fruit texture and cytpoplasmic and cell wall components was investigated. The firmness of both banana and plantain pulp tissues decreased rapidly during the first 10 min of cooking in water above 70 degrees C, although plantain was much firmer than banana. Cooking resulted in pectin solubilzation and middle lamella dissolution leading to cell wall separation (as observed by SEM). Dessert banana showed more advanced and extensive breakdown than plantain. Although dessert banana had a higher total pectin content than plantain, the former had smaller-sized carboxyethylenediaminetetraacetic acid (CDTA) soluble pectic polymers which are associated with plant tissues that have a propensity to soften. Plantain had higher levels of starch and amylose than banana but this was associated with a firmer fruit texture rather than a softening due to cell swelling during starch gelatinization. Different cooking treatments showed that cooking in 0.5% of CaCl(2) solution and temperatures below 70 degrees C had significant effects on maintenance of pulp firmness.

  13. Estimating ENSO predictability based on multi-model hindcasts

    NASA Astrophysics Data System (ADS)

    Kumar, Arun; Hu, Zeng-Zhen; Jha, Bhaskar; Peng, Peitao

    2017-01-01

    Based on hindcasts of seasonal forecast systems participating in the North American Multi-Model Ensemble, the seasonal dependence of predictability of the El Niño-Southern Oscillation (ENSO) was estimated. The results were consistent with earlier analyses in that the predictability of ENSO was highest in winter and lowest in spring and summer. Further, predictability as measured by the relative amplitude of predictable and unpredictable components was dominated by the ensemble mean instead of the spread (or dispersion) among ensemble members. This result was consistent with previous analysis that most of ENSO predictability resides in the shift of the probability density function (PDF) of ENSO sea surface temperature (SST) anomalies (i.e., changes in the first moment of the PDF that is associated with the ensemble mean of ENSO SST anomalies) rather than due to changes in the spread of the PDF. The analysis establishes our current best estimate of ENSO predictability that can serve as a benchmark for quantifying further improvements resulting from advances in observing, assimilation, and seasonal prediction systems.

  14. Prediction on carbon dioxide emissions based on fuzzy rules

    NASA Astrophysics Data System (ADS)

    Pauzi, Herrini; Abdullah, Lazim

    2014-06-01

    There are several ways to predict air quality, varying from simple regression to models based on artificial intelligence. Most of the conventional methods are not sufficiently able to provide good forecasting performances due to the problems with non-linearity uncertainty and complexity of the data. Artificial intelligence techniques are successfully used in modeling air quality in order to cope with the problems. This paper describes fuzzy inference system (FIS) to predict CO2 emissions in Malaysia. Furthermore, adaptive neuro-fuzzy inference system (ANFIS) is used to compare the prediction performance. Data of five variables: energy use, gross domestic product per capita, population density, combustible renewable and waste and CO2 intensity are employed in this comparative study. The results from the two model proposed are compared and it is clearly shown that the ANFIS outperforms FIS in CO2 prediction.

  15. Banana peel: an effective biosorbent for aflatoxins.

    PubMed

    Shar, Zahid Hussain; Fletcher, Mary T; Sumbal, Gul Amer; Sherazi, Syed Tufail Hussain; Giles, Cindy; Bhanger, Muhammad Iqbal; Nizamani, Shafi Muhammad

    2016-05-01

    This work reports the application of banana peel as a novel bioadsorbent for in vitro removal of five mycotoxins (aflatoxins (AFB1, AFB2, AFG1, AFG2) and ochratoxin A). The effect of operational parameters including initial pH, adsorbent dose, contact time and temperature were studied in batch adsorption experiments. Scanning electron microscopy (SEM), Fourier transform infrared spectroscopy (FTIR) and point of zero charge (pHpzc) analysis were used to characterise the adsorbent material. Aflatoxins' adsorption equilibrium was achieved in 15 min, with highest adsorption at alkaline pH (6-8), while ochratoxin has not shown any significant adsorption due to surface charge repulsion. The experimental equilibrium data were tested by Langmuir, Freundlich and Hill isotherms. The Langmuir isotherm was found to be the best fitted model for aflatoxins, and the maximum monolayer coverage (Q0) was determined to be 8.4, 9.5, 0.4 and 1.1 ng mg(-1) for AFB1, AFB2, AFG1 and AFG2 respectively. Thermodynamic parameters including changes in free energy (ΔG), enthalpy (ΔH) and entropy (ΔS) were determined for the four aflatoxins. Free energy change and enthalpy change demonstrated that the adsorption process was exothermic and spontaneous. Adsorption and desorption study at different pH further demonstrated that the sorption of toxins was strong enough to sustain pH changes that would be experienced in the gastrointestinal tract. This study suggests that biosorption of aflatoxins by dried banana peel may be an effective low-cost decontamination method for incorporation in animal feed diets.

  16. Model-Based Predictive Control of Turbulent Channel Flow

    NASA Astrophysics Data System (ADS)

    Kellogg, Steven M.; Collis, S. Scott

    1999-11-01

    In recent simulations of optimal turbulence control, the time horizon over which the control is determined matches the time horizon over which the flow is advanced. A popular workhorse of the controls community, Model-Based Predictive Control (MBPC), suggests using longer predictive horizons than advancement windows. Including additional time information in the optimization may generate improved controls. When the advancement horizon is smaller than the predictive horizon, part of the optimization and resulting control are discarded. Although this inherent inefficiency may be justified by improved control predictions, it has hampered prior investigations of MBPC for turbulent flow due to the expense associated with optimal control based on Direct Numerical Simulation. The current approach overcomes this by using our optimal control formulation based on Large Eddy Simulation. This presentation summarizes the results of optimal control simulations for turbulent channel flow using various ratios of advancement and predictive horizons. These results provide clues as to the roles of foresight, control history, cost functional, and turbulence structures for optimal control of wall-bounded turbulence.

  17. Drug-target interaction prediction from PSSM based evolutionary information.

    PubMed

    Mousavian, Zaynab; Khakabimamaghani, Sahand; Kavousi, Kaveh; Masoudi-Nejad, Ali

    2016-01-01

    The labor-intensive and expensive experimental process of drug-target interaction prediction has motivated many researchers to focus on in silico prediction, which leads to the helpful information in supporting the experimental interaction data. Therefore, they have proposed several computational approaches for discovering new drug-target interactions. Several learning-based methods have been increasingly developed which can be categorized into two main groups: similarity-based and feature-based. In this paper, we firstly use the bi-gram features extracted from the Position Specific Scoring Matrix (PSSM) of proteins in predicting drug-target interactions. Our results demonstrate the high-confidence prediction ability of the Bigram-PSSM model in terms of several performance indicators specifically for enzymes and ion channels. Moreover, we investigate the impact of negative selection strategy on the performance of the prediction, which is not widely taken into account in the other relevant studies. This is important, as the number of non-interacting drug-target pairs are usually extremely large in comparison with the number of interacting ones in existing drug-target interaction data. An interesting observation is that different levels of performance reduction have been attained for four datasets when we change the sampling method from the random sampling to the balanced sampling.

  18. [Effects of continuous application of bio-organic fertilizer on banana production and cultural microflora of bulk soil in orchard with serious disease incidence].

    PubMed

    Zhong, Shu-tang; Shen, Zong-zhuan; Sun, Yi-fei; Lyu, Na-na; Ruan, Yun-ze; Li, Rong; Shen, Qi-rong

    2015-02-01

    A field experiment was conducted for two years to investigate the effects of different fertilization applications on the suppression of banana fusarium wilt disease, crop yield, fruit quality and culturable microflora in a banana orchard which has been monocultured with banana for 12 years and suffered serious banana fusarium wilt disease. The fertilizers included chemical fertilizer (CF), cow manure compost (CM), pig manure compost (PM) and bio-organic fertilizer (BIO). The banana soil microflora was invested using plate-counting method and culture-dependent polymerase chain reaction denaturing gradient gel electrophoresis method (CD PCR-DGGE). Results showed that, compared with the other treatments, 2-year consecutive application of BIO significantly reduced the banana fusarium wilt disease incidence, and improved the banana mass per tree, crop yield, total soluble sugar content and the ratio of total soluble sugar to titratable acidity of fruits (sugar/acid ratio). Moreover, the analysis of culturable microflora showed that BIO application significantly increased the soil microbial biomass, soil culturable bacteria, bacillus and actinomycetes, and the ratio of bacteria to fungi (B/F) , while decreased the Fusarium oxysporum. Based on the CD PCR-DGGE results, the BIO application significantly altered the soil culturable bacterial structure and showed highest richness and diversity after 2 years of BIO application. The phylogenetic analysis of the selected bands showed that BIO application enriched the soil with the species of Paenibacillus sp., Burkholderia sp., uncultured Verrucomicrobia sp. and Bacillus aryabhattai, and depressed the species of Ralstonia sp., Chryseobacterium gleum, Fluviicola taffensis, Enterobacter sp. and Bacillus megaterium. These results confirmed that the continuous application of BIO effectively controlled the fusarium wilt disease, improved the crop yield and fruit quality, and modulated the soil culturable microflora under field

  19. THE FUTURE OF COMPUTER-BASED TOXICITY PREDICTION: MECHANISM-BASED MODELS VS. INFORMATION MINING APPROACHES

    EPA Science Inventory


    The Future of Computer-Based Toxicity Prediction:
    Mechanism-Based
    Models vs. Information Mining Approaches

    When we speak of computer-based toxicity prediction, we are generally referring to a broad array of approaches which rely primarily upon chemical structure ...

  20. Molecular characterization of banana bunchy top virus isolate from Sri Lanka and its genetic relationship with other isolates.

    PubMed

    Wickramaarachchi, W A R T; Shankarappa, K S; Rangaswamy, K T; Maruthi, M N; Rajapakse, R G A S; Ghosh, Saptarshi

    2016-06-01

    Bunchy top disease of banana caused by Banana bunchy top virus (BBTV, genus Babuvirus family Nanoviridae) is one of the most important constraints in production of banana in the different parts of the world. Six genomic DNA components of BBTV isolate from Kandy, Sri Lanka (BBTV-K) were amplified by polymerase chain reaction (PCR) with specific primers using total DNA extracted from banana tissues showing typical symptoms of bunchy top disease. The amplicons were of expected size of 1.0-1.1 kb, which were cloned and sequenced. Analysis of sequence data revealed the presence of six DNA components; DNA-R, DNA-U3, DNA-S, DNA-N, DNA-M and DNA-C for Sri Lanka isolate. Comparisons of sequence data of DNA components followed by the phylogenetic analysis, grouped Sri Lanka-(Kandy) isolate in the Pacific Indian Oceans (PIO) group. Sri Lanka-(Kandy) isolate of BBTV is classified a new member of PIO group based on analysis of six components of the virus.

  1. Members of Gammaproteobacteria as indicator species of healthy banana plants on Fusarium wilt-infested fields in Central America

    PubMed Central

    Köberl, Martina; Dita, Miguel; Martinuz, Alfonso; Staver, Charles; Berg, Gabriele

    2017-01-01

    Culminating in the 1950’s, bananas, the world’s most extensive perennial monoculture, suffered one of the most devastating disease epidemics in history. In Latin America and the Caribbean, Fusarium wilt (FW) caused by the soil-borne fungus Fusarium oxysporum f. sp. cubense (FOC), forced the abandonment of the Gros Michel-based export banana industry. Comparative microbiome analyses performed between healthy and diseased Gros Michel plants on FW-infested farms in Nicaragua and Costa Rica revealed significant shifts in the gammaproteobacterial microbiome. Although we found substantial differences in the banana microbiome between both countries and a higher impact of FOC on farms in Costa Rica than in Nicaragua, the composition especially in the endophytic microhabitats was similar and the general microbiome response to FW followed similar rules. Gammaproteobacterial diversity and community members were identified as potential health indicators. Healthy plants revealed an increase in potentially plant-beneficial Pseudomonas and Stenotrophomonas, while diseased plants showed a preferential occurrence of Enterobacteriaceae known for their plant-degrading capacity. Significantly higher microbial rhizosphere diversity found in healthy plants could be indicative of pathogen suppression events preventing or minimizing disease expression. This first study examining banana microbiome shifts caused by FW under natural field conditions opens new perspectives for its biological control. PMID:28345666

  2. Proteomic analysis of differentially expressed proteins involved in ethylene-induced chilling tolerance in harvested banana fruit

    PubMed Central

    Li, Taotao; Yun, Ze; Zhang, Dandan; Yang, Chengwei; Zhu, Hong; Jiang, Yueming; Duan, Xuewu

    2015-01-01

    To better understand the mechanism involved in ethylene-induced chilling tolerance in harvested banana fruit, a gel-based proteomic study followed by MALDI-TOF-TOF MS was carried out. Banana fruit were treated with 500 ppm ethylene for 12 h and then stored at 6°C. During cold storage, the chilling tolerance was assessed and the proteins from the peel were extracted for proteomic analysis. It was observed that ethylene pretreatment significantly induced the chilling tolerance in harvested banana fruit, manifesting as increases in maximal chlorophyll fluorescence (Fv/Fm) and decreased electrolyte leakage. Sixty-four proteins spots with significant differences in abundance were identified, most of which were induced by ethylene pretreatment during cold storage. The up-regulated proteins induced by ethylene pretreatment were mainly related to energy metabolism, stress response and defense, methionine salvage cycle and protein metabolism. These proteins were involved in ATP synthesis, ROS scavenging, protective compounds synthesis, protein refolding and degradation, and polyamine biosynthesis. It is suggested that these up-regulated proteins might play a role in the ethylene-induced chilling tolerance in harvested banana fruit. PMID:26528309

  3. LES based urban dispersal predictions for consequence management

    SciTech Connect

    Grinstein, Fernando Franklin; Bos, Randall; Dey, Tom

    2008-01-01

    It is unlikely that we will ever have a deterministic predictive framework for the study of flows in urban scale scenarios purely based on computational fluid dynamics. This is due to the inherent difficulty in modeling and validating all relevant physical sub-processes and acquiring all the necessary and relevant boundary condition information. On the other hand, this case is representative of very fundamental ones for which whole-domain scalable laboratory (or field) studies are impossible or very difficult, but for which it is also crucial to develop predictability. In this paper, we discuss a framework for detailed dispersal predictions in urban and regional settings based on effective linkage of strong motion codes - capable of simulating detailed energetic and contaminant sources, and large-eddy simulation - capable of emulating contaminant transport due to wind and turbulence fields in built-up areas. Challenging technical aspects of the simulation approach are outlined and recent progress is reviewed in th is context.

  4. Improving structure-based function prediction using molecular dynamics

    PubMed Central

    Glazer, Dariya S.; Radmer, Randall J.; Altman, Russ B.

    2009-01-01

    Summary The number of molecules with solved three-dimensional structure but unknown function is increasing rapidly. Particularly problematic are novel folds with little detectable similarity to molecules of known function. Experimental assays can determine the functions of such molecules, but are time-consuming and expensive. Computational approaches can identify potential functional sites; however, these approaches generally rely on single static structures and do not use information about dynamics. In fact, structural dynamics can enhance function prediction: we coupled molecular dynamics simulations with structure-based function prediction algorithms that identify Ca2+ binding sites. When applied to 11 challenging proteins, both methods showed substantial improvement in performance, revealing 22 more sites in one case and 12 more in the other, with a modest increase in apparent false positives. Thus, we show that treating molecules as dynamic entities improves the performance of structure-based function prediction methods. PMID:19604472

  5. The effects of compost prepared from waste material of banana plants on the nutrient contents of banana leaves.

    PubMed

    Doran, Ilhan; Sen, Bahtiyar; Kaya, Zülküf

    2003-10-01

    In this study, the possible utilization of removed shoots and plant parts of banana as compost after fruit harvest were investigated. Three doses (15-30-45 kg plan(-1)) of the compost prepared from the clone of Dwarf Cavendish banana were compared with Farmyard manure (50 kg plant(-1), Mineral fertilizers (180 g N + 150 g P + 335 g K plant(-1)) and Farmyard manure + Mineral fertilizers (25 kg FM + 180 g N + 150 g P + 335 g K plant(-1)) which determined positive effects on the nutrient contents of banana leaves. The banana plants were grown under a heated glasshouse and in a soil with physical and chemical properties suitable for banana growing. The contents of N, P, K and Mg in compost and in farmyard manure were found to be similar. Nitrogen, phosphorus and potassium contents of leaves in all applications except control, and Ca, Mg, Fe, Zn, Mn, Cu contents in all applications were determined between optimum levels of reference values. There were positive correlations among some nutrient contents of leaves, growth, yield and fruit quality characteristics. Farmyard manure, Farmyard manure + Mineral fertilizers and 45 kg plant(-1) of compost increased the nutrient contents of banana leaves. According to obtained results, 45 kg plant(-1) of compost was determined more suitable in terms of economical production and organic farming than the other fertiliser types.

  6. Bioinformatic Identification and Expression Analysis of Banana MicroRNAs and Their Targets

    PubMed Central

    Shi, Hourui; Ren, Mengyun; Zhang, Yindong; Wang, Jingyi

    2015-01-01

    MicroRNAs (miRNAs) represent a class of endogenous non-coding small RNAs that play important roles in multiple biological processes by degrading targeted mRNAs or repressing mRNA translation. Thousands of miRNAs have been identified in many plant species, whereas only a limited number of miRNAs have been predicted in M. acuminata (A genome) and M. balbisiana (B genome). Here, previously known plant miRNAs were BLASTed against the Expressed Sequence Tag (EST) and Genomic Survey Sequence (GSS), a database of banana genes. A total of 32 potential miRNAs belonging to 13 miRNAs families were detected using a range of filtering criteria. 244 miRNA:target pairs were subsequently predicted, most of which encode transcription factors or enzymes that participate in the regulation of development, growth, metabolism, and other physiological processes. In order to validate the predicted miRNAs and the mutual relationship between miRNAs and their target genes, qRT-PCR was applied to detect the tissue-specific expression levels of 12 putative miRNAs and 6 target genes in roots, leaves, flowers, and fruits. This study provides some important information about banana pre-miRNAs, mature miRNAs, and miRNA target genes and these findings can be applied to future research of miRNA functions. PMID:25856313

  7. Bioinformatic identification and expression analysis of banana microRNAs and their targets.

    PubMed

    Chai, Juan; Feng, Renjun; Shi, Hourui; Ren, Mengyun; Zhang, Yindong; Wang, Jingyi

    2015-01-01

    MicroRNAs (miRNAs) represent a class of endogenous non-coding small RNAs that play important roles in multiple biological processes by degrading targeted mRNAs or repressing mRNA translation. Thousands of miRNAs have been identified in many plant species, whereas only a limited number of miRNAs have been predicted in M. acuminata (A genome) and M. balbisiana (B genome). Here, previously known plant miRNAs were BLASTed against the Expressed Sequence Tag (EST) and Genomic Survey Sequence (GSS), a database of banana genes. A total of 32 potential miRNAs belonging to 13 miRNAs families were detected using a range of filtering criteria. 244 miRNA:target pairs were subsequently predicted, most of which encode transcription factors or enzymes that participate in the regulation of development, growth, metabolism, and other physiological processes. In order to validate the predicted miRNAs and the mutual relationship between miRNAs and their target genes, qRT-PCR was applied to detect the tissue-specific expression levels of 12 putative miRNAs and 6 target genes in roots, leaves, flowers, and fruits. This study provides some important information about banana pre-miRNAs, mature miRNAs, and miRNA target genes and these findings can be applied to future research of miRNA functions.

  8. Blind Test of Physics-Based Prediction of Protein Structures

    PubMed Central

    Shell, M. Scott; Ozkan, S. Banu; Voelz, Vincent; Wu, Guohong Albert; Dill, Ken A.

    2009-01-01

    We report here a multiprotein blind test of a computer method to predict native protein structures based solely on an all-atom physics-based force field. We use the AMBER 96 potential function with an implicit (GB/SA) model of solvation, combined with replica-exchange molecular-dynamics simulations. Coarse conformational sampling is performed using the zipping and assembly method (ZAM), an approach that is designed to mimic the putative physical routes of protein folding. ZAM was applied to the folding of six proteins, from 76 to 112 monomers in length, in CASP7, a community-wide blind test of protein structure prediction. Because these predictions have about the same level of accuracy as typical bioinformatics methods, and do not utilize information from databases of known native structures, this work opens up the possibility of predicting the structures of membrane proteins, synthetic peptides, or other foldable polymers, for which there is little prior knowledge of native structures. This approach may also be useful for predicting physical protein folding routes, non-native conformations, and other physical properties from amino acid sequences. PMID:19186130

  9. Prediction of Anthracofibrosis Based on Clinico-Radiographic Findings

    PubMed Central

    Park, Tae Yun; Heo, Eun Young; Chung, Hee Soon; Jin, Kwang Nam

    2017-01-01

    Purpose Because anthracofibrosis (AF) is associated with tuberculosis (TB), detection of AF is clinically relevant in Korea, a TB endemic region. We thus sought to develop and validate a predictive model for AF using clinical radiographic data. Materials and Methods Between January 1, 2008 and March 31, 2014, 3849 adult patients who underwent bronchoscopies were retrospectively included from an observational registry. We dichotomized patients based on the presence (n=167) or absence (n=242) of AF. After analyzing their clinico-radiographic characteristics, a logistic prediction model was developed. An area under the curve (AUC) was drawn using the weighted score in logistic regression model. To evaluate the degree of overfitting of the predictive model, a 5-fold cross-validation procedure was performed. Results In multivariate logistic regression, clinical findings such as age >70 years, female gender, active TB, and computed tomography findings including atelectasis, stenosis, bronchial wall thickening, enlarged and calcified lymph nodes were significant diagnostic predictors for AF. The weighed score had an AUC of 0.939 [95% confidence interval (CI)=0.911–0.960], similar to the AUC obtained from internal validation (AUC=0.926, 95% CI=0.896–0.949). Conclusion The prediction model may be helpful for predicting AF based only on clinical and radiographic findings. However, further external validation is necessary. PMID:28120566

  10. Gene prediction in metagenomic fragments based on the SVM algorithm

    PubMed Central

    2013-01-01

    Background Metagenomic sequencing is becoming a powerful technology for exploring micro-ogranisms from various environments, such as human body, without isolation and cultivation. Accurately identifying genes from metagenomic fragments is one of the most fundamental issues. Results In this article, we present a novel gene prediction method named MetaGUN for metagenomic fragments based on a machine learning approach of SVM. It implements in a three-stage strategy to predict genes. Firstly, it classifies input fragments into phylogenetic groups by a k-mer based sequence binning method. Then, protein-coding sequences are identified for each group independently with SVM classifiers that integrate entropy density profiles (EDP) of codon usage, translation initiation site (TIS) scores and open reading frame (ORF) length as input patterns. Finally, the TISs are adjusted by employing a modified version of MetaTISA. To identify protein-coding sequences, MetaGun builds the universal module and the novel module. The former is based on a set of representative species, while the latter is designed to find potential functionary DNA sequences with conserved domains. Conclusions Comparisons on artificial shotgun fragments with multiple current metagenomic gene finders show that MetaGUN predicts better results on both 3' and 5' ends of genes with fragments of various lengths. Especially, it makes the most reliable predictions among these methods. As an application, MetaGUN was used to predict genes for two samples of human gut microbiome. It identifies thousands of additional genes with significant evidences. Further analysis indicates that MetaGUN tends to predict more potential novel genes than other current metagenomic gene finders. PMID:23735199

  11. Connecting clinical and actuarial prediction with rule-based methods.

    PubMed

    Fokkema, Marjolein; Smits, Niels; Kelderman, Henk; Penninx, Brenda W J H

    2015-06-01

    Meta-analyses comparing the accuracy of clinical versus actuarial prediction have shown actuarial methods to outperform clinical methods, on average. However, actuarial methods are still not widely used in clinical practice, and there has been a call for the development of actuarial prediction methods for clinical practice. We argue that rule-based methods may be more useful than the linear main effect models usually employed in prediction studies, from a data and decision analytic as well as a practical perspective. In addition, decision rules derived with rule-based methods can be represented as fast and frugal trees, which, unlike main effects models, can be used in a sequential fashion, reducing the number of cues that have to be evaluated before making a prediction. We illustrate the usability of rule-based methods by applying RuleFit, an algorithm for deriving decision rules for classification and regression problems, to a dataset on prediction of the course of depressive and anxiety disorders from Penninx et al. (2011). The RuleFit algorithm provided a model consisting of 2 simple decision rules, requiring evaluation of only 2 to 4 cues. Predictive accuracy of the 2-rule model was very similar to that of a logistic regression model incorporating 20 predictor variables, originally applied to the dataset. In addition, the 2-rule model required, on average, evaluation of only 3 cues. Therefore, the RuleFit algorithm appears to be a promising method for creating decision tools that are less time consuming and easier to apply in psychological practice, and with accuracy comparable to traditional actuarial methods.

  12. Rate-Based Model Predictive Control of Turbofan Engine Clearance

    NASA Technical Reports Server (NTRS)

    DeCastro, Jonathan A.

    2006-01-01

    An innovative model predictive control strategy is developed for control of nonlinear aircraft propulsion systems and sub-systems. At the heart of the controller is a rate-based linear parameter-varying model that propagates the state derivatives across the prediction horizon, extending prediction fidelity to transient regimes where conventional models begin to lose validity. The new control law is applied to a demanding active clearance control application, where the objectives are to tightly regulate blade tip clearances and also anticipate and avoid detrimental blade-shroud rub occurrences by optimally maintaining a predefined minimum clearance. Simulation results verify that the rate-based controller is capable of satisfying the objectives during realistic flight scenarios where both a conventional Jacobian-based model predictive control law and an unconstrained linear-quadratic optimal controller are incapable of doing so. The controller is evaluated using a variety of different actuators, illustrating the efficacy and versatility of the control approach. It is concluded that the new strategy has promise for this and other nonlinear aerospace applications that place high importance on the attainment of control objectives during transient regimes.

  13. The VHSE-based prediction of proteasomal cleavage sites.

    PubMed

    Xie, Jiangan; Xu, Zhiling; Zhou, Shangbo; Pan, Xianchao; Cai, Shaoxi; Yang, Li; Mei, Hu

    2013-01-01

    Prediction of proteasomal cleavage sites has been a focus of computational biology. Up to date, the predictive methods are mostly based on nonlinear classifiers and variables with little physicochemical meanings. In this paper, the physicochemical properties of 14 residues both upstream and downstream of a cleavage site are characterized by VHSE (principal component score vector of hydrophobic, steric, and electronic properties) descriptors. Then, the resulting VHSE descriptors are employed to construct prediction models by support vector machine (SVM). For both in vivo and in vitro datasets, the performance of VHSE-based method is comparatively better than that of the well-known PAProC, MAPPP, and NetChop methods. The results reveal that the hydrophobic property of 10 residues both upstream and downstream of the cleavage site is a dominant factor affecting in vivo and in vitro cleavage specificities, followed by residue's electronic and steric properties. Furthermore, the difference in hydrophobic potential between residues flanking the cleavage site is proposed to favor substrate cleavages. Overall, the interpretable VHSE-based method provides a preferable way to predict proteasomal cleavage sites.

  14. Molecular cloning and characterisation of banana fruit polyphenol oxidase.

    PubMed

    Gooding, P S; Bird, C; Robinson, S P

    2001-09-01

    Polyphenol oxidase (PPO; EC 1.10.3.2) is the enzyme thought to be responsible for browning in banana [Musa cavendishii (AAA group, Cavendish subgroup) cv. Williams] fruit. Banana flesh was high in PPO activity throughout growth and ripening. Peel showed high levels of activity early in development but activity declined until ripening started and then remained constant. PPO activity in fruit was not substantially induced after wounding or treatment with 5-methyl jasmonate. Banana flowers and unexpanded leaf roll had high PPO activities with lower activities observed in mature leaves, roots and stem. Four different PPO cDNA clones were amplified from banana fruit (BPO1, BPO11, BPO34 and BPO35). Full-length cDNA and genomic clones were isolated for the most abundant sequence (BPO1) and the genomic clone was found to contain an 85-bp intron. Introns have not been previously found in PPO genes. Northern analysis revealed the presence of BPO1 mRNA in banana flesh early in development but little BPO1 mRNA was detected at the same stage in banana peel. BPO11 transcript was only detected in very young flesh and there was no detectable expression of BPO34 or BPO35 in developing fruit samples. PPO transcripts were also low throughout ripening in both flesh and peel. BPO1 transcripts were readily detected in flowers, stem, roots and leaf roll samples but were not detected in mature leaves. BPO11 showed a similar pattern of expression to BPO1 in these tissues but transcript levels were much lower. BPO34 and BPO35 mRNAs were only detected at a low level in flowers and roots and BPO34 transcript was detected in mature leaves, the only clone to do so. The results suggest that browning of banana fruit during ripening results from release of pre-existing PPO enzyme, which is synthesised very early in fruit development.

  15. Remaining useful life prediction based on known usage data

    NASA Astrophysics Data System (ADS)

    Kiddy, Jason S.

    2003-08-01

    Systems Planning and Analysis, Inc. (SPA) has developed a novel statistical approach to estimating the remaining useful life of aircraft components based on known usage monitoring data. The analysis technique is known as the Remaining Useful Life Estimation (RULE) methodology. The basic premise of RULE is to determine conservative predictions for the component loads and fatigue life values from Monte Carlo simulations based on a desired component reliability. Then, as the aircraft's usage is monitored, the component life can be calculated with a known reliability based on the conservative predictions generated by the Monte Carlo simulation. The RULE methodology, which has been successfully tested on small-scale analytical problems, is ideally suited to be integrated into both rotorcraft and fixed-wing aircraft. Furthermore, modifications to the technology may prove to be applicable to wide variety of health and prognostic problems.

  16. CD-Based Indices for Link Prediction in Complex Network

    PubMed Central

    Wang, Tao; Wang, Hongjue; Wang, Xiaoxia

    2016-01-01

    Lots of similarity-based algorithms have been designed to deal with the problem of link prediction in the past decade. In order to improve prediction accuracy, a novel cosine similarity index CD based on distance between nodes and cosine value between vectors is proposed in this paper. Firstly, node coordinate matrix can be obtained by node distances which are different from distance matrix and row vectors of the matrix are regarded as coordinates of nodes. Then, cosine value between node coordinates is used as their similarity index. A local community density index LD is also proposed. Then, a series of CD-based indices include CD-LD-k, CD*LD-k, CD-k and CDI are presented and applied in ten real networks. Experimental results demonstrate the effectiveness of CD-based indices. The effects of network clustering coefficient and assortative coefficient on prediction accuracy of indices are analyzed. CD-LD-k and CD*LD-k can improve prediction accuracy without considering the assortative coefficient of network is negative or positive. According to analysis of relative precision of each method on each network, CD-LD-k and CD*LD-k indices have excellent average performance and robustness. CD and CD-k indices perform better on positive assortative networks than on negative assortative networks. For negative assortative networks, we improve and refine CD index, referred as CDI index, combining the advantages of CD index and evolutionary mechanism of the network model BA. Experimental results reveal that CDI index can increase prediction accuracy of CD on negative assortative networks. PMID:26752405

  17. Ontology-based prediction of surgical events in laparoscopic surgery

    NASA Astrophysics Data System (ADS)

    Katić, Darko; Wekerle, Anna-Laura; Gärtner, Fabian; Kenngott, Hannes; Müller-Stich, Beat Peter; Dillmann, Rüdiger; Speidel, Stefanie

    2013-03-01

    Context-aware technologies have great potential to help surgeons during laparoscopic interventions. Their underlying idea is to create systems which can adapt their assistance functions automatically to the situation in the OR, thus relieving surgeons from the burden of managing computer assisted surgery devices manually. To this purpose, a certain kind of understanding of the current situation in the OR is essential. Beyond that, anticipatory knowledge of incoming events is beneficial, e.g. for early warnings of imminent risk situations. To achieve the goal of predicting surgical events based on previously observed ones, we developed a language to describe surgeries and surgical events using Description Logics and integrated it with methods from computational linguistics. Using n-Grams to compute probabilities of followup events, we are able to make sensible predictions of upcoming events in real-time. The system was evaluated on professionally recorded and labeled surgeries and showed an average prediction rate of 80%.

  18. Reference-based gene model prediction on DNA contigs

    SciTech Connect

    Xu, Y.; Uberbacher, E.C.

    1997-01-01

    This paper presents an algorithm for constructing multiple gene models on a set of contigs of a large genomic clone. The algorithm first uses pattern recognition-based methods to locate exons or partial exons in each contig, and then applies protein homology or EST information from the databases, as reference models, to parse the predicted exons into gene models. In the phase of gene model construction, the algorithm uses a unified framework for genes ranging from situation with homologous proteins/ESTs to no homologous protein/EST in the database. By exploiting protein homology or EST information, the algorithm is able to (1) parse exons into multiple gene models over a set of DNA contigs (possibly unoriented and unordered); (2) remove falsely predicted exons; and (3) identify and locate exons missed by the initial exon prediction.

  19. Prediction of blast-induced air overpressure: a hybrid AI-based predictive model.

    PubMed

    Jahed Armaghani, Danial; Hajihassani, Mohsen; Marto, Aminaton; Shirani Faradonbeh, Roohollah; Mohamad, Edy Tonnizam

    2015-11-01

    Blast operations in the vicinity of residential areas usually produce significant environmental problems which may cause severe damage to the nearby areas. Blast-induced air overpressure (AOp) is one of the most important environmental impacts of blast operations which needs to be predicted to minimize the potential risk of damage. This paper presents an artificial neural network (ANN) optimized by the imperialist competitive algorithm (ICA) for the prediction of AOp induced by quarry blasting. For this purpose, 95 blasting operations were precisely monitored in a granite quarry site in Malaysia and AOp values were recorded in each operation. Furthermore, the most influential parameters on AOp, including the maximum charge per delay and the distance between the blast-face and monitoring point, were measured and used to train the ICA-ANN model. Based on the generalized predictor equation and considering the measured data from the granite quarry site, a new empirical equation was developed to predict AOp. For comparison purposes, conventional ANN models were developed and compared with the ICA-ANN results. The results demonstrated that the proposed ICA-ANN model is able to predict blast-induced AOp more accurately than other presented techniques.

  20. High accuracy operon prediction method based on STRING database scores.

    PubMed

    Taboada, Blanca; Verde, Cristina; Merino, Enrique

    2010-07-01

    We present a simple and highly accurate computational method for operon prediction, based on intergenic distances and functional relationships between the protein products of contiguous genes, as defined by STRING database (Jensen,L.J., Kuhn,M., Stark,M., Chaffron,S., Creevey,C., Muller,J., Doerks,T., Julien,P., Roth,A., Simonovic,M. et al. (2009) STRING 8-a global view on proteins and their functional interactions in 630 organisms. Nucleic Acids Res., 37, D412-D416). These two parameters were used to train a neural network on a subset of experimentally characterized Escherichia coli and Bacillus subtilis operons. Our predictive model was successfully tested on the set of experimentally defined operons in E. coli and B. subtilis, with accuracies of 94.6 and 93.3%, respectively. As far as we know, these are the highest accuracies ever obtained for predicting bacterial operons. Furthermore, in order to evaluate the predictable accuracy of our model when using an organism's data set for the training procedure, and a different organism's data set for testing, we repeated the E. coli operon prediction analysis using a neural network trained with B. subtilis data, and a B. subtilis analysis using a neural network trained with E. coli data. Even for these cases, the accuracies reached with our method were outstandingly high, 91.5 and 93%, respectively. These results show the potential use of our method for accurately predicting the operons of any other organism. Our operon predictions for fully-sequenced genomes are available at http://operons.ibt.unam.mx/OperonPredictor/.

  1. Temperature-based bioclimatic parameters can predict nematode metabolic footprints.

    PubMed

    Bhusal, Daya Ram; Tsiafouli, Maria A; Sgardelis, Stefanos P

    2015-09-01

    Nematode metabolic footprints (MFs) refer to the lifetime amount of metabolized carbon per individual, indicating a connection to soil food web functions and eventually to processes supporting ecosystem services. Estimating and managing these at a convenient scale requires information upscaling from the soil sample to the landscape level. We explore the feasibility of predicting nematode MFs from temperature-based bioclimatic parameters across a landscape. We assume that temperature effects are reflected in MFs, since temperature variations determine life processes ranging from enzyme activities to community structure. We use microclimate data recorded for 1 year from sites differing by orientation, altitude and vegetation cover. At the same sites we estimate MFs for each nematode trophic group. Our models show that bioclimatic parameters, specifically those accounting for temporal variations in temperature and extremities, predict most of the variation in nematode MFs. Higher fungivorous and lower bacterivorous nematode MFs are predicted for sites with high seasonality and low isothermality (sites of low vegetation, mostly at low altitudes), indicating differences in the relative contribution of the corresponding food web channels to the metabolism of carbon across the landscape. Higher plant-parasitic MFs were predicted for sites with high seasonality. The fitted models provide realistic predictions of unknown cases within the range of the predictor's values, allowing for the interpolation of MFs within the sampled region. We conclude that upscaling of the bioindication potential of nematode communities is feasible and can provide new perspectives not only in the field of soil ecology but other research areas as well.

  2. Deep-Learning-Based Drug-Target Interaction Prediction.

    PubMed

    Wen, Ming; Zhang, Zhimin; Niu, Shaoyu; Sha, Haozhi; Yang, Ruihan; Yun, Yonghuan; Lu, Hongmei

    2017-04-07

    Identifying interactions between known drugs and targets is a major challenge in drug repositioning. In silico prediction of drug-target interaction (DTI) can speed up the expensive and time-consuming experimental work by providing the most potent DTIs. In silico prediction of DTI can also provide insights about the potential drug-drug interaction and promote the exploration of drug side effects. Traditionally, the performance of DTI prediction depends heavily on the descriptors used to represent the drugs and the target proteins. In this paper, to accurately predict new DTIs between approved drugs and targets without separating the targets into different classes, we developed a deep-learning-based algorithmic framework named DeepDTIs. It first abstracts representations from raw input descriptors using unsupervised pretraining and then applies known label pairs of interaction to build a classification model. Compared with other methods, it is found that DeepDTIs reaches or outperforms other state-of-the-art methods. The DeepDTIs can be further used to predict whether a new drug targets to some existing targets or whether a new target interacts with some existing drugs.

  3. Evaluation of Information and Communication Technology Utilization by Small Holder Banana Farmers in Gatanga District, Kenya

    ERIC Educational Resources Information Center

    Mwombe, Simon O. L.; Mugivane, Fred I.; Adolwa, Ivan S.; Nderitu, John H.

    2014-01-01

    Purpose: The study was carried out to identify information communication technologies (ICTs) used in production and marketing of bananas, to determine factors influencing intensity of use of ICT tools and to assess whether use of ICT has a significant influence on adoption of tissue culture bananas by small-scale banana farmers in Gatanga…

  4. 77 FR 31829 - Importation of Fresh Bananas From the Philippines Into the Continental United States...

    Federal Register 2010, 2011, 2012, 2013, 2014

    2012-05-30

    ... Animal and Plant Health Inspection Service Importation of Fresh Bananas From the Philippines Into the... the importation of fresh bananas from the Philippines into the continental United States. The... INFORMATION: Background In a proposed rule \\1\\ titled ``Importation of Fresh Bananas from the Philippines...

  5. Iron absorption in raw and cooked bananas: A field study using stable isotopes in women

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Banana is a staple food in many regions with high iron deficiency and may be a potential vehicle for iron fortification. However, iron absorption from bananas is not known. The objective of this study was to evaluate total iron absorption from raw and cooked bananas. Thirty women (34.9 +/- 6.6 years...

  6. Predicting online ratings based on the opinion spreading process

    NASA Astrophysics Data System (ADS)

    He, Xing-Sheng; Zhou, Ming-Yang; Zhuo, Zhao; Fu, Zhong-Qian; Liu, Jian-Guo

    2015-10-01

    Predicting users' online ratings is always a challenge issue and has drawn lots of attention. In this paper, we present a rating prediction method by combining the user opinion spreading process with the collaborative filtering algorithm, where user similarity is defined by measuring the amount of opinion a user transfers to another based on the primitive user-item rating matrix. The proposed method could produce a more precise rating prediction for each unrated user-item pair. In addition, we introduce a tunable parameter λ to regulate the preferential diffusion relevant to the degree of both opinion sender and receiver. The numerical results for Movielens and Netflix data sets show that this algorithm has a better accuracy than the standard user-based collaborative filtering algorithm using Cosine and Pearson correlation without increasing computational complexity. By tuning λ, our method could further boost the prediction accuracy when using Mean Absolute Error (MAE) and Root Mean Squared Error (RMSE) as measurements. In the optimal cases, on Movielens and Netflix data sets, the corresponding algorithmic accuracy (MAE and RMSE) are improved 11.26% and 8.84%, 13.49% and 10.52% compared to the item average method, respectively.

  7. Chaos Time Series Prediction Based on Membrane Optimization Algorithms

    PubMed Central

    Li, Meng; Yi, Liangzhong; Pei, Zheng; Gao, Zhisheng

    2015-01-01

    This paper puts forward a prediction model based on membrane computing optimization algorithm for chaos time series; the model optimizes simultaneously the parameters of phase space reconstruction (τ, m) and least squares support vector machine (LS-SVM) (γ, σ) by using membrane computing optimization algorithm. It is an important basis for spectrum management to predict accurately the change trend of parameters in the electromagnetic environment, which can help decision makers to adopt an optimal action. Then, the model presented in this paper is used to forecast band occupancy rate of frequency modulation (FM) broadcasting band and interphone band. To show the applicability and superiority of the proposed model, this paper will compare the forecast model presented in it with conventional similar models. The experimental results show that whether single-step prediction or multistep prediction, the proposed model performs best based on three error measures, namely, normalized mean square error (NMSE), root mean square error (RMSE), and mean absolute percentage error (MAPE). PMID:25874249

  8. A Predictive Based Regression Algorithm for Gene Network Selection

    PubMed Central

    Guerrier, Stéphane; Mili, Nabil; Molinari, Roberto; Orso, Samuel; Avella-Medina, Marco; Ma, Yanyuan

    2016-01-01

    Gene selection has become a common task in most gene expression studies. The objective of such research is often to identify the smallest possible set of genes that can still achieve good predictive performance. To do so, many of the recently proposed classification methods require some form of dimension-reduction of the problem which finally provide a single model as an output and, in most cases, rely on the likelihood function in order to achieve variable selection. We propose a new prediction-based objective function that can be tailored to the requirements of practitioners and can be used to assess and interpret a given problem. Based on cross-validation techniques and the idea of importance sampling, our proposal scans low-dimensional models under the assumption of sparsity and, for each of them, estimates their objective function to assess their predictive power in order to select. Two applications on cancer data sets and a simulation study show that the proposal compares favorably with competing alternatives such as, for example, Elastic Net and Support Vector Machine. Indeed, the proposed method not only selects smaller models for better, or at least comparable, classification errors but also provides a set of selected models instead of a single one, allowing to construct a network of possible models for a target prediction accuracy level. PMID:27379155

  9. GIS-BASED PREDICTION OF HURRICANE FLOOD INUNDATION

    SciTech Connect

    JUDI, DAVID; KALYANAPU, ALFRED; MCPHERSON, TIMOTHY; BERSCHEID, ALAN

    2007-01-17

    A simulation environment is being developed for the prediction and analysis of the inundation consequences for infrastructure systems from extreme flood events. This decision support architecture includes a GIS-based environment for model input development, simulation integration tools for meteorological, hydrologic, and infrastructure system models and damage assessment tools for infrastructure systems. The GIS-based environment processes digital elevation models (30-m from the USGS), land use/cover (30-m NLCD), stream networks from the National Hydrography Dataset (NHD) and soils data from the NRCS (STATSGO) to create stream network, subbasins, and cross-section shapefiles for drainage basins selected for analysis. Rainfall predictions are made by a numerical weather model and ingested in gridded format into the simulation environment. Runoff hydrographs are estimated using Green-Ampt infiltration excess runoff prediction and a 1D diffusive wave overland flow routing approach. The hydrographs are fed into the stream network and integrated in a dynamic wave routing module using the EPA's Storm Water Management Model (SWMM) to predict flood depth. The flood depths are then transformed into inundation maps and exported for damage assessment. Hydrologic/hydraulic results are presented for Tropical Storm Allison.

  10. Subpopulation level variation of banana streak viruses in India and common evolution of banana and sugarcane badnaviruses.

    PubMed

    Sharma, Susheel Kumar; Vignesh Kumar, P; Geetanjali, A Swapna; Pun, Khem Bahadur; Baranwal, Virendra Kumar

    2015-06-01

    Genome sequences of three episomal Banana streak MY virus (BSMYV) isolates sampled from triploid banana hybrids (Chini Champa: AAB; Malbhog: AAB and Monthan: ABB), grown in North-East and South India are reported in this study by sequence-independent improved rolling circle amplification (RCA). RCA coupled with restriction fragment length polymorphism revealed diverse restriction profiles of five BSMYV isolates. Nucleotide substitution rates of BSMYV subpopulation and Banana streak OL virus subpopulation was 7.13 × 10(-3) to 1.59 × 10(-2) and 2.65 × 10(-3) to 5.49 × 10(-3), respectively, for the different coding regions. Analysis of the genetic diversity of banana and sugarcane badnaviruses revealed a total of 32 unique recombination events among banana and sugarcane badnaviruses (inter BSV-SCBV), in addition to the extensive recombination with in banana streak viruses and sugarcane bacilliform viruses (intra-BSV and intra-SCBV). Many unique fragments were shown to contain similar ruminant sequence fragments which indicated the possibility that the two groups of badnaviruses or their ancestors to colonise same host before making the host shift. The distribution of recombination events, hot-spots (intergenic region and C-terminal of ORF3) as well as cold-spots (distributed in ORF3) displayed the mirroring of recombination traces in both group of badnaviruses. These results support the hypothesis of relatedness of banana and sugarcane badnaviruses and the host and geographical shifts that followed the fixation of the species complex appear to be a recent event.

  11. Antioxidant and Antihyperglycemic Properties of Three Banana Cultivars (Musa spp.)

    PubMed Central

    Oboh, Ganiyu

    2016-01-01

    Background. This study sought to investigate the antioxidant and antihyperglycemic properties of Musa sapientum (Latundan banana) (MSL), Musa acuminata (Cavendish banana) (MAC), and Musa acuminate (Red Dacca) (MAR). Materials and Methods. The sugar, starch, amylose, and amylopectin contents and glycemic index (GI) of the three banana cultivars were determined. Furthermore, total phenol and vitamin C contents and α-amylase and α-glucosidase inhibitory effects of banana samples were also determined. Results. MAC and MAR had the highest starch, amylose, and amylopectin contents and estimated glycemic index (eGI) with no significant different while MSL had the lowest. Furthermore, MAR (1.07 mg GAE/g) had a higher total phenol content than MAC (0.94 mg GAE/g) and MSL (0.96 mg GAE/g), while there was no significant difference in the vitamin C content. Furthermore, MAR had the highest α-amylase (IC50 = 3.95 mg/mL) inhibitory activity while MAC had the least (IC50 = 4.27 mg/mL). Moreover, MAC and MAR inhibited glucosidase activity better than MSL (IC50 3.47 mg/mL). Conclusion. The low sugar, GI, amylose, and amylopectin contents of the three banana cultivars as well as their α-amylase and α-glucosidase inhibitory activities could be possible mechanisms and justification for their recommendation in the management of type-2 diabetes. PMID:27872791

  12. Antioxidant and Antihyperglycemic Properties of Three Banana Cultivars (Musa spp.).

    PubMed

    Adedayo, Bukola C; Oboh, Ganiyu; Oyeleye, Sunday I; Olasehinde, Tosin A

    2016-01-01

    Background. This study sought to investigate the antioxidant and antihyperglycemic properties of Musa sapientum (Latundan banana) (MSL), Musa acuminata (Cavendish banana) (MAC), and Musa acuminate (Red Dacca) (MAR). Materials and Methods. The sugar, starch, amylose, and amylopectin contents and glycemic index (GI) of the three banana cultivars were determined. Furthermore, total phenol and vitamin C contents and α-amylase and α-glucosidase inhibitory effects of banana samples were also determined. Results. MAC and MAR had the highest starch, amylose, and amylopectin contents and estimated glycemic index (eGI) with no significant different while MSL had the lowest. Furthermore, MAR (1.07 mg GAE/g) had a higher total phenol content than MAC (0.94 mg GAE/g) and MSL (0.96 mg GAE/g), while there was no significant difference in the vitamin C content. Furthermore, MAR had the highest α-amylase (IC50 = 3.95 mg/mL) inhibitory activity while MAC had the least (IC50 = 4.27 mg/mL). Moreover, MAC and MAR inhibited glucosidase activity better than MSL (IC50 3.47 mg/mL). Conclusion. The low sugar, GI, amylose, and amylopectin contents of the three banana cultivars as well as their α-amylase and α-glucosidase inhibitory activities could be possible mechanisms and justification for their recommendation in the management of type-2 diabetes.

  13. Fruit-specific lectins from banana and plantain.

    PubMed

    Peumans, W J; Zhang, W; Barre, A; Houlès Astoul, C; Balint-Kurti, P J; Rovira, P; Rougé, P; May, G D; Van Leuven, F; Truffa-Bachi, P; Van Damme, E J

    2000-09-01

    One of the predominant proteins in the pulp of ripe bananas (Musa acuminata L.) and plantains (Musa spp.) has been identified as a lectin. The banana and plantain agglutinins (called BanLec and PlanLec, respectively) were purified in reasonable quantities using a novel isolation procedure, which prevented adsorption of the lectins onto insoluble endogenous polysaccharides. Both BanLec and PlanLec are dimeric proteins composed of two identical subunits of 15 kDa. They readily agglutinate rabbit erythrocytes and exhibit specificity towards mannose. Molecular cloning revealed that BanLec has sequence similarity to previously described lectins of the family of jacalin-related lectins, and according to molecular modelling studies has the same overall fold and three-dimensional structure. The identification of BanLec and PlanLec demonstrates the occurrence of jacalin-related lectins in monocot species, suggesting that these lectins are more widespread among higher plants than is actually believed. The banana and plantain lectins are also the first documented examples of jacalin-related lectins, which are abundantly present in the pulp of mature fruits but are apparently absent from other tissues. However, after treatment of intact plants with methyl jasmonate, BanLec is also clearly induced in leaves. The banana lectin is a powerful murine T-cell mitogen. The relevance of the mitogenicity of the banana lectin is discussed in terms of both the physiological role of the lectin and the impact on food safety.

  14. A Prediction Model for Membrane Proteins Using Moments Based Features

    PubMed Central

    Butt, Ahmad Hassan; Khan, Sher Afzal; Jamil, Hamza; Rasool, Nouman; Khan, Yaser Daanial

    2016-01-01

    The most expedient unit of the human body is its cell. Encapsulated within the cell are many infinitesimal entities and molecules which are protected by a cell membrane. The proteins that are associated with this lipid based bilayer cell membrane are known as membrane proteins and are considered to play a significant role. These membrane proteins exhibit their effect in cellular activities inside and outside of the cell. According to the scientists in pharmaceutical organizations, these membrane proteins perform key task in drug interactions. In this study, a technique is presented that is based on various computationally intelligent methods used for the prediction of membrane protein without the experimental use of mass spectrometry. Statistical moments were used to extract features and furthermore a Multilayer Neural Network was trained using backpropagation for the prediction of membrane proteins. Results show that the proposed technique performs better than existing methodologies. PMID:26966690

  15. Structure-based Methods for Computational Protein Functional Site Prediction

    PubMed Central

    Dukka, B KC

    2013-01-01

    Due to the advent of high throughput sequencing techniques and structural genomic projects, the number of gene and protein sequences has been ever increasing. Computational methods to annotate these genes and proteins are even more indispensable. Proteins are important macromolecules and study of the function of proteins is an important problem in structural bioinformatics. This paper discusses a number of methods to predict protein functional site especially focusing on protein ligand binding site prediction. Initially, a short overview is presented on recent advances in methods for selection of homologous sequences. Furthermore, a few recent structural based approaches and sequence-and-structure based approaches for protein functional sites are discussed in details. PMID:24688745

  16. Composition-based prediction of dielectric properties of foods.

    PubMed

    Sun, E; Datta, A; Lobo, S

    1995-01-01

    Prediction of accurate dielectric property data from fundamental principles for systems as complex as foods has not been possible. Simple prediction models based on easily measurable composition data can serve many useful purposes. Literature dielectric data on foods and their composition were statistically correlated. Dielectric data on salt solutions were measured to explain some of the results. When composition data were not available, standard handbook compositions were used. Inclusion of all types of foods (meats, fruits, and vegetables) inhibited any useful correlation with composition. Based on a smaller data set of meats, both dielectric constant and loss increased with water and salt content. Dielectric constant generally decreased with temperature whereas dielectric loss decreased with temperature at lower salt concentrations and increased with temperature at higher salt concentrations.

  17. Life Prediction of Turbine Blade Nickel Base Superalloy Single Crystals.

    DTIC Science & Technology

    1986-08-01

    different types of coatings . They are the conventional aluminide coating and the overlay coating with improved temperature capability.5 These coatings ...0.6% with a 2 min. hold in compression. Transverse cracks behaved differently in the aluminide (Codep) coated Ren6 N4+, and an example is given in...PREDICTION OF TURBINE BLADE NICKEL BASE SUPERALLOY SINGLE CRYSTALS N Dr. V. Srinivasan 0 Universal Energy Systems, Inc. 4401 Dayton-Xenia Road Dayton, Ohio

  18. Development of Predictive Equations Based on Pavement Condition Index Data

    DTIC Science & Technology

    1992-03-01

    solutions to eliminate existing problems. A Spavement management system not only evaluates the present condition of a pavement but predicts its future...structural performance [1]. Condition rating data collected periodically will track the performance of a pavement. Most airports presently utilize...three primary objectives of rating a pavement based on the PCI method: (1) Determine present condition of the pavement in terms of the apparent

  19. Ac Synchronous Servo Based On The Armature Voltage Prediction Model

    NASA Astrophysics Data System (ADS)

    Hoshino, Akihiro; Kuromaru, Hiroshi; Kobayashi, Shinichi

    1987-10-01

    A new control method of the AC synchro-nous servo-system (Brushless DC servo-system) is discussed. The new system is based on the armature voltage prediction model. Without a resolver-digital-conver-ter nor a tachometer-generator, the resolver provides following three signals to the system immediately, they are the current command, the induced voltage, and the rotor speed. The new method realizes a simple hardware configuration. Experimental results show a good performance of the system.

  20. Life prediction modeling based on cyclic damage accumulation

    NASA Technical Reports Server (NTRS)

    Nelson, Richard S.

    1988-01-01

    A high temperature, low cycle fatigue life prediction method was developed. This method, Cyclic Damage Accumulation (CDA), was developed for use in predicting the crack initiation lifetime of gas turbine engine materials, where initiation was defined as a 0.030 inch surface length crack. A principal engineering feature of the CDA method is the minimum data base required for implementation. Model constants can be evaluated through a few simple specimen tests such as monotonic loading and rapic cycle fatigue. The method was expanded to account for the effects on creep-fatigue life of complex loadings such as thermomechanical fatigue, hold periods, waveshapes, mean stresses, multiaxiality, cumulative damage, coatings, and environmental attack. A significant data base was generated on the behavior of the cast nickel-base superalloy B1900+Hf, including hundreds of specimen tests under such loading conditions. This information is being used to refine and extend the CDA life prediction model, which is now nearing completion. The model is also being verified using additional specimen tests on wrought INCO 718, and the final version of the model is expected to be adaptable to most any high-temperature alloy. The model is currently available in the form of equations and related constants. A proposed contract addition will make the model available in the near future in the form of a computer code to potential users.

  1. Purely optical navigation with model-based state prediction

    NASA Astrophysics Data System (ADS)

    Sendobry, Alexander; Graber, Thorsten; Klingauf, Uwe

    2010-10-01

    State-of-the-art Inertial Navigation Systems (INS) based on Micro-Electro-Mechanical Systems (MEMS) have a lack of precision especially in GPS denied environments like urban canyons or in pure indoor missions. The proposed Optical Navigation System (ONS) provides bias free ego-motion estimates using triple redundant sensor information. In combination with a model based state prediction our system is able to estimate velocity, position and attitude of an arbitrary aircraft. Simulating a high performance flow-field estimator the algorithm can compete with conventional low-cost INS. By using measured velocities instead of accelerations the system states drift behavior is not as distinctive as for an INS.

  2. Learning-based Nonlinear Model Predictive Control to Improve Vision-based Mobile Robot Path Tracking

    DTIC Science & Technology

    2015-07-01

    feedback control to generate desired lateral and angular velocities to compensate for vehicle slip rates. Finally, they use the robot’s inverse dynamics to...Learning-based Nonlinear Model Predictive Control to Improve Vision-based Mobile Robot Path Tracking Chris J. Ostafew Institute for Aerospace Studies...paper presents a Learning-based Nonlinear Model Predictive Control (LB-NMPC) algorithm to achieve high-performance path tracking in challenging off-road

  3. Crystal density predictions for nitramines based on quantum chemistry.

    PubMed

    Qiu, Ling; Xiao, Heming; Gong, Xuedong; Ju, Xuehai; Zhu, Weihua

    2007-03-06

    An efficient and convenient method for predicting the crystalline densities of energetic materials was established based on the quantum chemical computations. Density functional theory (DFT) with four different basis sets (6-31G(**), 6-311G(**), 6-31+G(**), and 6-311++G(**)) and various semiempirical molecular orbital (MO) methods have been employed to predict the molecular volumes and densities of a series of energetic nitramines including acyclic, monocyclic, and polycyclic/cage molecules. The relationships between the calculated values and experimental data were discussed in detail, and linear correlations were suggested and compared at different levels. The calculation shows that if the selected basis set is larger, it will expend more CPU (central processing unit) time, larger molecular volume and smaller density will be obtained. And the densities predicted by the semiempirical MO methods are all systematically larger than the experimental data. In comparison with other methods, B3LYP/6-31G(**) is most accurate and economical to predict the solid-state densities of energetic nitramines. This may be instructive to the molecular designing and screening novel HEDMs.

  4. Protein function prediction based on data fusion and functional interrelationship.

    PubMed

    Meng, Jun; Wekesa, Jael-Sanyanda; Shi, Guan-Li; Luan, Yu-Shi

    2016-04-01

    One of the challenging tasks of bioinformatics is to predict more accurate and confident protein functions from genomics and proteomics datasets. Computational approaches use a variety of high throughput experimental data, such as protein-protein interaction (PPI), protein sequences and phylogenetic profiles, to predict protein functions. This paper presents a method that uses transductive multi-label learning algorithm by integrating multiple data sources for classification. Multiple proteomics datasets are integrated to make inferences about functions of unknown proteins and use a directed bi-relational graph to assign labels to unannotated proteins. Our method, bi-relational graph based transductive multi-label function annotation (Bi-TMF) uses functional correlation and topological PPI network properties on both the training and testing datasets to predict protein functions through data fusion of the individual kernel result. The main purpose of our proposed method is to enhance the performance of classifier integration for protein function prediction algorithms. Experimental results demonstrate the effectiveness and efficiency of Bi-TMF on multi-sources datasets in yeast, human and mouse benchmarks. Bi-TMF outperforms other recently proposed methods.

  5. Ontology-Based Prediction and Prioritization of Gene Functional Annotations.

    PubMed

    Chicco, Davide; Masseroli, Marco

    2016-01-01

    Genes and their protein products are essential molecular units of a living organism. The knowledge of their functions is key for the understanding of physiological and pathological biological processes, as well as in the development of new drugs and therapies. The association of a gene or protein with its functions, described by controlled terms of biomolecular terminologies or ontologies, is named gene functional annotation. Very many and valuable gene annotations expressed through terminologies and ontologies are available. Nevertheless, they might include some erroneous information, since only a subset of annotations are reviewed by curators. Furthermore, they are incomplete by definition, given the rapidly evolving pace of biomolecular knowledge. In this scenario, computational methods that are able to quicken the annotation curation process and reliably suggest new annotations are very important. Here, we first propose a computational pipeline that uses different semantic and machine learning methods to predict novel ontology-based gene functional annotations; then, we introduce a new semantic prioritization rule to categorize the predicted annotations by their likelihood of being correct. Our tests and validations proved the effectiveness of our pipeline and prioritization of predicted annotations, by selecting as most likely manifold predicted annotations that were later confirmed.

  6. Banana leaf and glucose mineralization and soil organic matter in microhabitats of banana plantations under long-term pesticide use.

    PubMed

    Blume, Elena; Reichert, José Miguel

    2015-06-01

    Soil organic matter (SOM) and microbial activity are key components of soil quality and sustainability. In the humid tropics of Costa Rica 3 pesticide regimes were studied-fungicide (low input); fungicide and herbicide (medium input); and fungicide, herbicide, and nematicide (high input)-under continuous banana cultivation for 5 yr (young) or 20 yr (old) in 3 microhabitats-nematicide ring around plants, litter pile of harvested banana, and bare area between litter pile and nematicide ring. Soil samples were incubated sequentially in the laboratory: unamended, amended with glucose, and amended with ground banana leaves. Soil organic matter varied with microhabitat, being greatest in the litter pile, where microbes had the greatest basal respiration with ground banana leaf, whereas microbes in the nematicide ring had the greatest respiration with glucose. These results suggest that soil microbes adapt to specific microhabitats. Young banana plantations had similar SOM compared with old plantations, but the former had greater basal microbial respiration in unamended and in glucose-amended soil and greater first-order mineralization rates in glucose-amended soil, thus indicating soil biological quality decline over time. High pesticide input did not decrease microbial activity or mineralization rate in surface soil. In conclusion, microbial activity in tropical volcanic soil is highly adaptable to organic and inorganic inputs.

  7. Evolution of endogenous sequences of banana streak virus: what can we learn from banana (Musa sp.) evolution?

    PubMed

    Gayral, Philippe; Blondin, Laurence; Guidolin, Olivier; Carreel, Françoise; Hippolyte, Isabelle; Perrier, Xavier; Iskra-Caruana, Marie-Line

    2010-07-01

    Endogenous plant pararetroviruses (EPRVs) are viral sequences of the family Caulimoviridae integrated into the nuclear genome of numerous plant species. The ability of some endogenous sequences of Banana streak viruses (eBSVs) in the genome of banana (Musa sp.) to induce infections just like the virus itself was recently demonstrated (P. Gayral et al., J. Virol. 83:6697-6710, 2008). Although eBSVs probably arose from accidental events, infectious eBSVs constitute an extreme case of parasitism, as well as a newly described strategy for vertical virus transmission in plants. We investigated the early evolutionary stages of infectious eBSV for two distinct BSV species-GF (BSGFV) and Imové (BSImV)-through the study of their distribution, insertion polymorphism, and structure evolution among selected banana genotypes representative of the diversity of 60 wild Musa species and genotypes. To do so, the historical frame of host evolution was analyzed by inferring banana phylogeny from two chloroplast regions-matK and trnL-trnF-as well as from the nuclear genome, using 19 microsatellite loci. We demonstrated that both BSV species integrated recently in banana evolution, circa 640,000 years ago. The two infectious eBSVs were subjected to different selective pressures and showed distinct levels of rearrangement within their final structure. In addition, the molecular phylogenies of integrated and nonintegrated BSVs enabled us to establish the phylogenetic origins of eBSGFV and eBSImV.

  8. BLANNOTATOR: enhanced homology-based function prediction of bacterial proteins

    PubMed Central

    2012-01-01

    Background Automated function prediction has played a central role in determining the biological functions of bacterial proteins. Typically, protein function annotation relies on homology, and function is inferred from other proteins with similar sequences. This approach has become popular in bacterial genomics because it is one of the few methods that is practical for large datasets and because it does not require additional functional genomics experiments. However, the existing solutions produce erroneous predictions in many cases, especially when query sequences have low levels of identity with the annotated source protein. This problem has created a pressing need for improvements in homology-based annotation. Results We present an automated method for the functional annotation of bacterial protein sequences. Based on sequence similarity searches, BLANNOTATOR accurately annotates query sequences with one-line summary descriptions of protein function. It groups sequences identified by BLAST into subsets according to their annotation and bases its prediction on a set of sequences with consistent functional information. We show the results of BLANNOTATOR's performance in sets of bacterial proteins with known functions. We simulated the annotation process for 3090 SWISS-PROT proteins using a database in its state preceding the functional characterisation of the query protein. For this dataset, our method outperformed the five others that we tested, and the improved performance was maintained even in the absence of highly related sequence hits. We further demonstrate the value of our tool by analysing the putative proteome of Lactobacillus crispatus strain ST1. Conclusions BLANNOTATOR is an accurate method for bacterial protein function prediction. It is practical for genome-scale data and does not require pre-existing sequence clustering; thus, this method suits the needs of bacterial genome and metagenome researchers. The method and a web-server are available at

  9. Reflectance Prediction Modelling for Residual-Based Hyperspectral Image Coding

    PubMed Central

    Xiao, Rui; Gao, Junbin; Bossomaier, Terry

    2016-01-01

    A Hyperspectral (HS) image provides observational powers beyond human vision capability but represents more than 100 times the data compared to a traditional image. To transmit and store the huge volume of an HS image, we argue that a fundamental shift is required from the existing “original pixel intensity”-based coding approaches using traditional image coders (e.g., JPEG2000) to the “residual”-based approaches using a video coder for better compression performance. A modified video coder is required to exploit spatial-spectral redundancy using pixel-level reflectance modelling due to the different characteristics of HS images in their spectral and shape domain of panchromatic imagery compared to traditional videos. In this paper a novel coding framework using Reflectance Prediction Modelling (RPM) in the latest video coding standard High Efficiency Video Coding (HEVC) for HS images is proposed. An HS image presents a wealth of data where every pixel is considered a vector for different spectral bands. By quantitative comparison and analysis of pixel vector distribution along spectral bands, we conclude that modelling can predict the distribution and correlation of the pixel vectors for different bands. To exploit distribution of the known pixel vector, we estimate a predicted current spectral band from the previous bands using Gaussian mixture-based modelling. The predicted band is used as the additional reference band together with the immediate previous band when we apply the HEVC. Every spectral band of an HS image is treated like it is an individual frame of a video. In this paper, we compare the proposed method with mainstream encoders. The experimental results are fully justified by three types of HS dataset with different wavelength ranges. The proposed method outperforms the existing mainstream HS encoders in terms of rate-distortion performance of HS image compression. PMID:27695102

  10. Genetic variants of Banana streak virus in Mauritius.

    PubMed

    Jaufeerally-Fakim, Y; Khorugdharry, Ashwin; Harper, Glyn

    2006-01-01

    Genetic variations among isolates of Banana streak virus (BSV) were assessed using two sets of primers. The virus, found in banana accessions in Mauritius, was compared to a Nigerian isolate from cultivar Obino l'Ewai (BSOEV). On the basis of the observed size of amplicons, some Mauritius strains were different from l'Ewai BSOEV. Both Southern blot hybridization and the nucleotide sequences of the PCR products confirmed that they were of episomal BSV origin. An isolate of sugarcane bacilliform virus (SCBV) was found to be also very similar to the BSV isolated from banana samples. Nucleotide sequence analysis showed that even the same size PCR products had differing sequences. The dendrogram placed the isolates from Mauritius in a cluster separate from BSV and SCBV from other geographical locations.

  11. Hyperspectral imaging system for disease scanning on banana plants

    NASA Astrophysics Data System (ADS)

    Ochoa, Daniel; Cevallos, Juan; Vargas, German; Criollo, Ronald; Romero, Dennis; Castro, Rodrigo; Bayona, Oswaldo

    2016-05-01

    Black Sigatoka (BS) is a banana plant disease caused by the fungus Mycosphaerella fijiensis. BS symptoms can be observed at late infection stages. By that time, BS has probably spread to other plants. In this paper, we present our current work on building an hyper-spectral (HS) imaging system aimed at in-vivo detection of BS pre-symptomatic responses in banana leaves. The proposed imaging system comprises a motorized stage, a high-sensitivity VIS-NIR camera and an optical spectrograph. To capture images of the banana leaf, the stage's speed and camera's frame rate must be computed to reduce motion blur and to obtain the same resolution along both spatial dimensions of the resulting HS cube. Our continuous leaf scanning approach allows imaging leaves of arbitrary length with minimum frame loss. Once the images are captured, a denoising step is performed to improve HS image quality and spectral profile extraction.

  12. Aseptic multiplication of banana from excised floral apices.

    PubMed

    Cronauer, S S; Krikorian, A D

    1985-08-01

    Most economically important bananas and plantains are large triploid seedless herbs that must be propagated vegetatively by removing small side shoots or "suckers" from the parent plant or by planting seed pieces of larger corms. Consequently, multiplication of stock material is time consuming, Recently, the rapid production of young banana plantlets suitable for use as "seed" material has been described. Vegetative shoot apices were isolated and multiplied using aseptic tissue culture techniques. Although these multiplication systems, once established, can produce thousands of plants in a relatively short period of time, their establishment necessitates the initial sacrifice of an individual specimen, which may not always be desirable or prudent should a limited parent stock be available. We describe here the production and multiplication of rooted banana plantlets from the isolation and culture of terminal floral apices.

  13. Visualization of internal structure of banana starch granule through AFM.

    PubMed

    Peroni-Okita, Fernanda H G; Gunning, A Patrick; Kirby, Andrew; Simão, Renata A; Soares, Claudinéia A; Cordenunsi, Beatriz R

    2015-09-05

    Atomic force microscopy (AFM) is a high resolution technique for studying the external and internal structures of starch granules. For this purpose granules were isolated from bananas and embedded in a non-penetrating resin. To achieve image contrast of the ultrastructure, the face of the cut blocks were wetted in steam and force modulation mode imaging was used. Images of starch from green bananas showed large variation of height across the granule due to a locational specific absorption of water and swelling of amorphous regions; the data reveal that the center of the granules are structurally different and have different viscoelastic properties. Images of starches from ripe bananas showed an even greater different level of organization: absence of growth rings around the hilum; the central region of the granule is richer in amylose; very porous surface with round shaped dark structures; the size of blocklets are larger than the green fruits.

  14. Biosynthesis of CdS nanoparticles in banana peel extract.

    PubMed

    Zhou, Guang Ju; Li, Shuo Hao; Zhang, Yu Cang; Fu, Yun Zhi

    2014-06-01

    Cadmium sulfide (CdS) nanoparticles (NPs) were synthesized by using banana peel extract as a convenient, non-toxic, eco-friendly 'green' capping agent. Cadmium nitrate and sodium sulfide are main reagents. A variety of CdS NPs are prepared through changing reaction conditions (banana extracts, the amount of banana peel extract, solution pH, concentration and reactive temperature). The prepared CdS colloid displays strong fluorescence spectrum. X-ray diffraction analysis demonstrates the successful formation of CdS NPs. Fourier transform infra-red (FTIR) spectrogram indicates the involvement of carboxyl, amine and hydroxyl groups in the formation of CdS NPs. Transmission electron microscope (TEM) result reveals that the average size of the NPs is around 1.48 nm.

  15. Predicting the effective thermal conductivity of carbon nanotube based nanofluids.

    PubMed

    Venkata Sastry, N N; Bhunia, Avijit; Sundararajan, T; Das, Sarit K

    2008-02-06

    Adding a small volume fraction of carbon nanotubes (CNTs) to a liquid enhances the thermal conductivity significantly. Recent experimental findings report an anomalously wide range of enhancement values that continue to perplex the research community and remain unexplained. In this paper we present a theoretical model based on three-dimensional CNT chain formation (percolation) in the base liquid and the corresponding thermal resistance network. The model considers random CNT orientation and CNT-CNT interaction forming the percolating chain. Predictions are in good agreement with almost all available experimental data. Results show that the enhancement critically depends on the CNT geometry (length), volume fraction, thermal conductivity of the base liquid and the nanofluid (CNT-liquid suspension) preparation technique. Based on the physical mechanism of heat conduction in the nanofluid, we introduce a new dimensionless parameter that alone characterizes the nanofluid thermal conductivity with reasonable accuracy (∼ ± 5%).

  16. Optimization of process parameters for extrusion cooking of low amylose rice flour blended with seeded banana and carambola pomace for development of minerals and fiber rich breakfast cereal.

    PubMed

    Borah, Anjan; Lata Mahanta, Charu; Kalita, Dipankar

    2016-01-01

    The low-amylose rice flour, seeded banana (Musa balbisiana, ABB) and carambola (Averrhoa carambola L.) pomace blends were extruded to prepare ready to eat breakfast cereal in a single-screw extruder. Response surface methodology using a central composite design was used to evaluate effect of independent variables, namely blend ratio (80:10:10 - 60:30:10 of low-amylose rice flour, seeded banana and carambola pomace), screw speed (200 - 400 rpm), barrel temperature (90 - 130 (°)C) and feed moisture content (9 - 21 g/100 g, wet basis) on product responses. Quadratic polynomial equations were also obtained by multiple regression analysis. The predicted models were adequate based on lack-of-fit test and coefficient of determination obtained. The feed moisture content had critical effect on all response variables. The compromised optimal conditions obtained by numerical integration for development of extrudates were: screw speed of 350 rpm, barrel temperature of 120 (°)C, feed moisture content of 12 g/100 g and 65:25:10 of blend ratio of feed. In the optimized condition low-amylose rice blend is found to have better physicochemical properties (water absorption index of 481.79 g/100 g; water solubility index of 44.13 g/100 g) and dietary fiber content of 21.35 g/100 g respectively. The developed breakfast cereal showed considerable amount of minerals (Mg and K) and overall acceptability was found to be 7.8.

  17. Prediction of odor from pig production based on chemical odorants.

    PubMed

    Hansen, Michael J; Adamsen, Anders Peter S; Pedersen, Poul; Feilberg, Anders

    2012-01-01

    The present work was performed to investigate the use of odorant measurements for prediction of odor concentration in facilities with growing-finishing pigs and to analyze the odorant composition in facilities with different floor and ventilation systems. Air was sampled in Nalophan bags, odor concentrations were measured by dilution-to-threshold olfactometry, and concentrations of odorants were measured by proton-transfer-reaction mass spectrometry (PTR-MS). Olfactometry and chemical analyses were synchronized to take place at identical time intervals after sampling. A principal component analysis revealed that different facilities for growing-finishing pigs can be distinguished based on the odorants. Pit ventilation comprising a small amount of the total ventilation air (10-20%) in facilities with both room and pit ventilation can be used to concentrate odorants, whereas the room ventilation contains lower concentrations of most odorants. A partial least squares regression model demonstrated that prediction of the odor concentration based on odorants measured by PTR-MS is feasible. Hydrogen sulfide, methanethiol, trimethylamine, and 4-methylphenol were identified as the compounds having the largest influence on the prediction of odor concentration, whereas carboxylic acids had no significant influence. In conclusion, chemical measurement of odorants by PTR-MS is an alternative for expressing the odor concentration in facilities with growing-finishing pigs that can be used to increase the understanding of odor from different types of facilities and improve the development of odor reduction technologies.

  18. Imputation for transcription factor binding predictions based on deep learning

    PubMed Central

    Qin, Qian

    2017-01-01

    Understanding the cell-specific binding patterns of transcription factors (TFs) is fundamental to studying gene regulatory networks in biological systems, for which ChIP-seq not only provides valuable data but is also considered as the gold standard. Despite tremendous efforts from the scientific community to conduct TF ChIP-seq experiments, the available data represent only a limited percentage of ChIP-seq experiments, considering all possible combinations of TFs and cell lines. In this study, we demonstrate a method for accurately predicting cell-specific TF binding for TF-cell line combinations based on only a small fraction (4%) of the combinations using available ChIP-seq data. The proposed model, termed TFImpute, is based on a deep neural network with a multi-task learning setting to borrow information across transcription factors and cell lines. Compared with existing methods, TFImpute achieves comparable accuracy on TF-cell line combinations with ChIP-seq data; moreover, TFImpute achieves better accuracy on TF-cell line combinations without ChIP-seq data. This approach can predict cell line specific enhancer activities in K562 and HepG2 cell lines, as measured by massively parallel reporter assays, and predicts the impact of SNPs on TF binding. PMID:28234893

  19. Gene essentiality prediction based on fractal features and machine learning.

    PubMed

    Yu, Yongming; Yang, Licai; Liu, Zhiping; Zhu, Chuansheng

    2017-02-28

    Essential genes are required for the viability of an organism. Accurate and rapid identification of new essential genes is of substantial theoretical interest to synthetic biology and has practical applications in biomedicine. Fractals provide facilitated access to genetic structure analysis on a different scale. In this study, machine learning-based methods using solely fractal features are presented and the problem of predicting essential genes in bacterial genomes is evaluated. Six fractal features were investigated to learn the parameters of five supervised classification methods for the binary classification task. The optimal parameters of these classifiers are determined via grid-based searching technique. All the currently available identified genes from the database of essential genes were utilized to build the classifiers. The fractal features were proven to be more robust and powerful in the prediction performance. In a statistical sense, the ELM method shows superiority in predicting the essential genes. Non-parameter tests of the average AUC and ACC showed that the fractal feature is much better than other five compared features sets. Our approach is promising and convenient to identify new bacterial essential genes.

  20. Imputation for transcription factor binding predictions based on deep learning.

    PubMed

    Qin, Qian; Feng, Jianxing

    2017-02-01

    Understanding the cell-specific binding patterns of transcription factors (TFs) is fundamental to studying gene regulatory networks in biological systems, for which ChIP-seq not only provides valuable data but is also considered as the gold standard. Despite tremendous efforts from the scientific community to conduct TF ChIP-seq experiments, the available data represent only a limited percentage of ChIP-seq experiments, considering all possible combinations of TFs and cell lines. In this study, we demonstrate a method for accurately predicting cell-specific TF binding for TF-cell line combinations based on only a small fraction (4%) of the combinations using available ChIP-seq data. The proposed model, termed TFImpute, is based on a deep neural network with a multi-task learning setting to borrow information across transcription factors and cell lines. Compared with existing methods, TFImpute achieves comparable accuracy on TF-cell line combinations with ChIP-seq data; moreover, TFImpute achieves better accuracy on TF-cell line combinations without ChIP-seq data. This approach can predict cell line specific enhancer activities in K562 and HepG2 cell lines, as measured by massively parallel reporter assays, and predicts the impact of SNPs on TF binding.

  1. Calibration of Radar Based Re-Entry Predictions

    NASA Astrophysics Data System (ADS)

    Lemmens, S.; Bastida Virgili, B.; Flohrer, T.; Gini, F.; Krag, H.; Steiger, C.

    2015-03-01

    The availability of GPS observations via the telemetry during GOCE’s (Gravity Field and Steady-State Ocean Circulation Explorer) entire re-entry campaign enabled the generation of high quality orbit products which can be used as input to re-entry predictions. These high precision orbits can be used as reference to assess the quality of orbits generated from other sources. Here we verify the accuracy of orbits based on radar tracking data, obtained by dedicated observations with the Tracking & Imaging Radar system from the Fraunhofer High Frequency Physics and Radar Techniques institute, with respect to the a post-processed GPS based reference orbit. This leads to time-depended quantification of the orbit determination uncertainties on the re-entry predictions. Furthermore, the ballistic coefficient determined by the orbit determination and its time dependent evolution can be used to a priori estimate the attitude behaviour of GOCE, which can be compared to the telemetry. The attitude behaviour can be analysed by the use of inverse synthetic aperture radar (ISAR) images, also obtained by dedicated observation by TIRA. The effect of adding this knowledge on the attitude evolution to the re-entry predictions is evaluated.

  2. Global Paleo-elevation predictions for Phanerozoic based on tectonics

    NASA Astrophysics Data System (ADS)

    Warners-Ruckstuhl, Karin; van Oosterhout, Cees; Hochard, Cyril; Vérard, Christian

    2014-05-01

    We present a new paleo-elevation model that follows a theoretical approach, and test it with depositional environment data. This model forms an alternative to existing paleo-topography models based on paleo-environmental and geomorphological data, which attain high resolution locally but lack constrains over part of the globe and geological time. Paleo-topography is predicted through time based on physical rules derived from lithospheric plate cooling and statistics on present-day topography. The developed method converts a 2D plate reconstruction model with defined plate boundaries to a 3D model featuring paleo-topography and bathymetry. This approach is relatively crude but has the advantage of being applicable anywhere on the globe and at any geological time. Such a model is a strong base for global paleo-climatic and source to sink studies. lt has been applied globally for the entire Phanerozoic on the plate reconstruction model developed at the University of Lausanne. Comparison of predicted paleo-topographies with depositional environmental data is encouraging. For applicability on basin scale and higher resolution climate modeling, the synthetic topography can be fine-tuned based on the data at place with sufficient coverage.

  3. Cloud-based Predictive Modeling System and its Application to Asthma Readmission Prediction.

    PubMed

    Chen, Robert; Su, Hang; Khalilia, Mohammed; Lin, Sizhe; Peng, Yue; Davis, Tod; Hirsh, Daniel A; Searles, Elizabeth; Tejedor-Sojo, Javier; Thompson, Michael; Sun, Jimeng

    The predictive modeling process is time consuming and requires clinical researchers to handle complex electronic health record (EHR) data in restricted computational environments. To address this problem, we implemented a cloud-based predictive modeling system via a hybrid setup combining a secure private server with the Amazon Web Services (AWS) Elastic MapReduce platform. EHR data is preprocessed on a private server and the resulting de-identified event sequences are hosted on AWS. Based on user-specified modeling configurations, an on-demand web service launches a cluster of Elastic Compute 2 (EC2) instances on AWS to perform feature selection and classification algorithms in a distributed fashion. Afterwards, the secure private server aggregates results and displays them via interactive visualization. We tested the system on a pediatric asthma readmission task on a de-identified EHR dataset of 2,967 patients. We conduct a larger scale experiment on the CMS Linkable 2008-2010 Medicare Data Entrepreneurs' Synthetic Public Use File dataset of 2 million patients, which achieves over 25-fold speedup compared to sequential execution.

  4. Prediction and Validation of Mars Pathfinder Hypersonic Aerodynamic Data Base

    NASA Technical Reports Server (NTRS)

    Gnoffo, Peter A.; Braun, Robert D.; Weilmuenster, K. James; Mitcheltree, Robert A.; Engelund, Walter C.; Powell, Richard W.

    1998-01-01

    Postflight analysis of the Mars Pathfinder hypersonic, continuum aerodynamic data base is presented. Measured data include accelerations along the body axis and axis normal directions. Comparisons of preflight simulation and measurements show good agreement. The prediction of two static instabilities associated with movement of the sonic line from the shoulder to the nose and back was confirmed by measured normal accelerations. Reconstruction of atmospheric density during entry has an uncertainty directly proportional to the uncertainty in the predicted axial coefficient. The sensitivity of the moment coefficient to freestream density, kinetic models and center-of-gravity location are examined to provide additional consistency checks of the simulation with flight data. The atmospheric density as derived from axial coefficient and measured axial accelerations falls within the range required for sonic line shift and static stability transition as independently determined from normal accelerations.

  5. Link prediction based on local information considering preferential attachment

    NASA Astrophysics Data System (ADS)

    Zeng, Shan

    2016-02-01

    Link prediction in complex networks has attracted much attention in many fields. In this paper, a common neighbors plus preferential attachment index is presented to estimate the likelihood of the existence of a link between two nodes based on local information of the nearest neighbors. Numerical experiments on six real networks demonstrated the high effectiveness and efficiency of the new index compared with five well-known and widely accepted indices: the common neighbors, resource allocation index, preferential attachment index, local path index and Katz index. The new index provides competitively accurate prediction with local path index and Katz index while has less computational complexity and is more accurate than the other two indices.

  6. Data Requirements for Model-Based Cancer Prognosis Prediction

    PubMed Central

    Dalton, Lori A.; Yousefi, Mohammadmahdi R.

    2015-01-01

    Cancer prognosis prediction is typically carried out without integrating scientific knowledge available on genomic pathways, the effect of drugs on cell dynamics, or modeling mutations in the population. Recent work addresses some of these problems by formulating an uncertainty class of Boolean regulatory models for abnormal gene regulation, assigning prognosis scores to each network based on intervention outcomes, and partitioning networks in the uncertainty class into prognosis classes based on these scores. For a new patient, the probability distribution of the prognosis class was evaluated using optimal Bayesian classification, given patient data. It was assumed that (1) disease is the result of several mutations of a known healthy network and that these mutations and their probability distribution in the population are known and (2) only a single snapshot of the patient’s gene activity profile is observed. It was shown that, even in ideal settings where cancer in the population and the effect of a drug are fully modeled, a single static measurement is typically not sufficient. Here, we study what measurements are sufficient to predict prognosis. In particular, we relax assumption (1) by addressing how population data may be used to estimate network probabilities, and extend assumption (2) to include static and time-series measurements of both population and patient data. Furthermore, we extend the prediction of prognosis classes to optimal Bayesian regression of prognosis metrics. Even when time-series data is preferable to infer a stochastic dynamical network, we show that static data can be superior for prognosis prediction when constrained to small samples. Furthermore, although population data is helpful, performance is not sensitive to inaccuracies in the estimated network probabilities. PMID:27127404

  7. Banana production systems: identification of alternative systems for more sustainable production.

    PubMed

    Bellamy, Angelina Sanderson

    2013-04-01

    Large-scale, monoculture production systems dependent on synthetic fertilizers and pesticides, increase yields, but are costly and have deleterious impacts on human health and the environment. This research investigates variations in banana production practices in Costa Rica, to identify alternative systems that combine high productivity and profitability, with reduced reliance on agrochemicals. Farm workers were observed during daily production activities; 39 banana producers and 8 extension workers/researchers were interviewed; and a review of field experiments conducted by the National Banana Corporation between 1997 and 2002 was made. Correspondence analysis showed that there is no structured variation in large-scale banana producers' practices, but two other banana production systems were identified: a small-scale organic system and a small-scale conventional coffee-banana intercropped system. Field-scale research may reveal ways that these practices can be scaled up to achieve a productive and profitable system producing high-quality export bananas with fewer or no pesticides.

  8. The auxin response factor gene family in banana: genome-wide identification and expression analyses during development, ripening, and abiotic stress

    PubMed Central

    Hu, Wei; Zuo, Jiao; Hou, Xiaowan; Yan, Yan; Wei, Yunxie; Liu, Juhua; Li, Meiying; Xu, Biyu; Jin, Zhiqiang

    2015-01-01

    Auxin signaling regulates various auxin-responsive genes via two types of transcriptional regulators, Auxin Response Factors (ARF) and Aux/IAA. ARF transcription factors act as critical components of auxin signaling that play important roles in modulating various biological processes. However, limited information about this gene family in fruit crops is currently available. Herein, 47 ARF genes were identified in banana based on its genome sequence. Phylogenetic analysis of the ARFs from banana, rice, and Arabidopsis suggested that the ARFs could be divided into four subgroups, among which most ARFs from the banana showed a closer relationship with those from rice than those from Arabidopsis. Conserved motif analysis showed that all identified MaARFs had typical DNA-binding and ARF domains, but 12 members lacked the dimerization domain. Gene structure analysis showed that the number of exons in MaARF genes ranged from 5 to 21, suggesting large variation amongst banana ARF genes. The comprehensive expression profiles of MaARF genes yielded useful information about their involvement in diverse tissues, different stages of fruit development and ripening, and responses to abiotic stresses in different varieties. Interaction networks and co-expression assays indicated the strong transcriptional response of banana ARFs and ARF-mediated networks in early fruit development for different varieties. Our systematic analysis of MaARFs revealed robust tissue-specific, development-dependent, and abiotic stress-responsive candidate MaARF genes for further functional assays in planta. These findings could lead to potential applications in the genetic improvement of banana cultivars, and yield new insights into the complexity of the control of MaARF gene expression at the transcriptional level. Finally, they support the hypothesis that ARFs are a crucial component of the auxin signaling pathway, which regulates a wide range of physiological processes. PMID:26442055

  9. Roadmap Toward a Predictive Performance-based Commercial Energy Code

    SciTech Connect

    Rosenberg, Michael I.; Hart, Philip R.

    2014-10-01

    Energy codes have provided significant increases in building efficiency over the last 38 years, since the first national energy model code was published in late 1975. The most commonly used path in energy codes, the prescriptive path, appears to be reaching a point of diminishing returns. The current focus on prescriptive codes has limitations including significant variation in actual energy performance depending on which prescriptive options are chosen, a lack of flexibility for designers and developers, and the inability to handle control optimization that is specific to building type and use. This paper provides a high level review of different options for energy codes, including prescriptive, prescriptive packages, EUI Target, outcome-based, and predictive performance approaches. This paper also explores a next generation commercial energy code approach that places a greater emphasis on performance-based criteria. A vision is outlined to serve as a roadmap for future commercial code development. That vision is based on code development being led by a specific approach to predictive energy performance combined with building specific prescriptive packages that are designed to be both cost-effective and to achieve a desired level of performance. Compliance with this new approach can be achieved by either meeting the performance target as demonstrated by whole building energy modeling, or by choosing one of the prescriptive packages.

  10. PBHMDA: Path-Based Human Microbe-Disease Association Prediction

    PubMed Central

    Huang, Zhi-An; Chen, Xing; Zhu, Zexuan; Liu, Hongsheng; Yan, Gui-Ying; You, Zhu-Hong; Wen, Zhenkun

    2017-01-01

    With the advance of sequencing technology and microbiology, the microorganisms have been found to be closely related to various important human diseases. The increasing identification of human microbe-disease associations offers important insights into the underlying disease mechanism understanding from the perspective of human microbes, which are greatly helpful for investigating pathogenesis, promoting early diagnosis and improving precision medicine. However, the current knowledge in this domain is still limited and far from complete. Here, we present the computational model of Path-Based Human Microbe-Disease Association prediction (PBHMDA) based on the integration of known microbe-disease associations and the Gaussian interaction profile kernel similarity for microbes and diseases. A special depth-first search algorithm was implemented to traverse all possible paths between microbes and diseases for inferring the most possible disease-related microbes. As a result, PBHMDA obtained a reliable prediction performance with AUCs (The area under ROC curve) of 0.9169 and 0.8767 in the frameworks of both global and local leave-one-out cross validations, respectively. Based on 5-fold cross validation, average AUCs of 0.9082 ± 0.0061 further demonstrated the efficiency of the proposed model. For the case studies of liver cirrhosis, type 1 diabetes, and asthma, 9, 7, and 9 out of predicted microbes in the top 10 have been confirmed by previously published experimental literatures, respectively. We have publicly released the prioritized microbe-disease associations, which may help to select the most potential pairs for further guiding the experimental confirmation. In conclusion, PBHMDA may have potential to boost the discovery of novel microbe-disease associations and aid future research efforts toward microbe involvement in human disease mechanism. The code and data of PBHMDA is freely available at http://www.escience.cn/system/file?fileId=85214. PMID:28275370

  11. PBHMDA: Path-Based Human Microbe-Disease Association Prediction.

    PubMed

    Huang, Zhi-An; Chen, Xing; Zhu, Zexuan; Liu, Hongsheng; Yan, Gui-Ying; You, Zhu-Hong; Wen, Zhenkun

    2017-01-01

    With the advance of sequencing technology and microbiology, the microorganisms have been found to be closely related to various important human diseases. The increasing identification of human microbe-disease associations offers important insights into the underlying disease mechanism understanding from the perspective of human microbes, which are greatly helpful for investigating pathogenesis, promoting early diagnosis and improving precision medicine. However, the current knowledge in this domain is still limited and far from complete. Here, we present the computational model of Path-Based Human Microbe-Disease Association prediction (PBHMDA) based on the integration of known microbe-disease associations and the Gaussian interaction profile kernel similarity for microbes and diseases. A special depth-first search algorithm was implemented to traverse all possible paths between microbes and diseases for inferring the most possible disease-related microbes. As a result, PBHMDA obtained a reliable prediction performance with AUCs (The area under ROC curve) of 0.9169 and 0.8767 in the frameworks of both global and local leave-one-out cross validations, respectively. Based on 5-fold cross validation, average AUCs of 0.9082 ± 0.0061 further demonstrated the efficiency of the proposed model. For the case studies of liver cirrhosis, type 1 diabetes, and asthma, 9, 7, and 9 out of predicted microbes in the top 10 have been confirmed by previously published experimental literatures, respectively. We have publicly released the prioritized microbe-disease associations, which may help to select the most potential pairs for further guiding the experimental confirmation. In conclusion, PBHMDA may have potential to boost the discovery of novel microbe-disease associations and aid future research efforts toward microbe involvement in human disease mechanism. The code and data of PBHMDA is freely available at http://www.escience.cn/system/file?fileId=85214.

  12. Broadband Noise Predictions Based on a New Aeroacoustic Formulation

    NASA Technical Reports Server (NTRS)

    Casper, J.; Farassat, F.

    2002-01-01

    A new analytic result in acoustics called 'Formulation 1B,' proposed by Farassat, is used to compute the loading noise from an unsteady surface pressure distribution on a thin airfoil in the time domain. This formulation is a new solution of the Ffowcs Williams-Hawkings equation with the loading source term. The formulation contains a far-field surface integral that depends on the time derivative and the surface gradient of the pressure on the airfoil, as well as a contour integral on the boundary of the airfoil surface. As a first test case, the new formulation is used to compute the noise radiated from a flat plate, moving through a sinusoidal gust of constant frequency. The unsteady surface pressure for this test case is specified analytically from a result that is based on linear airfoil theory. This test case is used to examine the velocity scaling properties of Formulation 1B, and to demonstrate its equivalence to Formulation 1A, of Farassat. The new acoustic formulation, again with an analytic surface pressure, is then used to predict broadband noise radiated from an airfoil immersed in homogeneous turbulence. The results are compared with experimental data previously reported by Paterson and Amiet. Good agreement between predictions and measurements is obtained. The predicted results also agree very well with those of Paterson and Amiet, who used a frequency-domain approach. Finally, an alternative form of Formulation 1B is described for statistical analysis of broadband noise.

  13. Optimization of continuous and intermittent microwave extraction of pectin from banana peels.

    PubMed

    Swamy, Gabriela John; Muthukumarappan, Kasiviswanathan

    2017-04-01

    Continuous and intermittent microwave-assisted extractions were used to extract pectin from banana peels. Extraction parameters which were employed in the continuous process were microwave power (300-900W), time (100-300s), pH (1-3) and in the intermittent process were microwave power (300-900W), pulse ratio (0.5-1), pH (1-3). The independent factors were optimized with the Box-Behnken response surface design (BBD) (three factor three level) with the desirability function methodology. Results indicate that the independent factors have substantial effect on the pectin yield. Optimized solutions for highest pectin yield (2.18%) from banana peels were obtained with microwave power of 900W, time 100s and pH 3.00 in the continuous method while the intermittent process yielded the highest pectin content (2.58%) at microwave power of 900W, pulse ratio of 0.5 and pH of 3.00. The optimized conditions were validated and close agreement was observed with the validation experiment and predicted value.

  14. Phenotype prediction based on genome-wide DNA methylation data

    PubMed Central

    2014-01-01

    Background DNA methylation (DNAm) has important regulatory roles in many biological processes and diseases. It is the only epigenetic mark with a clear mechanism of mitotic inheritance and the only one easily available on a genome scale. Aberrant cytosine-phosphate-guanine (CpG) methylation has been discussed in the context of disease aetiology, especially cancer. CpG hypermethylation of promoter regions is often associated with silencing of tumour suppressor genes and hypomethylation with activation of oncogenes. Supervised principal component analysis (SPCA) is a popular machine learning method. However, in a recent application to phenotype prediction from DNAm data SPCA was inferior to the specific method EVORA. Results We present Model-Selection-SPCA (MS-SPCA), an enhanced version of SPCA. MS-SPCA applies several models that perform well in the training data to the test data and selects the very best models for final prediction based on parameters of the test data. We have applied MS-SPCA for phenotype prediction from genome-wide DNAm data. CpGs used for prediction are selected based on the quantification of three features of their methylation (average methylation difference, methylation variation difference and methylation-age-correlation). We analysed four independent case–control datasets that correspond to different stages of cervical cancer: (i) cases currently cytologically normal, but will later develop neoplastic transformations, (ii, iii) cases showing neoplastic transformations and (iv) cases with confirmed cancer. The first dataset was split into several smaller case–control datasets (samples either Human Papilloma Virus (HPV) positive or negative). We demonstrate that cytology normal HPV+ and HPV- samples contain DNAm patterns which are associated with later neoplastic transformations. We present evidence that DNAm patterns exist in cytology normal HPV- samples that (i) predispose to neoplastic transformations after HPV infection and (ii

  15. A general framework for multivariate multi-index drought prediction based on Multivariate Ensemble Streamflow Prediction (MESP)

    NASA Astrophysics Data System (ADS)

    Hao, Zengchao; Hao, Fanghua; Singh, Vijay P.

    2016-08-01

    Drought is among the costliest natural hazards worldwide and extreme drought events in recent years have caused huge losses to various sectors. Drought prediction is therefore critically important for providing early warning information to aid decision making to cope with drought. Due to the complicated nature of drought, it has been recognized that the univariate drought indicator may not be sufficient for drought characterization and hence multivariate drought indices have been developed for drought monitoring. Alongside the substantial effort in drought monitoring with multivariate drought indices, it is of equal importance to develop a drought prediction method with multivariate drought indices to integrate drought information from various sources. This study proposes a general framework for multivariate multi-index drought prediction that is capable of integrating complementary prediction skills from multiple drought indices. The Multivariate Ensemble Streamflow Prediction (MESP) is employed to sample from historical records for obtaining statistical prediction of multiple variables, which is then used as inputs to achieve multivariate prediction. The framework is illustrated with a linearly combined drought index (LDI), which is a commonly used multivariate drought index, based on climate division data in California and New York in the United States with different seasonality of precipitation. The predictive skill of LDI (represented with persistence) is assessed by comparison with the univariate drought index and results show that the LDI prediction skill is less affected by seasonality than the meteorological drought prediction based on SPI. Prediction results from the case study show that the proposed multivariate drought prediction outperforms the persistence prediction, implying a satisfactory performance of multivariate drought prediction. The proposed method would be useful for drought prediction to integrate drought information from various sources

  16. 33 CFR 334.540 - Banana River at the Eastern Range, 45th Space Wing, Cape Canaveral Air Force Station, FL...

    Code of Federal Regulations, 2010 CFR

    2010-07-01

    ..., 45th Space Wing, Cape Canaveral Air Force Station, FL; restricted area. 334.540 Section 334.540... enforced by the Commander, 45th Space Wing, Patrick Air Force Base, Florida and/or such persons or agencies... AND RESTRICTED AREA REGULATIONS § 334.540 Banana River at the Eastern Range, 45th Space Wing,...

  17. Sequence-Based Prediction of Type III Secreted Proteins

    PubMed Central

    Arnold, Roland; Brandmaier, Stefan; Kleine, Frederick; Tischler, Patrick; Heinz, Eva; Behrens, Sebastian; Niinikoski, Antti; Mewes, Hans-Werner; Horn, Matthias; Rattei, Thomas

    2009-01-01

    The type III secretion system (TTSS) is a key mechanism for host cell interaction used by a variety of bacterial pathogens and symbionts of plants and animals including humans. The TTSS represents a molecular syringe with which the bacteria deliver effector proteins directly into the host cell cytosol. Despite the importance of the TTSS for bacterial pathogenesis, recognition and targeting of type III secreted proteins has up until now been poorly understood. Several hypotheses are discussed, including an mRNA-based signal, a chaperon-mediated process, or an N-terminal signal peptide. In this study, we systematically analyzed the amino acid composition and secondary structure of N-termini of 100 experimentally verified effector proteins. Based on this, we developed a machine-learning approach for the prediction of TTSS effector proteins, taking into account N-terminal sequence features such as frequencies of amino acids, short peptides, or residues with certain physico-chemical properties. The resulting computational model revealed a strong type III secretion signal in the N-terminus that can be used to detect effectors with sensitivity of ∼71% and selectivity of ∼85%. This signal seems to be taxonomically universal and conserved among animal pathogens and plant symbionts, since we could successfully detect effector proteins if the respective group was excluded from training. The application of our prediction approach to 739 complete bacterial and archaeal genome sequences resulted in the identification of between 0% and 12% putative TTSS effector proteins. Comparison of effector proteins with orthologs that are not secreted by the TTSS showed no clear pattern of signal acquisition by fusion, suggesting convergent evolutionary processes shaping the type III secretion signal. The newly developed program EffectiveT3 (http://www.chlamydiaedb.org) is the first universal in silico prediction program for the identification of novel TTSS effectors. Our findings will

  18. Cover cropping alters the diet of arthropods in a banana plantation: a metabarcoding approach.

    PubMed

    Mollot, Gregory; Duyck, Pierre-François; Lefeuvre, Pierre; Lescourret, Françoise; Martin, Jean-François; Piry, Sylvain; Canard, Elsa; Tixier, Philippe

    2014-01-01

    Plant diversification using cover crops may promote natural regulation of agricultural pests by supporting alternative prey that enable the increase of arthropod predator densities. However, the changes in the specific composition of predator diet induced by cover cropping are poorly understood. Here, we hypothesized that the cover crop can significantly alter the diet of predators in agroecosystems. The cover crop Brachiaria decumbens is increasingly used in banana plantations to control weeds and improve physical soil properties. In this paper, we used a DNA metabarcoding approach for the molecular analysis of the gut contents of predators (based on mini-COI) to identify 1) the DNA sequences of their prey, 2) the predators of Cosmopolites sordidus (a major pest of banana crops), and 3) the difference in the specific composition of predator diets between a bare soil plot (BSP) and a cover cropped plot (CCP) in a banana plantation. The earwig Euborellia caraibea, the carpenter ant Camponotus sexguttatus, and the fire ant Solenopsis geminata were found to contain C. sordidus DNA at frequencies ranging from 1 to 7%. While the frequencies of predators positive for C. sordidus DNA did not significantly differ between BSP and CCP, the frequency at which E. caraibea was positive for Diptera was 26% in BSP and 80% in CCP; the frequency at which C. sexguttatus was positive for Jalysus spinosus was 14% in BSP and 0% in CCP; and the frequency at which S. geminata was positive for Polytus mellerborgi was 21% in BSP and 3% in CCP. E. caraibea, C. sexguttatus and S. geminata were identified as possible biological agents for the regulation of C. sordidus. The detection of the diet changes of these predators when a cover crop is planted indicates the possible negative effects on pest regulation if predators switch to forage on alternative prey.

  19. Cover Cropping Alters the Diet of Arthropods in a Banana Plantation: A Metabarcoding Approach

    PubMed Central

    Mollot, Gregory; Duyck, Pierre-François; Lefeuvre, Pierre; Lescourret, Françoise; Martin, Jean-François; Piry, Sylvain; Canard, Elsa; Tixier, Philippe

    2014-01-01

    Plant diversification using cover crops may promote natural regulation of agricultural pests by supporting alternative prey that enable the increase of arthropod predator densities. However, the changes in the specific composition of predator diet induced by cover cropping are poorly understood. Here, we hypothesized that the cover crop can significantly alter the diet of predators in agroecosystems. The cover crop Brachiaria decumbens is increasingly used in banana plantations to control weeds and improve physical soil properties. In this paper, we used a DNA metabarcoding approach for the molecular analysis of the gut contents of predators (based on mini-COI) to identify 1) the DNA sequences of their prey, 2) the predators of Cosmopolites sordidus (a major pest of banana crops), and 3) the difference in the specific composition of predator diets between a bare soil plot (BSP) and a cover cropped plot (CCP) in a banana plantation. The earwig Euborellia caraibea, the carpenter ant Camponotus sexguttatus, and the fire ant Solenopsis geminata were found to contain C. sordidus DNA at frequencies ranging from 1 to 7%. While the frequencies of predators positive for C. sordidus DNA did not significantly differ between BSP and CCP, the frequency at which E. caraibea was positive for Diptera was 26% in BSP and 80% in CCP; the frequency at which C. sexguttatus was positive for Jalysus spinosus was 14% in BSP and 0% in CCP; and the frequency at which S. geminata was positive for Polytus mellerborgi was 21% in BSP and 3% in CCP. E. caraibea, C. sexguttatus and S. geminata were identified as possible biological agents for the regulation of C. sordidus. The detection of the diet changes of these predators when a cover crop is planted indicates the possible negative effects on pest regulation if predators switch to forage on alternative prey. PMID:24695585

  20. Structure-based prediction of host-pathogen protein interactions.

    PubMed

    Mariano, Rachelle; Wuchty, Stefan

    2017-03-16

    The discovery, validation, and characterization of protein-based interactions from different species are crucial for translational research regarding a variety of pathogens, ranging from the malaria parasite Plasmodium falciparum to HIV-1. Here, we review recent advances in the prediction of host-pathogen protein interfaces using structural information. In particular, we observe that current methods chiefly perform machine learning on sequence and domain information to produce large sets of candidate interactions that are further assessed and pruned to generate final, highly probable sets. Structure-based studies have also emphasized the electrostatic properties and evolutionary transformations of pathogenic interfaces, supplying crucial insight into antigenic determinants and the ways pathogens compete for host protein binding. Advancements in spectroscopic and crystallographic methods complement the aforementioned techniques, permitting the rigorous study of true positives at a molecular level. Together, these approaches illustrate how protein structure on a variety of levels functions coordinately and dynamically to achieve host takeover.

  1. Forbush Decrease Prediction Based on Remote Solar Observations

    NASA Astrophysics Data System (ADS)

    Dumbovic, Mateja; Vrsnak, Bojan; Calogovic, Jasa

    2016-04-01

    We study the relation between remote observations of coronal mass ejections (CMEs), their associated solar flares and short-term depressions in the galactic cosmic-ray flux (so called Forbush decreases). Statistical relations between Forbush decrease magnitude and several CME/flare parameters are examined. In general we find that Forbush decrease magnitude is larger for faster CMEs with larger apparent width, which is associated with stronger flares that originate close to the center of the solar disk and are (possibly) involved in a CME-CME interaction. The statistical relations are quantified and employed to forecast expected Forbush decrease magnitude range based on the selected remote solar observations of the CME and associated solar flare. Several verification measures are used to evaluate the forecast method. We find that the forecast is most reliable in predicting whether or not a CME will produce a Forbush decrease with a magnitude >3 %. The main advantage of the method is that it provides an early prediction, 1-4 days in advance. Based on the presented research, an online forecast tool was developed (Forbush Decrease Forecast Tool, FDFT) available at Hvar Observatory web page: http://oh.geof.unizg.hr/FDFT/fdft.php. We acknowledge the support of Croatian Science Foundation under the project 6212 „Solar and Stellar Variability" and of European social fond under the project "PoKRet".

  2. Video-based early cerebral palsy prediction using motion segmentation.

    PubMed

    Rahmati, Hodjat; Aamo, Ole Morten; Stavdahl, Øyvind; Dragon, Ralf; Adde, Lars

    2014-01-01

    Analysing distinct motion patterns that occur during infancy can be a way through early prediction of cerebral palsy. This analysis can only be performed by well-trained expert clinicians, and hence can not be widespread, specially in poor countries. In order to decrease the need for experts, computer-based methods can be applied. If individual motions of different body parts are available, these methods could achieve more accurate results with better clinical insight. Thus far, motion capture systems or the like were needed in order to provide such data. However, these systems not only need laboratory and experts to set up the experiment, but they could be intrusive for the infant's motions. In this paper we build up our prediction method on a solution based on a single video camera, that is far less intrusive and a lot cheaper. First, the motions of different body parts are separated, then, motion features are extracted and used to classify infants to healthy or affected. Our experimental results show that visually obtained motion data allows cerebral palsy detection as accurate as state-of-the-art electromagnetic sensor data.

  3. Establishing aerosol exposure predictive models based on vibration measurements.

    PubMed

    Soo, Jhy-Charm; Tsai, Perng-Jy; Lee, Shih-Chuan; Lu, Shih-Yi; Chang, Cheng-Ping; Liou, Yuh-When; Shih, Tung-Sheng

    2010-06-15

    This paper establishes particulate exposure predictive models based on vibration measurements under various concrete drilling conditions. The whole study was conducted in an exposure chamber using a full-scale mockup of concrete drilling simulator to simulate six drilling conditions. For each drilling condition, the vibration of the three orthogonal axes (i.e., a(x), a(y), and a(z)) was measured from the hand tool. Particulate exposure concentrations to the total suspended particulate (C(TSP)), PM(10) (C(PM10)), and PM(2.5) (C(PM2.5)) were measured at the downwind side of the drilling simulator. Empirical models for predicting C(TSP), C(PM10) and C(PM2.5) were done based on measured a(x), a(y), and a(z) using the generalized additive model. Good agreement between measured aerosol exposures and vibrations was found with R(2)>0.969. Our results also suggest that a(x) was mainly contributed by the abrasive wear. On the other hand, a(y) and a(z) were mainly contributed by both the impact wear and brittle fracture wear. The approach developed from the present study has the potential to provide a cheaper and convenient method for assessing aerosol exposures from various emission sources, particularly when conducting conventional personal aerosol samplings are not possible in the filed.

  4. Proteomic analysis of Fusarium oxysporum f. sp. cubense tropical race 4-inoculated response to Fusarium wilts in the banana root cells

    PubMed Central

    2013-01-01

    Background Fusarium wilt of banana is one of the most destructive diseases in the world. This disease has caused heavy losses in major banana production areas. Except for molecular breeding methods based on plant defense mechanisms, effective methods to control the disease are still lacking. Dynamic changes in defense mechanisms between susceptible, moderately resistant, and highly resistant banana and Fusarium oxysporum f. sp. cubense tropical race 4 (Foc4) at the protein level remain unknown. This research reports the proteomic profile of three banana cultivars in response to Foc4 and transcriptional levels correlated with their sequences for the design of disease control strategies by molecular breeding. Results Thirty-eight differentially expressed proteins were identified to function in cell metabolism. Most of these proteins were positively regulated after Foc4 inoculation. These differentially regulated proteins were found to have important functions in banana defense response. Functional categories implicated that these proteins were associated with pathogenesis-related (PR) response; isoflavonoid, flavonoid, and anthocyanin syntheses; cell wall strengthening; cell polarization; reactive oxygen species production and scavenging; jasmonic acid-, abscisic acid-, and auxin-mediated signaling conduction; molecular chaperones; energy; and primary metabolism. By comparing the protein profiles of resistant and susceptible banana cultivars, many proteins showed obvious distinction in their defense mechanism functions. PR proteins in susceptible ‘Brazil’ were mainly involved in defense. The proteins related to PR response, cell wall strengthening and antifungal compound synthesis in moderately resistant ‘Nongke No.1’ were mainly involved in defense. The proteins related to PR response, cell wall strengthening, and antifungal compound synthesis in highly resistant ‘Yueyoukang I’ were mainly involved in defense. 12 differentially regulated genes were

  5. Neural mechanisms of rhythm-based temporal prediction: Delta phase-locking reflects temporal predictability but not rhythmic entrainment

    PubMed Central

    Deouell, Leon Y.

    2017-01-01

    Predicting the timing of upcoming events enables efficient resource allocation and action preparation. Rhythmic streams, such as music, speech, and biological motion, constitute a pervasive source for temporal predictions. Widely accepted entrainment theories postulate that rhythm-based predictions are mediated by synchronizing low-frequency neural oscillations to the rhythm, as indicated by increased phase concentration (PC) of low-frequency neural activity for rhythmic compared to random streams. However, we show here that PC enhancement in scalp recordings is not specific to rhythms but is observed to the same extent in less periodic streams if they enable memory-based prediction. This is inconsistent with the predictions of a computational entrainment model of stronger PC for rhythmic streams. Anticipatory change in alpha activity and facilitation of electroencephalogram (EEG) manifestations of response selection are also comparable between rhythm- and memory-based predictions. However, rhythmic sequences uniquely result in obligatory depression of preparation-related premotor brain activity when an on-beat event is omitted, even when it is strategically beneficial to maintain preparation, leading to larger behavioral costs for violation of prediction. Thus, while our findings undermine the validity of PC as a sign of rhythmic entrainment, they constitute the first electrophysiological dissociation, to our knowledge, between mechanisms of rhythmic predictions and of memory-based predictions: the former obligatorily lead to resonance-like preparation patterns (that are in line with entrainment), while the latter allow flexible resource allocation in time regardless of periodicity in the input. Taken together, they delineate the neural mechanisms of three distinct modes of preparation: continuous vigilance, interval-timing-based prediction and rhythm-based prediction. PMID:28187128

  6. Dielectric response based characterization and strength prediction of cementitious materials

    NASA Astrophysics Data System (ADS)

    Manchiryal, Ram Kishore

    Electrical property based methods are powerful tools to sense the properties of cement based materials. Among the several non-invasive investigative techniques, those based on monitoring the electrical properties during the initial setting and in the subsequent hardening period have immense potential in performance prediction of concrete. Electrical impedance spectroscopy (EIS) has emerged as one of the promising techniques to non-invasively probe the microstructure and property development in cement based materials. This thesis reports the results of a systematic investigation carried out to understand the influence of material parameters on the dielectric response of cement pastes and concretes, and also a methodology to property prediction in cementitious system using electrical properties. The influence of cement type, water-to-cementing materials ratio (w/cm), and the presence of fly ash as a cement replacement material on the conductivity of cement pastes is studied. The electrical conductivity---time relationships of cement pastes and concretes are expressed using a model that facilitates the extraction of initial and final conductivities, and a characteristic time parameter. These terms are used to derive information about the microstructural changes occurring with time in cement pastes. The experimental results are subjected to a range analysis to isolate the significant factors and factor interactions that influence the initial and final conductivities as well as the time parameter from the conductivity-time model for concrete mixtures. The material parameters that influence the measured conductivity are identified and their influence quantified. The changes in dielectric constant and conductivity spectra of cement paste and concretes are attributed to the polarization phenomena. There is an observed dielectric enhancement for fly ash modified pastes. The dielectric response of concrete is very similar to that of pastes, and the effect of dilution by the

  7. Gibberella musae (Fusarium musae) sp. nov., a recently discovered species from banana is sister to F. verticillioides.

    PubMed

    Van Hove, François; Waalwijk, Cees; Logrieco, Antonio; Munaut, Françoise; Moretti, Antonio

    2011-01-01

    Several strains of Fusarium isolated from banana were identified previously as F. verticillioides (Sacc.) Nirenberg but described as unable to produce fumonisin. Here we report biochemical and morphological evidence, as well as multilocus phylogenetic analyses based on elongation factor (EF-1α), calmodulin, β-tubulin, and the second largest subunit of RNA polymerase II (RPB2) sequences, indicating that these isolates represent a unique lineage in the Gibberella fujikuroi species complex related to but distinct from F. verticillioides. Together with previous results of molecular studies, as well as with results of metabolite analyses, crossing experiments, pathogenicity tests and morphological characterization, these new data indicate that these strains isolated from banana represent a new species, Gibberella musae Van Hove et al. sp. nov. (anamorph: Fusarium musae Van Hove et al. sp. nov.), which is described herein.

  8. Quality Characteristics of Dried Bananas Produced with Infrared Radiation Technology

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Browning of fruits during drying is a major quality concern. The enzyme polyphenol oxidase has been found to be the main cause of browning in bananas. Infrared radiation (IR) drying could be used to minimize enzymatic browning hence eliminating the need for pre-treatments. This study was to inves...

  9. Sheep fed with banana leaf hay reduce ruminal protozoa population.

    PubMed

    Freitas, Cláudio Eduardo Silva; Duarte, Eduardo Robson; Alves, Dorismar David; Martinele, Isabel; D'Agosto, Marta; Cedrola, Franciane; de Moura Freitas, Angélica Alves; Dos Santos Soares, Franklin Delano; Beltran, Makenzi

    2017-04-01

    A ciliate protozoa suppression can reduce methane production increasing the energy efficiency utilization by ruminants. The physicochemical characteristics of rumen fluid and the profile of the rumen protozoa populations were evaluated for sheep fed banana leaf hay in replacement of the Cynodon dactylon cv. vaqueiro hay. A total of 30 male sheep were raised in intensive system during 15 days of adaptation and 63 days of experimental period. The animals were distributed in a completely randomized design that included six replicates of five treatments with replacement levels (0, 25, 50, 75, and 100%) of the grass vaquero for the banana leaf hay. Samples of fluid were collected directly from the rumen with sterile catheters. Color, odor, viscosity, and the methylene blue reduction potential (MBRP) were evaluated and pH estimated using a digital potentiometer. After decimal dilutions, counts of genus protozoa were performed in Sedgewick Rafter chambers. The averages of pH, MBRP, color, odor, and viscosity were not influenced by the inclusion of the banana leaf hay. However, the total number of protozoa and Entodinium spp. population significantly decreased at 75 and 100% inclusions of banana leaf hay as roughage.

  10. Digestion of waste bananas to generate energy in Australia.

    PubMed

    Clarke, W P; Radnidge, P; Lai, T E; Jensen, P D; Hardin, M T

    2008-01-01

    This paper presents results from laboratory studies to measure the methane yield and rate of digestion of reject bananas. These parameters were determined in experiments that took into account the likely configuration of a full-scale plant in the banana growing region of north Queensland. The digestion was conducted in a 200-l reactor using fed-batch operation, relying entirely on the natural microbial consortia on the reject bananas to avoid reliance on external inocula such as sludge, an undesirable material around food packaging facilities. An enrichment culture was first established in a highly buffered 200-l batch digestion unit. The fed-batch digester was then started by exchanging leachate with the mature batch reactor. Under loading conditions of 0.6 kg VS m(-3)d(-1) over 70 days where the average working volume was 160 l, the digester produced 398+/-20 l CH4 kg VS(-1). Increasing the loading rate to 1.6 kg VS m(-3)d(-1) resulted in a reduced methane yield of 210 l CH4 kg VS(-1) over 23 days of operation, with a concomitant accumulation of banana waste in the digester. The leachate at the end of digestion contained over 4000 mg l(-1)K, 200 mg l(-1) N and 75 mg l(-1), levels that exceed acceptable limits for general agricultural irrigation.

  11. Distance matrix-based approach to protein structure prediction.

    PubMed

    Kloczkowski, Andrzej; Jernigan, Robert L; Wu, Zhijun; Song, Guang; Yang, Lei; Kolinski, Andrzej; Pokarowski, Piotr

    2009-03-01

    Much structural information is encoded in the internal distances; a distance matrix-based approach can be used to predict protein structure and dynamics, and for structural refinement. Our approach is based on the square distance matrix D = [r(ij)(2)] containing all square distances between residues in proteins. This distance matrix contains more information than the contact matrix C, that has elements of either 0 or 1 depending on whether the distance r (ij) is greater or less than a cutoff value r (cutoff). We have performed spectral decomposition of the distance matrices D = sigma lambda(k)V(k)V(kT), in terms of eigenvalues lambda kappa and the corresponding eigenvectors v kappa and found that it contains at most five nonzero terms. A dominant eigenvector is proportional to r (2)--the square distance of points from the center of mass, with the next three being the principal components of the system of points. By predicting r (2) from the sequence we can approximate a distance matrix of a protein with an expected RMSD value of about 7.3 A, and by combining it with the prediction of the first principal component we can improve this approximation to 4.0 A. We can also explain the role of hydrophobic interactions for the protein structure, because r is highly correlated with the hydrophobic profile of the sequence. Moreover, r is highly correlated with several sequence profiles which are useful in protein structure prediction, such as contact number, the residue-wise contact order (RWCO) or mean square fluctuations (i.e. crystallographic temperature factors). We have also shown that the next three components are related to spatial directionality of the secondary structure elements, and they may be also predicted from the sequence, improving overall structure prediction. We have also shown that the large number of available HIV-1 protease structures provides a remarkable sampling of conformations, which can be viewed as direct structural information about the

  12. a Sensor Based Automatic Ovulation Prediction System for Dairy Cows

    NASA Astrophysics Data System (ADS)

    Mottram, Toby; Hart, John; Pemberton, Roy

    2000-12-01

    Sensor scientists have been successful in developing detectors for tiny concentrations of rare compounds, but the work is rarely applied in practice. Any but the most trivial application of sensors requires a specification that should include a sampling system, a sensor, a calibration system and a model of how the information is to be used to control the process of interest. The specification of the sensor system should ask the following questions. How will the material to be analysed be sampled? What decision can be made with the information available from a proposed sensor? This project provides a model of a systems approach to the implementation of automatic ovulation prediction in dairy cows. A healthy well managed dairy cow should calve every year to make the best use of forage. As most cows are inseminated artificially it is of vital importance mat cows are regularly monitored for signs of oestrus. The pressure on dairymen to manage more cows often leads to less time being available for observation of cows to detect oestrus. This, together with breeding and feeding for increased yields, has led to a reduction in reproductive performance. In the UK the typical dairy farmer could save € 12800 per year if ovulation could be predicted accurately. Research over a number of years has shown that regular analysis of milk samples with tests based on enzyme linked immunoassay (ELISA) can map the ovulation cycle. However, these tests require the farmer to implement a manually operated sampling and analysis procedure and the technique has not been widely taken up. The best potential method of achieving 98% specificity of prediction of ovulation is to adapt biosensor techniques to emulate the ELISA tests automatically in the milking system. An automated ovulation prediction system for dairy cows is specified. The system integrates a biosensor with automatic milk sampling and a herd management database. The biosensor is a screen printed carbon electrode system capable of

  13. Improved detection of episomal Banana streak viruses by multiplex immunocapture PCR.

    PubMed

    Le Provost, Grégoire; Iskra-Caruana, Marie-Line; Acina, Isabelle; Teycheney, Pierre-Yves

    2006-10-01

    Banana streak viruses (BSV) are currently the main viral constraint to Musa germplasm movement, genetic improvement and mass propagation. Therefore, it is necessary to develop and implement BSV detection strategies that are both reliable and sensitive, such as PCR-based techniques. Unfortunately, BSV endogenous pararetrovirus sequences (BSV EPRVs) are present in the genome of Musa balbisiana. They interfere with PCR-based detection of episomal BSV in infected banana and plantain, such as immunocapture PCR. Therefore, a multiplex, immunocapture PCR (M-IC-PCR) was developed for the detection of BSV. Musa sequence tagged microsatellite site (STMS) primers were selected and used in combination with BSV species-specific primers in order to monitor possible contamination by Musa genomic DNA, using multiplex PCR. Furthermore, immunocapture conditions were optimized in order to prevent Musa DNA from interfering with episomal BSV DNA during the PCR step. This improved detection method successfully allowed the accurate, specific and sensitive detection of episomal DNA only from distinct BSV species. Its implementation should benefit PCR-based detection of viruses for which homologous sequences are present in the genome of their hosts, including transgenic plants expressing viral sequences.

  14. Children's and Adults' Models for Predicting Teleological Action: The Development of a Biology-Based Model.

    ERIC Educational Resources Information Center

    Opfer, John E.; Gelman, Susan A.

    2001-01-01

    Two studies examined models that preschoolers, fifth-graders, and adults use to guide predictions of self-beneficial, goal-directed action. Found that preschoolers' predictions were consistent with an animal-based model, fifth-graders' with biology-based and complexity-based models, and adults' predictions with a biology-based model. All age…

  15. Predictive Multiscale Modeling of Nanocellulose Based Materials and Systems

    NASA Astrophysics Data System (ADS)

    Kovalenko, Andriy

    2014-08-01

    Cellulose Nanocrysals (CNC) is a renewable biodegradable biopolymer with outstanding mechanical properties made from highly abundant natural source, and therefore is very attractive as reinforcing additive to replace petroleum-based plastics in biocomposite materials, foams, and gels. Large-scale applications of CNC are currently limited due to its low solubility in non-polar organic solvents used in existing polymerization technologies. The solvation properties of CNC can be improved by chemical modification of its surface. Development of effective surface modifications has been rather slow because extensive chemical modifications destabilize the hydrogen bonding network of cellulose and deteriorate the mechanical properties of CNC. We employ predictive multiscale theory, modeling, and simulation to gain a fundamental insight into the effect of CNC surface modifications on hydrogen bonding, CNC crystallinity, solvation thermodynamics, and CNC compatibilization with the existing polymerization technologies, so as to rationally design green nanomaterials with improved solubility in non-polar solvents, controlled liquid crystal ordering and optimized extrusion properties. An essential part of this multiscale modeling approach is the statistical- mechanical 3D-RISM-KH molecular theory of solvation, coupled with quantum mechanics, molecular mechanics, and multistep molecular dynamics simulation. The 3D-RISM-KH theory provides predictive modeling of both polar and non-polar solvents, solvent mixtures, and electrolyte solutions in a wide range of concentrations and thermodynamic states. It properly accounts for effective interactions in solution such as steric effects, hydrophobicity and hydrophilicity, hydrogen bonding, salt bridges, buffer, co-solvent, and successfully predicts solvation effects and processes in bulk liquids, solvation layers at solid surface, and in pockets and other inner spaces of macromolecules and supramolecular assemblies. This methodology

  16. Physicochemical, digestibility and structural characteristics of starch isolated from banana cultivars.

    PubMed

    Agama-Acevedo, Edith; Nuñez-Santiago, Maria C; Alvarez-Ramirez, José; Bello-Pérez, Luis A

    2015-06-25

    Banana starches from diverse varieties (Macho, Morado, Valery and Enano Gigante) were studied in their physicochemical, structural and digestibility features. X-ray diffraction indicated that the banana starches present a B-type crystallinity pattern, with slight difference in the crystallinity level. Macho and Enano Gigante starches showed the highest pasting temperatures (79 and 78°C, respectively), whilst Valery and Morado varieties presented a slight breakdown and higher setback than the formers. Morado starch presented the highest solubility value and Valery starch the lowest one. The swelling pattern of the banana starches was in agreement with their pasting profile. All banana starches showed a shear-thinning profile. The resistant starch (RS) fraction was the main fraction in the uncooked banana starches. Morado variety showed the highest amount of slowly digestible starch (SDS) and the lowest RS content reported until now in banana starches. Banana starch cooked samples presented an important amount of SDS and RS. Molecular weight and gyration radius of the four banana starches ranged between 2.88-3.14×10(8)g/mol and 286-302nm, respectively. The chain-length distributions of banana amylopectin showed that B1 chains (DP 13-24) is the main fraction, and an important amount of long chains (DP≥37) are present. The information generated from this study can be useful to determine banana varieties for starch isolation with specific functionality.

  17. Biomass prediction model in maize based on satellite images

    NASA Astrophysics Data System (ADS)

    Mihai, Herbei; Florin, Sala

    2016-06-01

    Monitoring of crops by satellite techniques is very useful in the context of precision agriculture, regarding crops management and agricultural production. The present study has evaluated the interrelationship between maize biomass production and satellite indices (NDVI and NDBR) during five development stages (BBCH code), highlighting different levels of correlation. Biomass production recorded was between 2.39±0.005 t ha-1 (12-13 BBCH code) and 51.92±0.028 t ha-1 (83-85 BBCH code), in relation to vegetation stages studied. Values of chlorophyll content ranged from 24.1±0.25 SPAD unit (12-13 BBCH code) to 58.63±0.47 SPAD unit (71-73 BBCH code), and the obtained satellite indices ranged from 0.035641±0.002 and 0.320839±0.002 for NDVI indices respectively 0.035095±0.034 and 0.491038±0.018 in the case of NDBR indices. By regression analysis it was possible to obtain predictive models of biomass in maize based on the satellite indices, in statistical accurate conditions. The most accurate prediction was possible based on NDBR index (R2 = 0.986, F = 144.23, p<0.001, RMSE = 1.446), then based on chlorophyll content (R2 = 0.834, F = 16.14, p = 0.012, RMSE = 6.927) and NDVI index (R2 = 0.682, F = 3.869, p = 0.116, RMSE = 12.178).

  18. Parkinson's disease prediction using diffusion-based atlas approach

    NASA Astrophysics Data System (ADS)

    Teodorescu, Roxana O.; Racoceanu, Daniel; Smit, Nicolas; Cretu, Vladimir I.; Tan, Eng K.; Chan, Ling L.

    2010-03-01

    We study Parkinson's disease (PD) using an automatic specialized diffusion-based atlas. A total of 47 subjects, among who 22 patients diagnosed clinically with PD and 25 control cases, underwent DTI imaging. The EPIs have lower resolution but provide essential anisotropy information for the fiber tracking process. The two volumes of interest (VOI) represented by the Substantia Nigra and the Putamen are detected on the EPI and FA respectively. We use the VOIs for the geometry-based registration. We fuse the anatomical detail detected on FA image for the putamen volume with the EPI. After 3D fibers growing on the two volumes, we compute the fiber density (FD) and the fiber volume (FV). Furthermore, we compare patients based on the extracted fibers and evaluate them according to Hohen&Yahr (H&Y) scale. This paper introduces the method used for automatic volume detection and evaluates the fiber growing method on these volumes. Our approach is important from the clinical standpoint, providing a new tool for the neurologists to evaluate and predict PD evolution. From the technical point of view, the fusion approach deals with the tensor based information (EPI) and the extraction of the anatomical detail (FA and EPI).

  19. Traditional Banana Diversity in Oceania: An Endangered Heritage

    PubMed Central

    Kagy, Valérie; Wong, Maurice; Vandenbroucke, Henri; Jenny, Christophe; Dubois, Cécile; Ollivier, Anthony; Cardi, Céline; Mournet, Pierre; Tuia, Valérie; Roux, Nicolas; Doležel, Jaroslav; Perrier, Xavier

    2016-01-01

    This study aims to understand the genetic diversity of traditional Oceanian starchy bananas in order to propose an efficient conservation strategy for these endangered varieties. SSR and DArT molecular markers are used to characterize a large sample of Pacific accessions, from New Guinea to Tahiti and Hawaii. All Pacific starchy bananas are shown of New Guinea origin, by interspecific hybridization between Musa acuminata (AA genome), more precisely its local subspecies M. acuminata ssp. banksii, and M. balbisiana (BB genome) generating triploid AAB Pacific starchy bananas. These AAB genotypes do not form a subgroup sensu stricto and genetic markers differentiate two subgroups across the three morphotypes usually identified: Iholena versus Popoulu and Maoli. The Popoulu/Maoli accessions, even if morphologically diverse throughout the Pacific, cluster in the same genetic subgroup. However, the subgroup is not strictly monophyletic and several close, but different genotypes are linked to the dominant genotype. One of the related genotypes is specific to New Caledonia (NC), with morphotypes close to Maoli, but with some primitive characters. It is concluded that the diffusion of Pacific starchy AAB bananas results from a series of introductions of triploids originating in New Guinea area from several sexual recombination events implying different genotypes of M. acuminata ssp. banksii. This scheme of multiple waves from the New Guinea zone is consistent with the archaeological data for peopling of the Pacific. The present geographic distribution suggests that a greater diversity must have existed in the past. Its erosion finds parallels with the erosion of cultural traditions, inexorably declining in most of the Polynesian or Melanesian Islands. Symmetrically, diversity hot spots appear linked to the local persistence of traditions: Maoli in New Caledonian Kanak traditions or Iholena in a few Polynesian islands. These results will contribute to optimizing the

  20. Expression of hepatitis B surface antigen in transgenic banana plants.

    PubMed

    Kumar, G B Sunil; Ganapathi, T R; Revathi, C J; Srinivas, L; Bapat, V A

    2005-10-01

    Embryogenic cells of bananan cv. Rasthali (AAB) have been transformed with the 's' gene of hepatitis B surface antigen (HBsAg) using Agrobacterium mediated transformation. Four different expression cassettes (pHBS, pHER, pEFEHBS and pEFEHER) were utilized to optimize the expression of HBsAg in banana. The transgenic nature of the plants and expression of the antigen was confirmed by PCR, Southern hybridization and reverse transcription (RT)-PCR. The expression levels of the antigen in the plants grown under in vitro conditions as well as the green house hardened plants were estimated by ELISA for all the four constructs. Maximum expression level of 38 ng/g F.W. of leaves was noted in plants transformed with pEFEHBS grown under in vitro conditions, whereas pHER transformed plants grown in the green house showed the maximum expression level of 19.92 ng/g F.W. of leaves. Higher monoclonal antibody binding of 67.87% of the antigen was observed when it was expressed with a C-terminal ER retention signal. The buoyant density in CsCl of HBsAg derived from transgenic banana leaves was determined and found to be 1.146 g/ml. HBsAg obtained from transgenic banana plants is similar to human serum derived one in buoyant density properties. The transgenic plants were grown up to maturity in the green house and the expression of HBsAg in the fruits was confirmed by RT-PCR. These transgenic plants were multiplied under in vitro using floral apex cultures. Attempts were also made to enhance the expression of HBsAg in the leaves of transgenic banana plants by wounding and/or treatment with plant growth regulators. This is the first report on the expression of HBsAg in transgenic banana fruits.

  1. Traditional Banana Diversity in Oceania: An Endangered Heritage.

    PubMed

    Kagy, Valérie; Wong, Maurice; Vandenbroucke, Henri; Jenny, Christophe; Dubois, Cécile; Ollivier, Anthony; Cardi, Céline; Mournet, Pierre; Tuia, Valérie; Roux, Nicolas; Doležel, Jaroslav; Perrier, Xavier

    2016-01-01

    This study aims to understand the genetic diversity of traditional Oceanian starchy bananas in order to propose an efficient conservation strategy for these endangered varieties. SSR and DArT molecular markers are used to characterize a large sample of Pacific accessions, from New Guinea to Tahiti and Hawaii. All Pacific starchy bananas are shown of New Guinea origin, by interspecific hybridization between Musa acuminata (AA genome), more precisely its local subspecies M. acuminata ssp. banksii, and M. balbisiana (BB genome) generating triploid AAB Pacific starchy bananas. These AAB genotypes do not form a subgroup sensu stricto and genetic markers differentiate two subgroups across the three morphotypes usually identified: Iholena versus Popoulu and Maoli. The Popoulu/Maoli accessions, even if morphologically diverse throughout the Pacific, cluster in the same genetic subgroup. However, the subgroup is not strictly monophyletic and several close, but different genotypes are linked to the dominant genotype. One of the related genotypes is specific to New Caledonia (NC), with morphotypes close to Maoli, but with some primitive characters. It is concluded that the diffusion of Pacific starchy AAB bananas results from a series of introductions of triploids originating in New Guinea area from several sexual recombination events implying different genotypes of M. acuminata ssp. banksii. This scheme of multiple waves from the New Guinea zone is consistent with the archaeological data for peopling of the Pacific. The present geographic distribution suggests that a greater diversity must have existed in the past. Its erosion finds parallels with the erosion of cultural traditions, inexorably declining in most of the Polynesian or Melanesian Islands. Symmetrically, diversity hot spots appear linked to the local persistence of traditions: Maoli in New Caledonian Kanak traditions or Iholena in a few Polynesian islands. These results will contribute to optimizing the

  2. Phylogeny of Banana Streak Virus reveals recent and repetitive endogenization in the genome of its banana host (Musa sp.).

    PubMed

    Gayral, Philippe; Iskra-Caruana, Marie-Line

    2009-07-01

    Banana streak virus (BSV) is a plant dsDNA pararetrovirus (family Caulimoviridae, genus badnavirus). Although integration is not an essential step in the BSV replication cycle, the nuclear genome of banana (Musa sp.) contains BSV endogenous pararetrovirus sequences (BSV EPRVs). Some BSV EPRVs are infectious by reconstituting a functional viral genome. Recent studies revealed a large molecular diversity of episomal BSV viruses (i.e., nonintegrated) while others focused on BSV EPRV sequences only. In this study, the evolutionary history of badnavirus integration in banana was inferred from phylogenetic relationships between BSV and BSV EPRVs. The relative evolution rates and selective pressures (d(N)/d(S) ratio) were also compared between endogenous and episomal viral sequences. At least 27 recent independent integration events occurred after the divergence of three banana species, indicating that viral integration is a recent and frequent phenomenon. Relaxation of selective pressure on badnaviral sequences that experienced neutral evolution after integration in the plant genome was recorded. Additionally, a significant decrease (35%) in the EPRV evolution rate was observed compared to BSV, reflecting the difference in the evolution rate between episomal dsDNA viruses and plant genome. The comparison of our results with the evolution rate of the Musa genome and other reverse-transcribing viruses suggests that EPRVs play an active role in episomal BSV diversity and evolution.

  3. Prediction of spectral acceleration response ordinates based on PGA attenuation

    USGS Publications Warehouse

    Graizer, V.; Kalkan, E.

    2009-01-01

    Developed herein is a new peak ground acceleration (PGA)-based predictive model for 5% damped pseudospectral acceleration (SA) ordinates of free-field horizontal component of ground motion from shallow-crustal earthquakes. The predictive model of ground motion spectral shape (i.e., normalized spectrum) is generated as a continuous function of few parameters. The proposed model eliminates the classical exhausted matrix of estimator coefficients, and provides significant ease in its implementation. It is structured on the Next Generation Attenuation (NGA) database with a number of additions from recent Californian events including 2003 San Simeon and 2004 Parkfield earthquakes. A unique feature of the model is its new functional form explicitly integrating PGA as a scaling factor. The spectral shape model is parameterized within an approximation function using moment magnitude, closest distance to the fault (fault distance) and VS30 (average shear-wave velocity in the upper 30 m) as independent variables. Mean values of its estimator coefficients were computed by fitting an approximation function to spectral shape of each record using robust nonlinear optimization. Proposed spectral shape model is independent of the PGA attenuation, allowing utilization of various PGA attenuation relations to estimate the response spectrum of earthquake recordings.

  4. Predictive Model of Graphene Based Polymer Nanocomposites: Electrical Performance

    NASA Astrophysics Data System (ADS)

    Manta, Asimina; Gresil, Matthieu; Soutis, Constantinos

    2016-11-01

    In this computational work, a new simulation tool on the graphene/polymer nanocomposites electrical response is developed based on the finite element method (FEM). This approach is built on the multi-scale multi-physics format, consisting of a unit cell and a representative volume element (RVE). The FE methodology is proven to be a reliable and flexible tool on the simulation of the electrical response without inducing the complexity of raw programming codes, while it is able to model any geometry, thus the response of any component. This characteristic is supported by its ability in preliminary stage to predict accurately the percolation threshold of experimental material structures and its sensitivity on the effect of different manufacturing methodologies. Especially, the percolation threshold of two material structures of the same constituents (PVDF/Graphene) prepared with different methods was predicted highlighting the effect of the material preparation on the filler distribution, percolation probability and percolation threshold. The assumption of the random filler distribution was proven to be efficient on modelling material structures obtained by solution methods, while the through-the -thickness normal particle distribution was more appropriate for nanocomposites constructed by film hot-pressing. Moreover, the parametrical analysis examine the effect of each parameter on the variables of the percolation law. These graphs could be used as a preliminary design tool for more effective material system manufacturing.

  5. Evaluation and Prediction of Water Resources Based on AHP

    NASA Astrophysics Data System (ADS)

    Li, Shuai; Sun, Anqi

    2017-01-01

    Nowadays, the shortage of water resources is a threat to us. In order to solve the problem of water resources restricted by varieties of factors, this paper establishes a water resources evaluation index model (WREI), which adopts the fuzzy comprehensive evaluation (FCE) based on analytic hierarchy process (AHP) algorithm. After considering influencing factors of water resources, we ignore secondary factors and then hierarchical approach the main factors according to the class, set up a three-layer structure. The top floor is for WREI. Using analytic hierarchy process (AHP) to determine weight first, and then use fuzzy judgment to judge target, so the comprehensive use of the two algorithms reduce the subjective influence of AHP and overcome the disadvantages of multi-level evaluation. To prove the model, we choose India as a target region. On the basis of water resources evaluation index model, we use Matlab and combine grey prediction with linear prediction to discuss the ability to provide clean water in India and the trend of India’s water resources changing in the next 15 years. The model with theoretical support and practical significance will be of great help to provide reliable data support and reference for us to get plans to improve water quality.

  6. A nonlinear regression model-based predictive control algorithm.

    PubMed

    Dubay, R; Abu-Ayyad, M; Hernandez, J M

    2009-04-01

    This paper presents a unique approach for designing a nonlinear regression model-based predictive controller (NRPC) for single-input-single-output (SISO) and multi-input-multi-output (MIMO) processes that are common in industrial applications. The innovation of this strategy is that the controller structure allows nonlinear open-loop modeling to be conducted while closed-loop control is executed every sampling instant. Consequently, the system matrix is regenerated every sampling instant using a continuous function providing a more accurate prediction of the plant. Computer simulations are carried out on nonlinear plants, demonstrating that the new approach is easily implemented and provides tight control. Also, the proposed algorithm is implemented on two real time SISO applications; a DC motor, a plastic injection molding machine and a nonlinear MIMO thermal system comprising three temperature zones to be controlled with interacting effects. The experimental closed-loop responses of the proposed algorithm were compared to a multi-model dynamic matrix controller (MPC) with improved results for various set point trajectories. Good disturbance rejection was attained, resulting in improved tracking of multi-set point profiles in comparison to multi-model MPC.

  7. Quantitative AOP-based predictions for two aromatase ...

    EPA Pesticide Factsheets

    The adverse outcome pathway (AOP) framework can be used to support the use of mechanistic toxicology data as a basis for risk assessment. For certain risk contexts this includes defining, quantitative linkages between the molecular initiating event (MIE) and subsequent key events (KEs) within an AOP. One AOP for which strong, quantitative linkages have been established is aromatase inhibition leading to reproductive dysfunction in fish. A series of computational models have been linked to develop a quantitative AOP (Q-AOP). A measure of aromatase inhibition is used as the model input to estimate circulating plasma estradiol (E2) concentration and resultant circulating plasma vitellogenin (VTG) concentration. To evaluate model predictions, two aromatase inhibitors, letrozole and epoxiconazole, were selected based upon their relative aromatase inhibition potency in US EPA ToxCast assays. Reproductively mature female fathead minnows (Pimephales promelas) were exposed to varying concentrations of either letrozole (0.5, 7.5, 25, 75, 250 µg/L) or epoxiconazole (8, 25, 80, 250, 800 µg/L) in 24h flow through exposures. One additional consideration for model predictions was bioaccumulation of exposure chemicals and resultant circulating plasma concentration. To identify this, plasma from exposed minnows was extracted by supported liquid extraction (SLE) and concentrations of letrozole or epoxiconazole determined by LC-MS/MS. Plasma bioaccumulation factors (BAFplasma)

  8. Predictive Model of Graphene Based Polymer Nanocomposites: Electrical Performance

    NASA Astrophysics Data System (ADS)

    Manta, Asimina; Gresil, Matthieu; Soutis, Constantinos

    2017-04-01

    In this computational work, a new simulation tool on the graphene/polymer nanocomposites electrical response is developed based on the finite element method (FEM). This approach is built on the multi-scale multi-physics format, consisting of a unit cell and a representative volume element (RVE). The FE methodology is proven to be a reliable and flexible tool on the simulation of the electrical response without inducing the complexity of raw programming codes, while it is able to model any geometry, thus the response of any component. This characteristic is supported by its ability in preliminary stage to predict accurately the percolation threshold of experimental material structures and its sensitivity on the effect of different manufacturing methodologies. Especially, the percolation threshold of two material structures of the same constituents (PVDF/Graphene) prepared with different methods was predicted highlighting the effect of the material preparation on the filler distribution, percolation probability and percolation threshold. The assumption of the random filler distribution was proven to be efficient on modelling material structures obtained by solution methods, while the through-the -thickness normal particle distribution was more appropriate for nanocomposites constructed by film hot-pressing. Moreover, the parametrical analysis examine the effect of each parameter on the variables of the percolation law. These graphs could be used as a preliminary design tool for more effective material system manufacturing.

  9. Mining Behavior Based Safety Data to Predict Safety Performance

    SciTech Connect

    Jeffrey C. Joe

    2010-06-01

    The Idaho National Laboratory (INL) operates a behavior based safety program called Safety Observations Achieve Results (SOAR). This peer-to-peer observation program encourages employees to perform in-field observations of each other's work practices and habits (i.e., behaviors). The underlying premise of conducting these observations is that more serious accidents are prevented from occurring because lower level “at risk” behaviors are identified and corrected before they can propagate into culturally accepted “unsafe” behaviors that result in injuries or fatalities. Although the approach increases employee involvement in safety, the premise of the program has not been subject to sufficient empirical evaluation. The INL now has a significant amount of SOAR data on these lower level “at risk” behaviors. This paper describes the use of data mining techniques to analyze these data to determine whether they can predict if and when a more serious accident will occur.

  10. Prediction of silicon-based layered structures for optoelectronic applications.

    PubMed

    Luo, Wei; Ma, Yanming; Gong, Xingao; Xiang, Hongjun

    2014-11-12

    A method based on the particle swarm optimization algorithm is presented to design quasi-two-dimensional materials. With this development, various single-layer and bilayer materials of C, Si, Ge, Sn, and Pb were predicted. A new Si bilayer structure is found to have a more favored energy than the previously widely accepted configuration. Both single-layer and bilayer Si materials have small band gaps, limiting their usages in optoelectronic applications. Hydrogenation has therefore been used to tune the electronic and optical properties of Si layers. We discover two hydrogenated materials of layered Si8H2 and Si6H2 possessing quasidirect band gaps of 0.75 and 1.59 eV, respectively. Their potential applications for light-emitting diode and photovoltaics are proposed and discussed. Our study opened up the possibility of hydrogenated Si layered materials as next-generation optoelectronic devices.

  11. Adaptive DFT-based fringe tracking and prediction at IOTA

    NASA Astrophysics Data System (ADS)

    Wilson, Edward; Pedretti, Ettore; Bregman, Jesse; Mah, Robert W.; Traub, Wesley A.

    2004-10-01

    An automatic fringe tracking system has been developed and implemented at the Infrared Optical Telescope Array (IOTA). In testing during May 2002, the system successfully minimized the optical path differences (OPDs) for all three baselines at IOTA. Based on sliding window discrete Fourier transform (DFT) calculations that were optimized for computational efficiency and robustness to atmospheric disturbances, the algorithm has also been tested extensively on off-line data. Implemented in ANSI C on the 266 MHz PowerPC processor running the VxWorks real-time operating system, the algorithm runs in approximately 2.0 milliseconds per scan (including all three interferograms), using the science camera and piezo scanners to measure and correct the OPDs. Preliminary analysis on an extension of this algorithm indicates a potential for predictive tracking, although at present, real-time implementation of this extension would require significantly more computational capacity.

  12. Prediction-based association control scheme in dense femtocell networks

    PubMed Central

    Pham, Ngoc-Thai; Huynh, Thong; Hwang, Won-Joo; You, Ilsun; Choo, Kim-Kwang Raymond

    2017-01-01

    The deployment of large number of femtocell base stations allows us to extend the coverage and efficiently utilize resources in a low cost manner. However, the small cell size of femtocell networks can result in frequent handovers to the mobile user, and consequently throughput degradation. Thus, in this paper, we propose predictive association control schemes to improve the system’s effective throughput. Our design focuses on reducing handover frequency without impacting on throughput. The proposed schemes determine handover decisions that contribute most to the network throughput and are proper for distributed implementations. The simulation results show significant gains compared with existing methods in terms of handover frequency and network throughput perspective. PMID:28328992

  13. Adaptive DIT-Based Fringe Tracking and Prediction at IOTA

    NASA Technical Reports Server (NTRS)

    Wilson, Edward; Pedretti, Ettore; Bregman, Jesse; Mah, Robert W.; Traub, Wesley A.

    2004-01-01

    An automatic fringe tracking system has been developed and implemented at the Infrared Optical Telescope Array (IOTA). In testing during May 2002, the system successfully minimized the optical path differences (OPDs) for all three baselines at IOTA. Based on sliding window discrete Fourier transform (DFT) calculations that were optimized for computational efficiency and robustness to atmospheric disturbances, the algorithm has also been tested extensively on off-line data. Implemented in ANSI C on the 266 MHZ PowerPC processor running the VxWorks real-time operating system, the algorithm runs in approximately 2.0 milliseconds per scan (including all three interferograms), using the science camera and piezo scanners to measure and correct the OPDs. Preliminary analysis on an extension of this algorithm indicates a potential for predictive tracking, although at present, real-time implementation of this extension would require significantly more computational capacity.

  14. Fast rule-based bioactivity prediction using associative classification mining

    PubMed Central

    2012-01-01

    Relating chemical features to bioactivities is critical in molecular design and is used extensively in the lead discovery and optimization process. A variety of techniques from statistics, data mining and machine learning have been applied to this process. In this study, we utilize a collection of methods, called associative classification mining (ACM), which are popular in the data mining community, but so far have not been applied widely in cheminformatics. More specifically, classification based on predictive association rules (CPAR), classification based on multiple association rules (CMAR) and classification based on association rules (CBA) are employed on three datasets using various descriptor sets. Experimental evaluations on anti-tuberculosis (antiTB), mutagenicity and hERG (the human Ether-a-go-go-Related Gene) blocker datasets show that these three methods are computationally scalable and appropriate for high speed mining. Additionally, they provide comparable accuracy and efficiency to the commonly used Bayesian and support vector machines (SVM) methods, and produce highly interpretable models. PMID:23176548

  15. Empirical modeling of the storm time innermost magnetosphere using Van Allen Probes and THEMIS data: Eastward and banana currents

    NASA Astrophysics Data System (ADS)

    Stephens, G. K.; Sitnov, M. I.; Ukhorskiy, A. Y.; Roelof, E. C.; Tsyganenko, N. A.; Le, G.

    2016-01-01

    The structure of storm time currents in the inner magnetosphere, including its innermost region inside 4RE, is studied for the first time using a modification of the empirical geomagnetic field model TS07D and new data from Van Allen Probes and Time History of Events and Macroscale Interactions during Substorms missions. It is shown that the model, which uses basis-function expansions instead of ad hoc current modules to approximate the magnetic field, consistently improves its resolution and magnetic field reconstruction with the increase of the number of basis functions and resolves the spatial structure and evolution of the innermost eastward current. This includes a connection between the westward ring current flowing largely at and the eastward ring current concentrated at resulting in a vortex current pattern. A similar pattern coined `banana current' was previously inferred from the pressure distributions based on the energetic neutral atom imaging and first-principles ring current simulations. The morphology of the equatorial currents is dependent on storm phase. During the main phase, it is complex, with several asymmetries forming banana currents. Near SYM-H minimum, the banana current is strongest, is localized in the evening-midnight sector, and is more structured compared to the main phase. It then weakens during the recovery phase resulting in the equatorial currents to become mostly azimuthally symmetric.

  16. Bioactive compounds in banana and their associated health benefits - A review.

    PubMed

    Singh, Balwinder; Singh, Jatinder Pal; Kaur, Amritpal; Singh, Narpinder

    2016-09-01

    Banana is a very popular fruit in the world market and is consumed as staple food in many countries. It is grown worldwide and constitutes the fifth most important agricultural food crop in terms of world trade. It has been classified into the dessert or sweet bananas and the cooking bananas or plantains. It is either eaten raw or processed, and also as a functional ingredient in various food products. Banana contains several bioactive compounds, such as phenolics, carotenoids, biogenic amines and phytosterols, which are highly desirable in the diet as they exert many positive effects on human health and well-being. Many of these compounds have antioxidant activities and are effective in protecting the body against various oxidative stresses. In the past, bananas were effectively used in the treatment of various diseases, including reducing the risk of many chronic degenerative disorders. In the present review, historical background, cultivar classification, beneficial phytochemicals, antioxidant activity and health benefits of bananas are discussed.

  17. Effect of Endophytic Fusarium oxysporum on Host Preference of Radopholus similis to Tissue Culture Banana Plants.

    PubMed

    Athman, Shahasi Y; Dubois, Thomas; Coyne, Daniel; Gold, Clifford S; Labuschagne, Nico; Viljoen, Altus

    2006-12-01

    The burrowing nematode Radopholus similis is one of the major constraints to banana (Musa spp.) production worldwide. Resource-poor farmers can potentially manage R. similis by using naturally occurring banana endophytes, such as nonpathogenic Fusarium oxysporum, that are inoculated into tissue culture banana plantlets. At present, it is unclear at what stage in the R. similis infection process the endophytes are most effective. In this study, the effect of three endophytic F. oxysporum isolates (V5w2, Eny1.31i and Eny7.11o) on R. similis host preference of either endophyte-treated or untreated banana plants was investigated. No differences were observed between the proportion of nematodes attracted to either root segments excised from endophyte-treated or untreated plants, or in experiments using endophyte-treated and untreated tissue culture banana plantlets. These results imply that the early processes of banana plant host recognition by R. similis are not affected by endophyte infection.

  18. Predicting Monoamine Oxidase Inhibitory Activity through Ligand-Based Models

    PubMed Central

    Vilar, Santiago; Ferino, Giulio; Quezada, Elias; Santana, Lourdes; Friedman, Carol

    2013-01-01

    The evolution of bio- and cheminformatics associated with the development of specialized software and increasing computer power has produced a great interest in theoretical in silico methods applied in drug rational design. These techniques apply the concept that “similar molecules have similar biological properties” that has been exploited in Medicinal Chemistry for years to design new molecules with desirable pharmacological profiles. Ligand-based methods are not dependent on receptor structural data and take into account two and three-dimensional molecular properties to assess similarity of new compounds in regards to the set of molecules with the biological property under study. Depending on the complexity of the calculation, there are different types of ligand-based methods, such as QSAR (Quantitative Structure-Activity Relationship) with 2D and 3D descriptors, CoMFA (Comparative Molecular Field Analysis) or pharmacophoric approaches. This work provides a description of a series of ligand-based models applied in the prediction of the inhibitory activity of monoamine oxidase (MAO) enzymes. The controlled regulation of the enzymes’ function through the use of MAO inhibitors is used as a treatment in many psychiatric and neurological disorders, such as depression, anxiety, Alzheimer’s and Parkinson’s disease. For this reason, multiple scaffolds, such as substituted coumarins, indolylmethylamine or pyridazine derivatives were synthesized and assayed toward MAO-A and MAO-B inhibition. Our intention is to focus on the description of ligand-based models to provide new insights in the relationship between the MAO inhibitory activity and the molecular structure of the different inhibitors, and further study enzyme selectivity and possible mechanisms of action. PMID:23231398

  19. Characterization of Musa sp. fruits and plantain banana ripening stages according to their physicochemical attributes.

    PubMed

    Valérie Passo Tsamo, Claudine; Andre, Christelle M; Ritter, Christian; Tomekpe, Kodjo; Ngoh Newilah, Gérard; Rogez, Hervé; Larondelle, Yvan

    2014-08-27

    This study aimed at understanding the contribution of the fruit physicochemical parameters to Musa sp. diversity and plantain ripening stages. A discriminant analysis was first performed on a collection of 35 Musa sp. cultivars, organized in six groups based on the consumption mode (dessert or cooking banana) and the genomic constitution. A principal component analysis reinforced by a logistic regression on plantain cultivars was proposed as an analytical approach to describe the plantain ripening stages. The results of the discriminant analysis showed that edible fraction, peel pH, pulp water content, and pulp total phenolics were among the most contributing attributes for the discrimination of the cultivar groups. With mean values ranging from 65.4 to 247.3 mg of gallic acid equivalents/100 g of fresh weight, the pulp total phenolics strongly differed between interspecific and monospecific cultivars within dessert and nonplantain cooking bananas. The results of the logistic regression revealed that the best models according to fitting parameters involved more than one physicochemical attribute. Interestingly, pulp and peel total phenolic contents contributed in the building up of these models.

  20. Endophytic bacterial diversity in banana 'Prata Anã' (Musa spp.) roots.

    PubMed

    Souza, Suzane A; Xavier, Adelica A; Costa, Márcia R; Cardoso, Acleide M S; Pereira, Marlon C T; Nietsche, Silvia

    2013-07-01

    The genetic diversity of endophytic bacteria in banana 'Prata Anã' roots was characterized. Two hundred and one endophytic bacteria were isolated, 151 of which were classified as Gram-positive and 50 as Gram-negative. No hypersensitivity response was observed in any of the isolates. The rep-PCR technique generated different molecular profiles for each primer set (REP, ERIC and BOX). Fifty readable loci were obtained and all of the fragments were polymorphic. Amplified ribosomal DNA restriction analysis (ARDRA) of the isolates based on cleavage with four restriction enzymes yielded 45 polymorphic bands and no monomorphic bands. PCR amplified the nifH gene in 24 isolates. 16S rDNA sequencing of the 201 bacterial isolates yielded 102 high-quality sequences. Sequence analyses revealed that the isolates were distributed among ten bacterial genera (Agrobacterium, Aneurinibacillus, Bacillus, Enterobacter, Klebsiella, Lysinibacillus, Micrococcus, Paenibacillus, Rhizobium and Sporolactobacillus) and included 15 species. The greatest number of isolates belonged to the genus Bacillus. The bacteria identified in this study may be involved in promoting growth, phosphate solubilization, biological control and nitrogen fixation in bananas.

  1. Induction of gram-negative bacterial growth by neurochemical containing banana (Musa x paradisiaca) extracts.

    PubMed

    Lyte, M

    1997-09-15

    Bananas contain large quantities of neurochemicals. Extracts from the peel and pulp of bananas in increasing stages of ripening were prepared and evaluated for their ability to modulate the growth of non-pathogenic and pathogenic bacteria. Extracts from the peel, and to a much lesser degree the pulp, increased the growth of Gram-negative bacterial strains Escherichia coli O157:H7, Shigella flexneri, Enterobacter cloacae and Salmonella typhimurium, as well as two non-pathogenic E. coli strains, in direct relation to the content of norepinephrine and dopamine, but not serotonin. The growth of Gram-positive bacteria was not altered by any of the extracts. Supplementation of vehicle and pulp cultures with norepinephrine or dopamine yielded growth equivalent to peel cultures. Total organic analysis of extracts further demonstrated that the differential effects of peel and pulp on bacterial growth was not nutritionally based, but due to norepinephrine and dopamine. These results suggest that neurochemicals contained within foodstuffs may influence the growth of pathogenic and indigenous bacteria through direct neurochemical-bacterial interactions.

  2. Predicting the reference evapotranspiration based on tensor decomposition

    NASA Astrophysics Data System (ADS)

    Misaghian, Negin; Shamshirband, Shahaboddin; Petković, Dalibor; Gocic, Milan; Mohammadi, Kasra

    2016-09-01

    Most of the available models for reference evapotranspiration (ET0) estimation are based upon only an empirical equation for ET0. Thus, one of the main issues in ET0 estimation is the appropriate integration of time information and different empirical ET0 equations to determine ET0 and boost the precision. The FAO-56 Penman-Monteith, adjusted Hargreaves, Blaney-Criddle, Priestley-Taylor, and Jensen-Haise equations were utilized in this study for estimating ET0 for two stations of Belgrade and Nis in Serbia using collected data for the period of 1980 to 2010. Three-order tensor is used to capture three-way correlations among months, years, and ET0 information. Afterward, the latent correlations among ET0 parameters were found by the multiway analysis to enhance the quality of the prediction. The suggested method is valuable as it takes into account simultaneous relations between elements, boosts the prediction precision, and determines latent associations. Models are compared with respect to coefficient of determination (R 2), mean absolute error (MAE), and root-mean-square error (RMSE). The proposed tensor approach has a R 2 value of greater than 0.9 for all selected ET0 methods at both selected stations, which is acceptable for the ET0 prediction. RMSE is ranged between 0.247 and 0.485 mm day-1 at Nis station and between 0.277 and 0.451 mm day-1 at Belgrade station, while MAE is between 0.140 and 0.337 mm day-1 at Nis and between 0.208 and 0.360 mm day-1 at Belgrade station. The best performances are achieved by Priestley-Taylor model at Nis station (R 2 = 0.985, MAE = 0.140 mm day-1, RMSE = 0.247 mm day-1) and FAO-56 Penman-Monteith model at Belgrade station (MAE = 0.208 mm day-1, RMSE = 0.277 mm day-1, R 2 = 0.975).

  3. Hadoop-Based Distributed System for Online Prediction of Air Pollution Based on Support Vector Machine

    NASA Astrophysics Data System (ADS)

    Ghaemi, Z.; Farnaghi, M.; Alimohammadi, A.

    2015-12-01

    The critical impact of air pollution on human health and environment in one hand and the complexity of pollutant concentration behavior in the other hand lead the scientists to look for advance techniques for monitoring and predicting the urban air quality. Additionally, recent developments in data measurement techniques have led to collection of various types of data about air quality. Such data is extremely voluminous and to be useful it must be processed at high velocity. Due to the complexity of big data analysis especially for dynamic applications, online forecasting of pollutant concentration trends within a reasonable processing time is still an open problem. The purpose of this paper is to present an online forecasting approach based on Support Vector Machine (SVM) to predict the air quality one day in advance. In order to overcome the computational requirements for large-scale data analysis, distributed computing based on the Hadoop platform has been employed to leverage the processing power of multiple processing units. The MapReduce programming model is adopted for massive parallel processing in this study. Based on the online algorithm and Hadoop framework, an online forecasting system is designed to predict the air pollution of Tehran for the next 24 hours. The results have been assessed on the basis of Processing Time and Efficiency. Quite accurate predictions of air pollutant indicator levels within an acceptable processing time prove that the presented approach is very suitable to tackle large scale air pollution prediction problems.

  4. Low genetic diversity of Banana bunchy top virus, with a sub-regional pattern of variation, in Democratic Republic of Congo.

    PubMed

    Mukwa, L F T; Gillis, A; Vanhese, V; Romay, G; Galzi, S; Laboureau, N; Kalonji-Mbuyi, A; Iskra-Caruana, M L; Bragard, C

    2016-12-01

    Banana bunchy top virus (BBTV), belonging to the genus Babuvirus, is the most devastating and widespread banana virus. Banana and plantain are major crops in terms of household income and food security in Democratic Republic of Congo (DRC). Despite the large area under banana and plantain cultivation in the country, before this study, the genetic characterization of BBTV isolates had only been undertaken for two provinces. In the study presented here, genetic variation in BBTV was assessed from 52 BBTV isolates collected in five out of 11 provinces in DRC (Bandundu, Bas-Congo, Katanga, Kinshasa and Kasaï Oriental) and in two provinces using sequences previously described in databases. Full genome sequencing of DNA-R components was performed, revealing low genetic variation (98-100 % nucleotide identity) among the BBTV isolates detected. The phylogenetic analyses showed that all the DRC isolates were clustered in the South Pacific clade of BBTV. Based on the coding region for the replication initiator protein, haplotype diversity was estimated to be 0.944 ± 0.013, with 30 haplotypes from 68 isolates in DRC. Such diversity shows a haplotype distribution mainly at the sub-regional level in DRC. In addition, the sequence determination from the whole genome of selected isolates confirmed low genetic variation among isolates from seven DRC provinces (97-100 % nucleotide identity). This study strengthened the hypothesis of a single BBTV introduction some time ago, followed by the spread of the virus in the country.

  5. Variable number of tandem repeat markers in the genome sequence of Mycosphaerella fijiensis, the causal agent of black leaf streak disease of banana (Musa spp).

    PubMed

    Garcia, S A L; Van der Lee, T A J; Ferreira, C F; Te Lintel Hekkert, B; Zapater, M-F; Goodwin, S B; Guzmán, M; Kema, G H J; Souza, M T

    2010-11-09

    We searched the genome of Mycosphaerella fijiensis for molecular markers that would allow population genetics analysis of this plant pathogen. M. fijiensis, the causal agent of banana leaf streak disease, also known as black Sigatoka, is the most devastating pathogen attacking bananas (Musa spp). Recently, the entire genome sequence of M. fijiensis became available. We screened this database for VNTR markers. Forty-two primer pairs were selected for validation, based on repeat type and length and the number of repeat units. Five VNTR markers showing multiple alleles were validated with a reference set of isolates from different parts of the world and a population from a banana plantation in Costa Rica. Polymorphism information content values varied from 0.6414 to 0.7544 for the reference set and from 0.0400 and 0.7373 for the population set. Eighty percent of the polymorphism information content values were above 0.60, indicating that the markers are highly informative. These markers allowed robust scoring of agarose gels and proved to be useful for variability and population genetics studies. In conclusion, the strategy we developed to identify and validate VNTR markers is an efficient means to incorporate markers that can be used for fungicide resistance management and to develop breeding strategies to control banana black leaf streak disease. This is the first report of VNTR-minisatellites from the M. fijiensis genome sequence.

  6. Tobacco arabinogalactan protein NtEPc can promote banana (Musa AAA) somatic embryogenesis.

    PubMed

    Shu, H; Xu, L; Li, Z; Li, J; Jin, Z; Chang, S

    2014-12-01

    Banana is an important tropical fruit worldwide. Parthenocarpy and female sterility made it impossible to improve banana varieties through common hybridization. Genetic transformation for banana improvement is imperative. But the low rate that banana embryogenic callus was induced made the transformation cannot be performed in many laboratories. Finding ways to promote banana somatic embryogenesis is critical for banana genetic transformation. After tobacco arabinogalactan protein gene NtEPc was transformed into Escherichia coli (DE3), the recombinant protein was purified and filter-sterilized. A series of the sterilized protein was added into tissue culture medium. It was found that the number of banana immature male flowers developing embryogenic calli increased significantly in the presence of NtEPc protein compared with the effect of the control medium. Among the treatments, explants cultured on medium containing 10 mg/l of NtEPc protein had the highest chance to develop embryogenic calli. The percentage of lines that developed embryogenic calli on this medium was about 12.5 %. These demonstrated that NtEPc protein can be used to promote banana embryogenesis. This is the first paper that reported that foreign arabinogalactan protein (AGP) could be used to improve banana somatic embryogenesis.

  7. Genetic transformation of banana and plantain (Musa spp.) via particle bombardment.

    PubMed

    Sági, L; Panis, B; Remy, S; Schoofs, H; De Smet, K; Swennen, R; Cammue, B P

    1995-05-01

    We have developed a simple protocol to allow the production of transgenic banana plants. Foreign genes were delivered into embryogenic suspension cells using accelerated particles coated with DNA. Bombardment parameters were optimized for a modified particle gun resulting in high levels of transient expression of the beta-glucuronidase gene in both banana and plantain cells. Bombarded banana cells were selected with hygromycin and regenerated into plants. Molecular and histochemical characterization of transformants revealed the stable integration of the transferred genes into the banana genome.

  8. Agricultural "killing fields": the poisoning of Costa Rican banana workers.

    PubMed

    Sass, R

    2000-01-01

    The poisoning of Costa Rican banana workers by multinational corporations' excessive use of pesticides is not a local issue; it is embedded in a dominant ideology expressed by the phenomenon of globalization. This ideology seeps into every aspect of our social institutions--economic, political, and legal. The practice of this ideological perspective is evident in the industrialization of global agriculture and the shift from "developmentalism"--liberal welfarism, industrialization, and urbanization--to a dominant, undemocratic, global financial elite with "economism" and a neoliberal political agenda overriding the nation-state polis. A specific effect is to transform the agricultural workers of developing countries, such as Costa Rican banana workers, into politically superfluous flesh-and-blood human beings.

  9. Investigating hydropedological relations using quantified morphological data under banana plants on a transect in Guadeloupe

    NASA Astrophysics Data System (ADS)

    Germeau, Martin; Weynants, Mélanie; Cattan, Philippe; Dorel, Marc; Javaux, Mathieu

    2010-05-01

    Due to its limited surface and contamination through chemicals, subsurface water resources in Guadeloupe are under pressure. Banana plantations on highly conductive soils, in particular Andisols represent a large source of nonpoint-source pollution. The proper characterization of the soil transfer properties are therefore needed to sustainably manage groundwater. Hydropedology can help understand the links between the soil hydraulic behaviour and its pedology. The aim of this study was to assess the key parameters controlling the hydraulic properties of these soils. Fifteen sites were chosen along a climatic transect in the South East of Guadeloupe, going from lower to higher altitudes associated with a rainfall gradient and with a pedological differentiation, to investigate the effects of soil type and soil structure on the hydraulic properties. At each site, a structural description of the profile (Manichon technique) was realised and samples were taken for chemical and mineral characterization. The root density was also assessed. In situ suction infitrometer measurements were realised at the soil surface. Undisturbed 1 L soil cores were extracted in the A (10-20 cm) and B (40-60 cm) horizons for Multistep outflow (MSO) measurements. The experiments were simulated with Hydrus-1D parameterised with the Mualem-van Genuchten (MV) model for which the parameters were optimised with the inversion algorithm AMALGAM-SO. Links between the hydraulic characteristics (infiltration rates and MV parameters) and soil profile information were obtained using a stepwise procedure. Infiltration rates at -1 and 0 cm of pressure head were satisfactorily described based on the root density, the contents of fine earth and easily discernible clods. All these explanatory variables contain information on the structural state of the soil. The MV parameters optimised from the MSO experiments were not well described with the available predictors. However, points of the hydraulic conductivity

  10. Binaural intelligibility prediction based on the speech transmission index.

    PubMed

    van Wijngaarden, Sander J; Drullman, Rob

    2008-06-01

    Although the speech transmission index (STI) is a well-accepted and standardized method for objective prediction of speech intelligibility in a wide range of environments and applications, it is essentially a monaural model. Advantages of binaural hearing in speech intelligibility are disregarded. In specific conditions, this leads to considerable mismatches between subjective intelligibility and the STI. A binaural version of the STI was developed based on interaural cross correlograms, which shows a considerably improved correspondence with subjective intelligibility in dichotic listening conditions. The new binaural STI is designed to be a relatively simple model, which adds only few parameters to the original standardized STI and changes none of the existing model parameters. For monaural conditions, the outcome is identical to the standardized STI. The new model was validated on a set of 39 dichotic listening conditions, featuring anechoic, classroom, listening room, and strongly echoic environments. For these 39 conditions, speech intelligibility [consonant-vowel-consonant (CVC) word score] and binaural STI were measured. On the basis of these conditions, the relation between binaural STI and CVC word scores closely matches the STI reference curve (standardized relation between STI and CVC word score) for monaural listening. A better-ear STI appears to perform quite well in relation to the binaural STI model; the monaural STI performs poorly in these cases.

  11. Prediction of Silicon-Based Layered Structures for Optoelectronic Applications

    NASA Astrophysics Data System (ADS)

    Luo, Wei; Ma, Yanming; Gong, Xingao; Xiang, Hongjun; CCMG Team

    2015-03-01

    A method based on the particle swarm optimization (PSO) algorithm is presented to design quasi-two-dimensional (Q2D) materials. With this development, various single-layer and bi-layer materials in C, Si, Ge, Sn, and Pb were predicted. A new Si bi-layer structure is found to have a much-favored energy than the previously widely accepted configuration. Both single-layer and bi-layer Si materials have small band gaps, limiting their usages in optoelectronic applications. Hydrogenation has therefore been used to tune the electronic and optical properties of Si layers. We discover two hydrogenated materials of layered Si8H2andSi6H2 possessing quasi-direct band gaps of 0.75 eV and 1.59 eV, respectively. Their potential applications for light emitting diode and photovoltaics are proposed and discussed. Our study opened up the possibility of hydrogenated Si layered materials as next-generation optoelectronic devices.

  12. Predicting thunderstorm evolution using ground-based lightning detection networks

    NASA Technical Reports Server (NTRS)

    Goodman, Steven J.

    1990-01-01

    Lightning measurements acquired principally by a ground-based network of magnetic direction finders are used to diagnose and predict the existence, temporal evolution, and decay of thunderstorms over a wide range of space and time scales extending over four orders of magnitude. The non-linear growth and decay of thunderstorms and their accompanying cloud-to-ground lightning activity is described by the three parameter logistic growth model. The growth rate is shown to be a function of the storm size and duration, and the limiting value of the total lightning activity is related to the available energy in the environment. A new technique is described for removing systematic bearing errors from direction finder data where radar echoes are used to constrain site error correction and optimization (best point estimate) algorithms. A nearest neighbor pattern recognition algorithm is employed to cluster the discrete lightning discharges into storm cells and the advantages and limitations of different clustering strategies for storm identification and tracking are examined.

  13. Gene function prediction based on the Gene Ontology hierarchical structure.

    PubMed

    Cheng, Liangxi; Lin, Hongfei; Hu, Yuncui; Wang, Jian; Yang, Zhihao

    2014-01-01

    The information of the Gene Ontology annotation is helpful in the explanation of life science phenomena, and can provide great support for the research of the biomedical field. The use of the Gene Ontology is gradually affecting the way people store and understand bioinformatic data. To facilitate the prediction of gene functions with the aid of text mining methods and existing resources, we transform it into a multi-label top-down classification problem and develop a method that uses the hierarchical relationships in the Gene Ontology structure to relieve the quantitative imbalance of positive and negative training samples. Meanwhile the method enhances the discriminating ability of classifiers by retaining and highlighting the key training samples. Additionally, the top-down classifier based on a tree structure takes the relationship of target classes into consideration and thus solves the incompatibility between the classification results and the Gene Ontology structure. Our experiment on the Gene Ontology annotation corpus achieves an F-value performance of 50.7% (precision: 52.7% recall: 48.9%). The experimental results demonstrate that when the size of training set is small, it can be expanded via topological propagation of associated documents between the parent and child nodes in the tree structure. The top-down classification model applies to the set of texts in an ontology structure or with a hierarchical relationship.

  14. Local functional descriptors for surface comparison based binding prediction

    PubMed Central

    2012-01-01

    Background Molecular recognition in proteins occurs due to appropriate arrangements of physical, chemical, and geometric properties of an atomic surface. Similar surface regions should create similar binding interfaces. Effective methods for comparing surface regions can be used in identifying similar regions, and to predict interactions without regard to the underlying structural scaffold that creates the surface. Results We present a new descriptor for protein functional surfaces and algorithms for using these descriptors to compare protein surface regions to identify ligand binding interfaces. Our approach uses descriptors of local regions of the surface, and assembles collections of matches to compare larger regions. Our approach uses a variety of physical, chemical, and geometric properties, adaptively weighting these properties as appropriate for different regions of the interface. Our approach builds a classifier based on a training corpus of examples of binding sites of the target ligand. The constructed classifiers can be applied to a query protein providing a probability for each position on the protein that the position is part of a binding interface. We demonstrate the effectiveness of the approach on a number of benchmarks, demonstrating performance that is comparable to the state-of-the-art, with an approach with more generality than these prior methods. Conclusions Local functional descriptors offer a new method for protein surface comparison that is sufficiently flexible to serve in a variety of applications. PMID:23176080

  15. Holographic entanglement entropy for hollow cones and banana shaped regions

    NASA Astrophysics Data System (ADS)

    Dorn, Harald

    2016-06-01

    We consider banana shaped regions as examples of compact regions, whose boundary has two conical singularities. Their regularised holographic entropy is calculated with all divergent as well as finite terms. The coefficient of the squared logarithmic divergence, also in such a case with internally curved boundary, agrees with that calculated in the literature for infinite circular cones with their internally flat boundary. For the otherwise conformally invariant coefficient of the ordinary logarithmic divergence an anomaly under exceptional conformal transformations is observed.

  16. The interaction of banana MADS-box protein MuMADS1 and ubiquitin-activating enzyme E-MuUBA in post-harvest banana fruit.

    PubMed

    Liu, Ju-Hua; Zhang, Jing; Jia, Cai-Hong; Zhang, Jian-Bin; Wang, Jia-Shui; Yang, Zi-Xian; Xu, Bi-Yu; Jin, Zhi-Qiang

    2013-01-01

    KEY MESSAGE : The interaction of MuMADS1 and MuUBA in banana was reported, which will help us to understand the mechanism of the MADS-box gene in regulating banana fruit development and ripening. The ubiquitin-activating enzyme E1 gene fragment MuUBA was obtained from banana (Musa acuminata L.AAA) fruit by the yeast two-hybrid method using the banana MADS-box gene MuMADS1 as bait and 2-day post-harvest banana fruit cDNA library as prey. MuMADS1 interacted with MuUBA. The interaction of MuMADS1 and MuUBA in vivo was further proved by bimolecular fluorescence complementation assay. Real-time quantitative PCR evaluation of MuMADS1 and MuUBA expression patterns in banana showed that they are highly expressed in the ovule 4 stage, but present in low levels in the stem, which suggests a simultaneously differential expression action exists for both MuMADS1 and MuUBA in different tissues and developmental fruits. MuMADS1 and MuUBA expression was highly stimulated by exogenous ethylene and suppressed by 1-methylcyclopropene. These results indicated that MuMADS1 and MuUBA were co-regulated by ethylene and might play an important role in post-harvest banana fruit ripening.

  17. Molecular characterisation of banana bunchy top virus (BBTV) from Pakistan.

    PubMed

    Amin, Imran; Qazi, Javaria; Mansoor, Shahid; Ilyas, Muhammad; Briddon, Rob W

    2008-02-01

    Banana bunchy top disease is caused by a single-stranded circular DNA virus, banana bunchy top virus (BBTV), which is a member of the genus Babuvirus (family Nanoviridae). We have cloned and sequenced five components (DNA-R, DNA-S, DNA-N, DNA-M and DNA-C) of a BBTV isolate originating from Pakistan. In addition, the DNA-R and several other components of five further isolates, originating from geographically distinct sites across the banana-growing area of Sindh province, Pakistan, were cloned and sequenced. Analysis of the sequences indicates that BBTV present in Pakistan belongs to the "South Pacific" group of isolates and that the genetic diversity of the virus in the country is very low. The virus shows the highest levels of sequence identity to BBTV isolates originating from Egypt, India and Australia. The significance of these results with respect to the possible origin of the virus in Pakistan and the prospects for obtaining genetically engineered resistance to the virus are discussed.

  18. Genetic Diversity Among Banana streak virus Isolates from Australia.

    PubMed

    Geering, A D; McMichael, L A; Dietzgen, R G; Thomas, J E

    2000-08-01

    ABSTRACT Banana streak virus (BSV) is an important pathogen of bananas and plantains (Musa spp.) throughout the world. We have cloned and sequenced part of the genomes of four isolates of BSV from Australia, designated BSV-RD, BSV-Cav, BSV-Mys, and BSV-GF. These isolates originated from banana cvs. Red Dacca, Williams, Mysore, and Goldfinger, respectively. All clones contained a sequence covering part of open reading frame III and the intergenic region of the badnavirus genome. The sequences were compared with those of other badnaviruses, including BSV-Onne, a previously characterized isolate from Nigeria. The BSV-RD sequence was virtually identical to that of BSV-Onne, differing by only two nucleotides over 1,292 bp. However, BSV-Cav, -Mys, and -GF were divergent in nucleotide sequence. Phylogenetic analyses using conserved sequences in the ribonuclease H domain revealed that all BSV isolates were more closely related to each other than to any other badnavirus. BSV-Cav was most closely related to BSV-Onne, and there was 95.1% identity between the two amino acid sequences. Other relationships between the BSV isolates were less similar, with sequence identities ranging from 66.4 to 78.2%, which is a magnitude comparable to the distance between some of the recognized badnavirus species. Immunocapture-polymerase chain reaction assays have been developed, allowing specific detection and differentiation of the four isolates of BSV.

  19. Toxicity profile of commercially produced indigenous banana beer.

    PubMed

    Shale, K; Mukamugema, J; Lues, R J; Venter, P

    2012-08-01

    Mycotoxins, together with endotoxins, represent important classes of naturally occurring contaminants in food products, posing significant health risks to consumers. The aim of this study is to investigate the occurrence of both Fusarium mycotoxins and endotoxins in commercially produced traditional banana beer. Two brands of commercially produced traditional banana beer were collected from a local retail market in Kigali, Rwanda. Beer samples were analysed for the presence of deoxynivalenol (DON), fumonisin B₁ and zearalenone (ZEA), using an enzyme-linked immuno-sorbent assay (ELISA) method. The quantification of bacterial endotoxin using Limulus amoeboecyte lysate (LAL) assay was also conducted. The contamination levels were 20 and 6.7 µg kg⁻¹ for DON; 34 and 31.3 µg kg⁻¹ for FB₁; 0.66 and 2.2 µg kg⁻¹ for ZEA in brands A and B of the beers, respectively. Results indicate that the levels of Fusarium toxins and bacterial endotoxin reported in this study did not pose adverse human health effects as a result of drinking/consuming banana beer. However, exposure to low/sub-threshold doses or non-toxic levels of endotoxins magnifies the toxic effect of xenobiotic agents (e.g. fungal toxins) on liver and other target organs. Considering Fusarium toxins and/or endotoxin contamination levels in other agricultural commodities intended for human consumption, health risks might be high and the condition is aggravated when beer is contaminated by mixtures of the mycotoxins, as indicated in this study.

  20. Evidence for two groups of banana bunchy top virus isolates.

    PubMed

    Karan, M; Harding, R M; Dale, J L

    1994-12-01

    Banana bunchy top virus (BBTV) DNA component 1 from isolates from 10 different countries was cloned and sequenced and the sequences were aligned and compared. This analysis indicated two groups: the South Pacific group (isolates from Australia, Burundi, Egypt, Fiji, India, Tonga and Western Samoa) and the Asian group (isolates from the Philippines, Taiwan and Vietnam). The mean sequence difference within each group was 1.9 to 3.0% and between isolates from the two groups was approximately 10%, but some parts of the sequences differed more than others. However, the protein encoded by the major open reading frame, which is probably a replicase, differed by approximately 5%. The region from the beginning of the stem-loop sequence to the potential TATA box was identical in all isolates except for a two nucleotide change in the Western Samoan isolate and a single change in that of the NSW isolate. These results, together with other evidence, suggest that BBTV has spread to bananas after the initial movement of bananas from the Asian Pacific regions to Africa and the Americas.

  1. Predictive spectroscopy and chemical imaging based on novel optical systems

    NASA Astrophysics Data System (ADS)

    Nelson, Matthew Paul

    1998-10-01

    This thesis describes two futuristic optical systems designed to surpass contemporary spectroscopic methods for predictive spectroscopy and chemical imaging. These systems are advantageous to current techniques in a number of ways including lower cost, enhanced portability, shorter analysis time, and improved S/N. First, a novel optical approach to predicting chemical and physical properties based on principal component analysis (PCA) is proposed and evaluated. A regression vector produced by PCA is designed into the structure of a set of paired optical filters. Light passing through the paired filters produces an analog detector signal directly proportional to the chemical/physical property for which the regression vector was designed. Second, a novel optical system is described which takes a single-shot approach to chemical imaging with high spectroscopic resolution using a dimension-reduction fiber-optic array. Images are focused onto a two- dimensional matrix of optical fibers which are drawn into a linear distal array with specific ordering. The distal end is imaged with a spectrograph equipped with an ICCD camera for spectral analysis. Software is used to extract the spatial/spectral information contained in the ICCD images and deconvolute them into wave length-specific reconstructed images or position-specific spectra which span a multi-wavelength space. This thesis includes a description of the fabrication of two dimension-reduction arrays as well as an evaluation of the system for spatial and spectral resolution, throughput, image brightness, resolving power, depth of focus, and channel cross-talk. PCA is performed on the images by treating rows of the ICCD images as spectra and plotting the scores of each PC as a function of reconstruction position. In addition, iterative target transformation factor analysis (ITTFA) is performed on the spectroscopic images to generate ``true'' chemical maps of samples. Univariate zero-order images, univariate first

  2. Prediction of Recidivism in Juvenile Offenders Based on Discriminant Analysis.

    ERIC Educational Resources Information Center

    Proefrock, David W.

    The recent development of strong statistical techniques has made accurate predictions of recidivism possible. To investigate the utility of discriminant analysis methodology in making predictions of recidivism in juvenile offenders, the court records of 271 male and female juvenile offenders, aged 12-16, were reviewed. A cross validation group…

  3. On the distribution of scaling hydraulic parameters in a spatially anisotropic banana field

    NASA Astrophysics Data System (ADS)

    Regalado, Carlos M.

    2005-06-01

    When modeling soil hydraulic properties at field scale it is desirable to approximate the variability in a given area by means of some scaling transformations which relate spatially variable local hydraulic properties to global reference characteristics. Seventy soil cores were sampled within a drip irrigated banana plantation greenhouse on a 14×5 array of 2.5 m×5 m rectangles at 15 cm depth, to represent the field scale variability of flow related properties. Saturated hydraulic conductivity and water retention characteristics were measured in these 70 soil cores. van Genuchten water retention curves (WRC) with optimized m ( m≠1-1/ n) were fitted to the WR data and a general Mualem-van Genuchten model was used to predict hydraulic conductivity functions for each soil core. A scaling law, of the form ν=ανi*, was fitted to soil hydraulic data, such that the original hydraulic parameters νi were scaled down to a reference curve with parameters νi*. An analytical expression, in terms of Beta functions, for the average suction value, hc, necessary to apply the above scaling method, was obtained. A robust optimization procedure with fast convergence to the global minimum is used to find the optimum hc, such that dispersion is minimized in the scaled data set. Via the Box-Cox transformation P(τ)=(αiτ-1)/τ, Box-Cox normality plots showed that scaling factors for the suction ( αh) and hydraulic conductivity ( αk) were approximately log-normally distributed (i.e. τ=0), as it would be expected for such dynamic properties involving flow. By contrast static soil related properties as αθ were found closely Gaussian, although a power τ=3/4 was best for approaching normality. Application of four different normality tests (Anderson-Darling, Shapiro-Wilk, Kolmogorov-Smirnov and χ2 goodness-of-fit tests) rendered some contradictory results among them, thus suggesting that this widely extended practice is not recommended for providing a suitable probability

  4. SHM-Based Probabilistic Fatigue Life Prediction for Bridges Based on FE Model Updating.

    PubMed

    Lee, Young-Joo; Cho, Soojin

    2016-03-02

    Fatigue life prediction for a bridge should be based on the current condition of the bridge, and various sources of uncertainty, such as material properties, anticipated vehicle loads and environmental conditions, make the prediction very challenging. This paper presents a new approach for probabilistic fatigue life prediction for bridges using finite element (FE) model updating based on structural health monitoring (SHM) data. Recently, various types of SHM systems have been used to monitor and evaluate the long-term structural performance of bridges. For example, SHM data can be used to estimate the degradation of an in-service bridge, which makes it possible to update the initial FE model. The proposed method consists of three steps: (1) identifying the modal properties of a bridge, such as mode shapes and natural frequencies, based on the ambient vibration under passing vehicles; (2) updating the structural parameters of an initial FE model using the identified modal properties; and (3) predicting the probabilistic fatigue life using the updated FE model. The proposed method is demonstrated by application to a numerical model of a bridge, and the impact of FE model updating on the bridge fatigue life is discussed.

  5. SHM-Based Probabilistic Fatigue Life Prediction for Bridges Based on FE Model Updating

    PubMed Central

    Lee, Young-Joo; Cho, Soojin

    2016-01-01

    Fatigue life prediction for a bridge should be based on the current condition of the bridge, and various sources of uncertainty, such as material properties, anticipated vehicle loads and environmental conditions, make the prediction very challenging. This paper presents a new approach for probabilistic fatigue life prediction for bridges using finite element (FE) model updating based on structural health monitoring (SHM) data. Recently, various types of SHM systems have been used to monitor and evaluate the long-term structural performance of bridges. For example, SHM data can be used to estimate the degradation of an in-service bridge, which makes it possible to update the initial FE model. The proposed method consists of three steps: (1) identifying the modal properties of a bridge, such as mode shapes and natural frequencies, based on the ambient vibration under passing vehicles; (2) updating the structural parameters of an initial FE model using the identified modal properties; and (3) predicting the probabilistic fatigue life using the updated FE model. The proposed method is demonstrated by application to a numerical model of a bridge, and the impact of FE model updating on the bridge fatigue life is discussed. PMID:26950125

  6. Ensemble-based Regional Climate Prediction: Political Impacts

    NASA Astrophysics Data System (ADS)

    Miguel, E.; Dykema, J.; Satyanath, S.; Anderson, J. G.

    2008-12-01

    Accurate forecasts of regional climate, including temperature and precipitation, have significant implications for human activities, not just economically but socially. Sub Saharan Africa is a region that has displayed an exceptional propensity for devastating civil wars. Recent research in political economy has revealed a strong statistical relationship between year to year fluctuations in precipitation and civil conflict in this region in the 1980s and 1990s. To investigate how climate change may modify the regional risk of civil conflict in the future requires a probabilistic regional forecast that explicitly accounts for the community's uncertainty in the evolution of rainfall under anthropogenic forcing. We approach the regional climate prediction aspect of this question through the application of a recently demonstrated method called generalized scalar prediction (Leroy et al. 2009), which predicts arbitrary scalar quantities of the climate system. This prediction method can predict change in any variable or linear combination of variables of the climate system averaged over a wide range spatial scales, from regional to hemispheric to global. Generalized scalar prediction utilizes an ensemble of model predictions to represent the community's uncertainty range in climate modeling in combination with a timeseries of any type of observational data that exhibits sensitivity to the scalar of interest. It is not necessary to prioritize models in deriving with the final prediction. We present the results of the application of generalized scalar prediction for regional forecasts of temperature and precipitation and Sub Saharan Africa. We utilize the climate predictions along with the established statistical relationship between year-to-year rainfall variability in Sub Saharan Africa to investigate the potential impact of climate change on civil conflict within that region.

  7. Golden bananas in the field: elevated fruit pro-vitamin A from the expression of a single banana transgene.

    PubMed

    Paul, Jean-Yves; Khanna, Harjeet; Kleidon, Jennifer; Hoang, Phuong; Geijskes, Jason; Daniells, Jeff; Zaplin, Ella; Rosenberg, Yvonne; James, Anthony; Mlalazi, Bulukani; Deo, Pradeep; Arinaitwe, Geofrey; Namanya, Priver; Becker, Douglas; Tindamanyire, James; Tushemereirwe, Wilberforce; Harding, Robert; Dale, James

    2017-04-01

    Vitamin A deficiency remains one of the world's major public health problems despite food fortification and supplements strategies. Biofortification of staple crops with enhanced levels of pro-vitamin A (PVA) offers a sustainable alternative strategy to both food fortification and supplementation. As a proof of concept, PVA-biofortified transgenic Cavendish bananas were generated and field trialed in Australia with the aim of achieving a target level of 20 μg/g of dry weight (dw) β-carotene equivalent (β-CE) in the fruit. Expression of a Fe'i banana-derived phytoene synthase 2a (MtPsy2a) gene resulted in the generation of lines with PVA levels exceeding the target level with one line reaching 55 μg/g dw β-CE. Expression of the maize phytoene synthase 1 (ZmPsy1) gene, used to develop 'Golden Rice 2', also resulted in increased fruit PVA levels although many lines displayed undesirable phenotypes. Constitutive expression of either transgene with the maize polyubiquitin promoter increased PVA accumulation from the earliest stage of fruit development. In contrast, PVA accumulation was restricted to the late stages of fruit development when either the banana 1-aminocyclopropane-1-carboxylate oxidase or the expansin 1 promoters were used to drive the same transgenes. Wild-type plants with the longest fruit development time had also the highest fruit PVA concentrations. The results from this study suggest that early activation of the rate-limiting enzyme in the carotenoid biosynthetic pathway and extended fruit maturation time are essential factors to achieve optimal PVA concentrations in banana fruit.

  8. Action prediction based on anticipatory brain potentials during simulated driving

    NASA Astrophysics Data System (ADS)

    Khaliliardali, Zahra; Chavarriaga, Ricardo; Gheorghe, Lucian Andrei; Millán, José del R.

    2015-12-01

    Objective. The ability of an automobile to infer the driver’s upcoming actions directly from neural signals could enrich the interaction of the car with its driver. Intelligent vehicles fitted with an on-board brain-computer interface able to decode the driver’s intentions can use this information to improve the driving experience. In this study we investigate the neural signatures of anticipation of specific actions, namely braking and accelerating. Approach. We investigated anticipatory slow cortical potentials in electroencephalogram recorded from 18 healthy participants in a driving simulator using a variant of the contingent negative variation (CNV) paradigm with Go and No-go conditions: count-down numbers followed by ‘Start’/‘Stop’ cue. We report decoding performance before the action onset using a quadratic discriminant analysis classifier based on temporal features. Main results. (i) Despite the visual and driving related cognitive distractions, we show the presence of anticipatory event related potentials locked to the stimuli onset similar to the widely reported CNV signal (with an average peak value of -8 μV at electrode Cz). (ii) We demonstrate the discrimination between cases requiring to perform an action upon imperative subsequent stimulus (Go condition, e.g. a ‘Red’ traffic light) versus events that do not require such action (No-go condition; e.g. a ‘Yellow’ light); with an average single trial classification performance of 0.83 ± 0.13 for braking and 0.79 ± 0.12 for accelerating (area under the curve). (iii) We show that the centro-medial anticipatory potentials are observed as early as 320 ± 200 ms before the action with a detection rate of 0.77 ± 0.12 in offline analysis. Significance. We show for the first time the feasibility of predicting the driver’s intention through decoding anticipatory related potentials during simulated car driving with high recognition rates.

  9. "The Rotten Banana" Fires Back: The Story of a Danish Discourse of "Inclusive" Rurality in the Making

    ERIC Educational Resources Information Center

    Winther, Malene Brandt; Svendsen, Gunnar Lind Haase

    2012-01-01

    The popularity of a particular term--the Rotten Banana--has paralleled the one-sided centralisation of public services since the Danish Municipal Reform of 2007. The Rotten Banana denotes peripheral Denmark, which takes a geographically curved form that resembles a banana, and it symbolises the belief that rural areas are backward and (too)…

  10. Evidence for the presence of a female produced sex pheromone in the banana weevil, Cosmopolites sordidus Germar (Coleoptera: Curculionidae)

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Behavior-modifying chemicals such as pheromones and kairomones have great potential in pest management. Studies reported here investigated chemical cues involved in mating and aggregation behavior of banana weevil, Cosmopolites sordidus, a major insect pest of banana in every country where bananas a...

  11. Pectinase production by Aspergillus niger using banana (Musa balbisiana) peel as substrate and its effect on clarification of banana juice.

    PubMed

    Barman, Sumi; Sit, Nandan; Badwaik, Laxmikant S; Deka, Sankar C

    2015-06-01

    Optimization of substrate concentration, time of incubation and temperature for crude pectinase production from A. niger was carried out using Bhimkol banana (Musa balbisiana) peel as substrate. The crude pectinase produced was partially purified using ethanol and effectiveness of crude and partially purified pectinase was studied for banana juice clarification. The optimum substrate concentration, incubation time and temperature of incubation were 8.07 %, 65.82 h and 32.37 °C respectively, and the polygalacturonase (PG) activity achieved was 6.6 U/ml for crude pectinase. The partially purified enzyme showed more than 3 times of polygalacturonase activity as compared to the crude enzyme. The SDS-PAGE profile showed that the molecular weight of proteins present in the different pectinases varied from 34 to 42 kDa. The study further revealed that highest clarification was achieved when raw banana juice was incubated for 60 min with 2 % concentration of partially purified pectinase and the absorbance obtained was 0.10.

  12. From crossbreeding to biotechnology-facilitated improvement of banana and plantain.

    PubMed

    Ortiz, Rodomiro; Swennen, Rony

    2014-01-01

    The annual harvest of banana and plantain (Musa spp.) is approximately 145 million tons worldwide. About 85% of this global production comes from small plots and kitchen or backyard gardens from the developing world, and only 15% goes to the export trade. Musa acuminata and Musa balbisiana are the ancestors of several hundreds of parthenocarpic Musa diploid and polyploid cultivars, which show multiple origins through inter- and intra-specific hybridizations from these two wild diploid species. Generating hybrids combining host plant resistance to pathogens and pests, short growth cycles and height, high fruit yield, parthenocarpy, and desired quality from the cultivars remains a challenge for Musa crossbreeding, which started about one century ago in Trinidad. The success of Musa crossbreeding depends on the production of true hybrid seeds in a crop known for its high levels of female sterility, particularly among polyploid cultivars. All banana export cultivars grown today are, however, selections from somatic mutants of the group Cavendish and have a very narrow genetic base, while smallholders in sub-Saharan Africa, tropical Asia and Latin America use some bred-hybrids (mostly cooking types). Musa improvement goals need to shift to address emerging threats because of the changing climate. Innovative cell and molecular biology tools have the potential to enhance the pace and efficiency of genetic improvement in Musa. Micro-propagation has been successful for high throughput of clean planting materials while in vitro seed germination assists in obtaining seedlings after inter-specific and across ploidy hybridization. Flow cytometry protocols are used for checking ploidy among genebank accessions and breeding materials. DNA markers, the genetic maps based on them, and the recent sequencing of the banana genome offer means for gaining more insights in the genetics of the crops and to identifying genes that could lead to accelerating Musa betterment. Likewise, DNA

  13. Bananas as an energy source during exercise: a metabolomics approach.

    PubMed

    Nieman, David C; Gillitt, Nicholas D; Henson, Dru A; Sha, Wei; Shanely, R Andrew; Knab, Amy M; Cialdella-Kam, Lynn; Jin, Fuxia

    2012-01-01

    This study compared the acute effect of ingesting bananas (BAN) versus a 6% carbohydrate drink (CHO) on 75-km cycling performance and post-exercise inflammation, oxidative stress, and innate immune function using traditional and metabolomics-based profiling. Trained cyclists (N = 14) completed two 75-km cycling time trials (randomized, crossover) while ingesting BAN or CHO (0.2 g/kg carbohydrate every 15 min). Pre-, post-, and 1-h-post-exercise blood samples were analyzed for glucose, granulocyte (GR) and monocyte (MO) phagocytosis (PHAG) and oxidative burst activity, nine cytokines, F₂-isoprostanes, ferric reducing ability of plasma (FRAP), and metabolic profiles using gas chromatography-mass spectrometry. Blood glucose levels and performance did not differ between BAN and CHO (2.41±0.22, 2.36±0.19 h, P = 0.258). F₂-isoprostanes, FRAP, IL-10, IL-2, IL-6, IL-8, TNFα, GR-PHAG, and MO-PHAG increased with exercise, with no trial differences except for higher levels during BAN for IL-10, IL-8, and FRAP (interaction effects, P = 0.003, 0.004, and 0.012). Of 103 metabolites detected, 56 had exercise time effects, and only one (dopamine) had a pattern of change that differed between BAN and CHO. Plots from the PLS-DA model visualized a distinct separation in global metabolic scores between time points [R²Y(cum) = 0.869, Q²(cum) = 0.766]. Of the top 15 metabolites, five were related to liver glutathione production, eight to carbohydrate, lipid, and amino acid metabolism, and two were tricarboxylic acid cycle intermediates. BAN and CHO ingestion during 75-km cycling resulted in similar performance, blood glucose, inflammation, oxidative stress, and innate immune levels. Aside from higher dopamine in BAN, shifts in metabolites following BAN and CHO 75-km cycling time trials indicated a similar pattern of heightened production of glutathione and utilization of fuel substrates in several pathways.

  14. A Study on the Morphological and PhysicoChemical Characteristics of Five Cooking Bananas

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Field evaluation of five banana clones was carried out at the National Germplasm Repository in Miami, Florida, USA from July 2006 to July 2008. Bananas (Musa acuminata Colla [AA, AAA]; Musa x paradisiaca Colla (ABB, AAAB, AABB), are one of the worlds most important food crops. Five clones of cookin...

  15. The Draft Genome Sequence of Mycosphaerella fijiensis, the Black Sigatoka Pathogen of Banana

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Mycosphaerella fijiensis is a fungal pathogen of banana and the causal agent of the devastating Black Sigatoka or black leaf streak disease. Its control requires weekly fungicide applications when bananas are grown under disease-conducive conditions, which mostly represent precarious tropical enviro...

  16. Study of Banana Dehydration using Sequential Infrared Radiation Heating and Freeze-Drying

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The drying and quality characteristics of banana slices processed with a sequential infrared radiation and freeze drying (SIRFD) method were investigated. Cavendish banana slices with 5 mm thickness were predehydrated using IR heating at each one of three radiation intensities, 3000, 4000, and 5000...

  17. Application of Sampling Based Model Predictive Control to an Autonomous Underwater Vehicle

    DTIC Science & Technology

    2010-07-01

    55 Application of Sampling Based Model Predictive Control to an Autonomous Underwater Vehicle Unmanned Underwater Vehicles (UUVs) can be utilized...the vehicle can feasibly traverse. As a result, Sampling- Based Model Predictive Control (SBMPC) is proposed to simultaneously generate control...inputs and system trajectories for an autonomous underwater vehicle (AUV). The algorithm combines the benefits of sampling- based motion planning with

  18. Effect of physiological harvest stages on the composition of bioactive compounds in Cavendish bananas.

    PubMed

    Bruno Bonnet, Christelle; Hubert, Olivier; Mbeguie-A-Mbeguie, Didier; Pallet, Dominique; Hiol, Abel; Reynes, Max; Poucheret, Patrick

    2013-04-01

    The combined influence of maturation, ripening, and climate on the profile of bioactive compounds was studied in banana (Musa acuminata, AAA, Cavendish, cv. Grande Naine). Their bioactive compounds were determined by the Folin-Ciocalteu assay and high-performance thin layer chromatographic (HPTLC) method. The polyphenol content of bananas harvested after 400 degree days remained unchanged during ripening, while bananas harvested after 600 and 900 degree days exhibited a significant polyphenol increase. Although dopamine was the polyphenol with the highest concentration in banana peels during the green developmental stage and ripening, its kinetics differed from the total polyphenol profile. Our results showed that this matrix of choice (maturation, ripening, and climate) may allow selection of the banana (M. acuminata, AAA, Cavendish, cv. Grande Naine) status that will produce optimal concentrations of identified compounds with human health relevance.

  19. Effect of physiological harvest stages on the composition of bioactive compounds in Cavendish bananas*

    PubMed Central

    Bruno Bonnet, Christelle; Hubert, Olivier; Mbeguie-A-Mbeguie, Didier; Pallet, Dominique; Hiol, Abel; Reynes, Max; Poucheret, Patrick

    2013-01-01

    The combined influence of maturation, ripening, and climate on the profile of bioactive compounds was studied in banana (Musa acuminata, AAA, Cavendish, cv. Grande Naine). Their bioactive compounds were determined by the Folin-Ciocalteu assay and high-performance thin layer chromatographic (HPTLC) method. The polyphenol content of bananas harvested after 400 degree days remained unchanged during ripening, while bananas harvested after 600 and 900 degree days exhibited a significant polyphenol increase. Although dopamine was the polyphenol with the highest concentration in banana peels during the green developmental stage and ripening, its kinetics differed from the total polyphenol profile. Our results showed that this matrix of choice (maturation, ripening, and climate) may allow selection of the banana (M. acuminata, AAA, Cavendish, cv. Grande Naine) status that will produce optimal concentrations of identified compounds with human health relevance. PMID:23549844

  20. Pineapple juice and its fractions in enzymatic browning inhibition of banana [Musa (AAA group) Gros Michel].

    PubMed

    Chaisakdanugull, Chitsuda; Theerakulkait, Chockchai; Wrolstad, Ronald E

    2007-05-16

    The effectiveness of pineapple juice in enzymatic browning inhibition was evaluated on the cut surface of banana slices. After storage of banana slices at 15 degrees C for 3 days, pineapple juice showed browning inhibition to a similar extent as 8 mM ascorbic acid but less than 4 mM sodium metabisulfite. Fractionation of pineapple juice by a solid-phase C18 cartridge revealed that the directly eluted fraction (DE fraction) inhibited banana polyphenol oxidase (PPO) about 100% when compared to the control. The DE fraction also showed more inhibitory effect than 8 mM ascorbic acid in enzymatic browning inhibition of banana puree during storage at 5 degrees C for 24 h. Further identification of the DE fraction by fractionation with ion exchange chromatography and confirmation using model systems indicated that malic acid and citric acid play an important role in the enzymatic browning inhibition of banana PPO.

  1. Characterization and Prediction of Protein Flexibility Based on Structural Alphabets

    PubMed Central

    Liu, Bin

    2016-01-01

    Motivation. To assist efforts in determining and exploring the functional properties of proteins, it is desirable to characterize and predict protein flexibilities. Results. In this study, the conformational entropy is used as an indicator of the protein flexibility. We first explore whether the conformational change can capture the protein flexibility. The well-defined decoy structures are converted into one-dimensional series of letters from a structural alphabet. Four different structure alphabets, including the secondary structure in 3-class and 8-class, the PB structure alphabet (16-letter), and the DW structure alphabet (28-letter), are investigated. The conformational entropy is then calculated from the structure alphabet letters. Some of the proteins show high correlation between the conformation entropy and the protein flexibility. We then predict the protein flexibility from basic amino acid sequence. The local structures are predicted by the dual-layer model and the conformational entropy of the predicted class distribution is then calculated. The results show that the conformational entropy is a good indicator of the protein flexibility, but false positives remain a problem. The DW structure alphabet performs the best, which means that more subtle local structures can be captured by large number of structure alphabet letters. Overall this study provides a simple and efficient method for the characterization and prediction of the protein flexibility. PMID:27660756

  2. SPI-based drought category prediction using loglinear models

    NASA Astrophysics Data System (ADS)

    Moreira, Elsa E.; Coelho, Carlos A.; Paulo, Ana A.; Pereira, Luís S.; Mexia, João T.

    2008-06-01

    SummaryLoglinear modeling for three-dimensional contingency tables was used with data from 14 rainfall stations located in Alentejo and Algarve region, southern of Portugal, for short term prediction of drought severity classes. Loglinear models were fitted to drought class transitions derived from Standardized Precipitation Index (SPI) time series computed in a 12-month time scale. Quasi-association loglinear models proved to be the most adequate in fitting all the 14 data series. Odds and respective confidence intervals were calculated in order to understand the drought evolution and to estimate the drought class transition probabilities. The validation of the predictions was performed for the 2004-2006 drought, particularly for periods when the drought was initiating and establishing, and when it was dissipating. Despite the contingency tables of drought class transitions present a strong diagonal tendency, results of three-dimensional loglinear modeling present good results when comparing predicted and observed drought classes with 1 and 2 months lead for those 14 sites. Only for a few cases predictions did not fully match the observed drought severity, mainly for 2-month lead and when the SPI values are near the limit of the severity class. It could be concluded that loglinear prediction of drought class transitions is a useful tool for short term drought warning.

  3. Gradient-based habitat affinities predict species vulnerability to drought.

    PubMed

    Debinski, Diane M; Caruthers, Jennet C; Cook, Dianne; Crowley, Jason; Wickham, Hadley

    2013-05-01

    Ecological fingerprints of climate change are becoming increasingly evident at broad geographical scales as measured by species range shifts and changes in phenology. However, finer-scale species-level responses to environmental fluctuations may also provide an important bellwether of impending future community responses. Here we examined changes in abundance of butterfly species along a hydrological gradient of six montane meadow habitat types in response to drought. Our data collection began prior to the drought, and we were able to track changes for 11 years, of which eight were considered mild to extreme drought conditions. We separated the species into those that had an affinity for hydric vs. xeric habitats. We suspected that drought would favor species with xeric habitat affinities, but that there could be variations in species-level responses along the hydrological gradient. We also suspected that mesic meadows would be most sensitive to drought conditions. Temporal trajectories were modeled for both species groups (hydric vs. xeric affinity) and individual species. Abundances of species with affinity for xeric habitats increased in virtually all meadow types. Conversely, abundances of species with affinity for hydric habitats decreased, particularly in mesic and xeric meadows. Mesic meadows showed the most striking temporal abundance trajectory: Increasing abundances of species with xeric habitat affinity were offset by decreasing or stable abundances of species with hydric habitat affinity. The one counterintuitive finding was that, in some hydric meadows, species with affinity for hydric habitats increased. In these cases, we suspect that decreasing moisture conditions in hydric meadows actually increased habitat suitability because sites near the limit of moisture extremes for some species became more acceptable. Thus, species responses were relatively predictable based upon habitat affinity and habitat location along the hydrological gradient, and

  4. Novel Approach for the Recognition and Prediction of Multi-Function Radar Behaviours Based on Predictive State Representations

    PubMed Central

    Ou, Jian; Chen, Yongguang; Zhao, Feng; Liu, Jin; Xiao, Shunping

    2017-01-01

    The extensive applications of multi-function radars (MFRs) have presented a great challenge to the technologies of radar countermeasures (RCMs) and electronic intelligence (ELINT). The recently proposed cognitive electronic warfare (CEW) provides a good solution, whose crux is to perceive present and future MFR behaviours, including the operating modes, waveform parameters, scheduling schemes, etc. Due to the variety and complexity of MFR waveforms, the existing approaches have the drawbacks of inefficiency and weak practicability in prediction. A novel method for MFR behaviour recognition and prediction is proposed based on predictive state representation (PSR). With the proposed approach, operating modes of MFR are recognized by accumulating the predictive states, instead of using fixed transition probabilities that are unavailable in the battlefield. It helps to reduce the dependence of MFR on prior information. And MFR signals can be quickly predicted by iteratively using the predicted observation, avoiding the very large computation brought by the uncertainty of future observations. Simulations with a hypothetical MFR signal sequence in a typical scenario are presented, showing that the proposed methods perform well and efficiently, which attests to their validity. PMID:28335492

  5. Predictive Models of Alcohol Use Based on Attitudes and Individual Values

    ERIC Educational Resources Information Center

    Del Castillo Rodríguez, José A. García; López-Sánchez, Carmen; Soler, M. Carmen Quiles; Del Castillo-López, Álvaro García; Pertusa, Mónica Gázquez; Campos, Juan Carlos Marzo; Inglés, Cándido J.

    2013-01-01

    Two predictive models are developed in this article: the first is designed to predict people' attitudes to alcoholic drinks, while the second sets out to predict the use of alcohol in relation to selected individual values. University students (N = 1,500) were recruited through stratified sampling based on sex and academic discipline. The…

  6. Lineage-Specific Evolutionary Histories and Regulation of Major Starch Metabolism Genes during Banana Ripening

    PubMed Central

    Jourda, Cyril; Cardi, Céline; Gibert, Olivier; Giraldo Toro, Andrès; Ricci, Julien; Mbéguié-A-Mbéguié, Didier; Yahiaoui, Nabila

    2016-01-01

    Starch is the most widespread and abundant storage carbohydrate in plants. It is also a major feature of cultivated bananas as it accumulates to large amounts during banana fruit development before almost complete conversion to soluble sugars during ripening. Little is known about the structure of major gene families involved in banana starch metabolism and their evolution compared to other species. To identify genes involved in banana starch metabolism and investigate their evolutionary history, we analyzed six gene families playing a crucial role in plant starch biosynthesis and degradation: the ADP-glucose pyrophosphorylases (AGPases), starch synthases (SS), starch branching enzymes (SBE), debranching enzymes (DBE), α-amylases (AMY) and β-amylases (BAM). Using comparative genomics and phylogenetic approaches, these genes were classified into families and sub-families and orthology relationships with functional genes in Eudicots and in grasses were identified. In addition to known ancestral duplications shaping starch metabolism gene families, independent evolution in banana and grasses also occurred through lineage-specific whole genome duplications for specific sub-families of AGPase, SS, SBE, and BAM genes; and through gene-scale duplications for AMY genes. In particular, banana lineage duplications yielded a set of AGPase, SBE and BAM genes that were highly or specifically expressed in banana fruits. Gene expression analysis highlighted a complex transcriptional reprogramming of starch metabolism genes during ripening of banana fruits. A differential regulation of expression between banana gene duplicates was identified for SBE and BAM genes, suggesting that part of starch metabolism regulation in the fruit evolved in the banana lineage. PMID:27994606

  7. Contamination of Bananas with Beauvericin and Fusaric Acid Produced by Fusarium oxysporum f. sp. cubense

    PubMed Central

    Kuang, Ruibin; Yang, Qiaosong; Hu, Chunhua; Sheng, Ou; Zhang, Sheng; Ma, Lijun; Wei, Yuerong; Yang, Jing; Liu, Siwen; Biswas, Manosh Kumar; Viljoen, Altus; Yi, Ganjun

    2013-01-01

    Background Fusarium wilt, caused by the fungal pathogen Fusarium oxysporum f. sp. cubense (Foc), is one of the most destructive diseases of banana. Toxins produced by Foc have been proposed to play an important role during the pathogenic process. The objectives of this study were to investigate the contamination of banana with toxins produced by Foc, and to elucidate their role in pathogenesis. Methodology/Principal Findings Twenty isolates of Foc representing races 1 and 4 were isolated from diseased bananas in five Chinese provinces. Two toxins were consistently associated with Foc, fusaric acid (FA) and beauvericin (BEA). Cytotoxicity of the two toxins on banana protoplast was determined using the Alamar Blue assay. The virulence of 20 Foc isolates was further tested by inoculating tissue culture banana plantlets, and the contents of toxins determined in banana roots, pseudostems and leaves. Virulence of Foc isolates correlated well with toxin deposition in the host plant. To determine the natural occurrence of the two toxins in banana plants with Fusarium wilt symptoms, samples were collected before harvest from the pseudostems, fruit and leaves from 10 Pisang Awak ‘Guangfen #1’ and 10 Cavendish ‘Brazilian’ plants. Fusaric acid and BEA were detected in all the tissues, including the fruits. Conclusions/Signficance The current study provides the first investigation of toxins produced by Foc in banana. The toxins produced by Foc, and their levels of contamination of banana fruits, however, were too low to be of concern to human and animal health. Rather, these toxins appear to contribute to the pathogenicity of the fungus during infection of banana plants. PMID:23922960

  8. Operational taxonomic units (OTUs) of endophytic bacteria isolated from banana cultivars in the Amazon.

    PubMed

    Souza, Á; Nogueira, V B; Cruz, J C; Sousa, N R; Procópio, A R L; Silva, G F

    2015-08-19

    Endophytic microorganisms colonize plants, inhibit the growth of pathogens (by competing for nutrients and/or space), or produce antagonistic substances. Fifty-five endophytic bacteria were isolated from the leaf tissue of the FHIA 18 banana cultivar. Genetic diversity analyses were performed using the enterobacterial repetitive intergenic consensus sequence polymerase chain reaction method and BOX molecular markers. These analyses resulted in 33 and 21 polymorphic bands, respectively. The similarity data, obtained using the Dice coefficient based on the polyphasic analysis method, ranged from 22 to 100%. This indicated a high genetic diversity among the analyzed isolates. Sixty percent similarity was utilized as the cut-off criterion for the formation of operational taxonomic units (OTUs); this resulted in the identification of 32 possible OTUs, indicating a high number of potential species.

  9. Phenylphenalenones protect banana plants from infection by Mycosphaerella fijiensis and are deactivated by metabolic conversion.

    PubMed

    Hidalgo, William; Chandran, Jima N; Menezes, Riya C; Otálvaro, Felipe; Schneider, Bernd

    2016-03-01

    Phenylphenalenones, polycyclic aromatic natural products from some monocotyledonous plants, are known as phytoalexins in banana (Musa spp.). In this study, (1) H nuclear magnetic resonance (NMR)-based metabolomics along with liquid chromatography and mass spectrometry were used to explore the chemical responses of the susceptible 'Williams' and the resistant 'Khai Thong Ruang' Musa varieties to the ascomycete fungus Mycosphaerella fijiensis, the agent of the black leaf Sigatoka disease. Principal component analysis discriminated strongly between infected and non-infected plant tissue, mainly because of specialized metabolism induced in response to the fungus. Phenylphenalenones are among the major induced compounds, and the resistance level of the plants was correlated with the progress of the disease. However, a virulent strain of M. fijiensis was able to overcome plant resistance by converting phenylphenalenones to sulfate conjugates. Here, we report the first metabolic detoxification of fungitoxic phenylphenalenones to evade the chemical defence of Musa plants.

  10. Behavior-Based Budget Management Using Predictive Analytics

    SciTech Connect

    Troy Hiltbrand

    2013-03-01

    Historically, the mechanisms to perform forecasting have primarily used two common factors as a basis for future predictions: time and money. While time and money are very important aspects of determining future budgetary spend patterns, organizations represent a complex system of unique individuals with a myriad of associated behaviors and all of these behaviors have bearing on how budget is utilized. When looking to forecasted budgets, it becomes a guessing game about how budget managers will behave under a given set of conditions. This becomes relatively messy when human nature is introduced, as different managers will react very differently under similar circumstances. While one manager becomes ultra conservative during periods of financial austerity, another might be un-phased and continue to spend as they have in the past. Both might revert into a state of budgetary protectionism masking what is truly happening at a budget holder level, in order to keep as much budget and influence as possible while at the same time sacrificing the greater good of the organization. To more accurately predict future outcomes, the models should consider both time and money and other behavioral patterns that have been observed across the organization. The field of predictive analytics is poised to provide the tools and methodologies needed for organizations to do just this: capture and leverage behaviors of the past to predict the future.

  11. Predicting active users' personality based on micro-blogging behaviors.

    PubMed

    Li, Lin; Li, Ang; Hao, Bibo; Guan, Zengda; Zhu, Tingshao

    2014-01-01

    Because of its richness and availability, micro-blogging has become an ideal platform for conducting psychological research. In this paper, we proposed to predict active users' personality traits through micro-blogging behaviors. 547 Chinese active users of micro-blogging participated in this study. Their personality traits were measured by the Big Five Inventory, and digital records of micro-blogging behaviors were collected via web crawlers. After extracting 839 micro-blogging behavioral features, we first trained classification models utilizing Support Vector Machine (SVM), differentiating participants with high and low scores on each dimension of the Big Five Inventory [corrected]. The classification accuracy ranged from 84% to 92%. We also built regression models utilizing PaceRegression methods, predicting participants' scores on each dimension of the Big Five Inventory. The Pearson correlation coefficients between predicted scores and actual scores ranged from 0.48 to 0.54. Results indicated that active users' personality traits could be predicted by micro-blogging behaviors.

  12. Algorithm development for predicting biodiversity based on phytoplankton absorption

    NASA Astrophysics Data System (ADS)

    Moisan, Tiffany A. H.; Moisan, John R.; Linkswiler, Matthew A.; Steinhardt, Rachel A.

    2013-03-01

    Ocean color remote sensing has provided the scientific community with unprecedented global coverage of chlorophyll a, an indicator of phytoplankton biomass. Together, satellite-derived chlorophyll a and knowledge of Phytoplankton Functional Types (PFTs) will improve our limited understanding of marine ecosystem responses to physiochemical climate drivers involved in carbon cycle dynamics and linkages. Using cruise data from the Gulf of Maine and the Middle Atlantic Bight (N=269 pairs of HPLC and phytoplankton absorption samples), two modeling approaches were utilized to predict phytoplankton absorption and pigments. Algorithm I predicts the chlorophyll-specific absorption coefficient (aph* (m2 mg chl a-1)) using inputs of temperature, light, and chlorophyll a. Modeled r2 values (400-700 nm) ranged from 0.79 to 0.99 when compared to in situ observations with ˜25% lower r2 values in the UV region. Algorithm II-a utilizes matrix inversion analysis to predict a(m-1, 400-700 nm) and r2 values ranged from 0.89 to 0.99. The prediction of phytoplankton pigments with Algorithm II-b produced r2 values that ranged from 0.40 to 0.93. When used in combination, Algorithm I, and Algorithm II-a are able to use satellite products of SST, PAR, and chlorophyll a (Algorithm I) to predict pigment concentrations and ratios to describe the phytoplankton community. The results of this study demonstrate that the spatial variation in modeled pigment ratios differ significantly from the 10-year SeaWiFS average chlorophyll a data set. Contiguous observations of chlorophyll a and phytoplankton biodiversity will elucidate ecosystem responses with unprecedented complexity.

  13. Network-based gene prediction for Plasmodium falciparum malaria towards genetics-based drug discovery

    PubMed Central

    2015-01-01

    Background Malaria is the most deadly parasitic infectious disease. Existing drug treatments have limited efficacy in malaria elimination, and the complex pathogenesis of the disease is not fully understood. Detecting novel malaria-associated genes not only contributes in revealing the disease pathogenesis, but also facilitates discovering new targets for anti-malaria drugs. Methods In this study, we developed a network-based approach to predict malaria-associated genes. We constructed a cross-species network to integrate human-human, parasite-parasite and human-parasite protein interactions. Then we extended the random walk algorithm on this network, and used known malaria genes as the seeds to find novel candidate genes for malaria. Results We validated our algorithms using 77 known malaria genes: 14 human genes and 63 parasite genes were ranked averagely within top 2% and top 4%, respectively among human and parasite genomes. We also evaluated our method for predicting novel malaria genes using a set of 27 genes with literature supporting evidence. Our approach ranked 12 genes within top 1% and 24 genes within top 5%. In addition, we demonstrated that top-ranked candied genes were enriched for drug targets, and identified commonalities underlying top-ranked malaria genes through pathway analysis. In summary, the candidate malaria-associated genes predicted by our data-driven approach have the potential to guide genetics-based anti-malaria drug discovery. PMID:26099491

  14. Cryopreservation of scalps of Malaysian bananas using a pre-growth method.

    PubMed

    Sipen, Philip; Anthony, Paul; Davey, Michael R

    2011-01-01

    The effect of preculture with different sugars and mannitol on cryopreservation of scalps of the banana (Musa) cvs. Pisang Mas, Pisang Nangka, Pisang Berangan and Pisang Awak was investigated. Scalps (0.3 square cm) were precultured on semi-solid MS-based medium, containing 0.4 or 0.5 M sucrose, glucose, fructose, trehalose or mannitol, for 14 days under a 16 h light and 8 h dark photoperiod prior to rapid cooling and storage in liquid nitrogen. Explants were rewarmed rapidly in a water bath at 40 degree C for 1 min, followed by recovery on two layers of sterile filter paper overlaying 25 ml aliquots of semi-solid MS-based medium with 5 mg per liter benzylaminopurine, 0.2 mg per liter indole acetic acid and 10 mg per liter ascorbic acid (PM8 medium) for 2 days in the dark. Subsequently, scalps were transferred onto 25 ml aliquots of semi-solid PM8 medium and incubated in the dark for 1 week prior to incubation in the light. Shoot regeneration from 5 - 48 percent of cryopreserved scalps of all the banana cvs., was observed only following preculture with 0.4 or 0.5 M glucose or fructose, and with 0.4 M trehalose for the cvs. Pisang Berangan and Pisang Awak. Preculture with 0.4 M glucose resulted in maximum shoot regeneration of cryopreserved scalps of 10 percent, 13 percent, 42 percent and 48 percent for the cvs. Pisang Mas, Pisang Nangka, Pisang Berangan and Pisang Awak, respectively. Concentrations of 0.5 M trehalose, or 0.4 and 0.5 M sucrose or mannitol were extremely toxic to scalps of all the cvs. investigated.

  15. Trailing Edge Noise Prediction Based on a New Acoustic Formulation

    NASA Technical Reports Server (NTRS)

    Casper, J.; Farassat, F.

    2002-01-01

    A new analytic result in acoustics called 'Formulation 1B,' proposed by Farassat, is used to compute broadband trailing edge noise from an unsteady surface pressure distribution on a thin airfoil in the time domain. This formulation is a new solution of the Ffowcs Williams-Hawkings equation with the loading source term, and has been shown in previous research to provide time domain predictions of broadband noise that are in excellent agreement with experiment. Furthermore, this formulation lends itself readily to rotating reference frames and statistical analysis of broadband trailing edge noise. Formulation 1B is used to calculate the far field noise radiated from the trailing edge of a NACA 0012 airfoil in low Mach number flows, using both analytical and experimental data on the airfoil surface. The results are compared to analytical results and experimental measurements that are available in the literature. Good agreement between predictions and measurements is obtained.

  16. Feature Fusion Based SVM Classifier for Protein Subcellular Localization Prediction.

    PubMed

    Rahman, Julia; Mondal, Md Nazrul Islam; Islam, Md Khaled Ben; Hasan, Md Al Mehedi

    2016-12-18

    For the importance of protein subcellular localization in different branches of life science and drug discovery, researchers have focused their attentions on protein subcellular localization prediction. Effective representation of features from protein sequences plays a most vital role in protein subcellular localization prediction specially in case of machine learning techniques. Single feature representation-like pseudo amino acid composition (PseAAC), physiochemical property models (PPM), and amino acid index distribution (AAID) contains insufficient information from protein sequences. To deal with such problems, we have proposed two feature fusion representations, AAIDPAAC and PPMPAAC, to work with Support Vector Machine classifiers, which fused PseAAC with PPM and AAID accordingly. We have evaluated the performance for both single and fused feature representation of a Gram-negative bacterial dataset. We have got at least 3% more actual accuracy by AAIDPAAC and 2% more locative accuracy by PPMPAAC than single feature representation.

  17. Isolation and characterization of nucleotide-binding site and C-terminal leucine-rich repeat-resistance gene candidates in bananas.

    PubMed

    Lu, Y; Xu, W H; Xie, Y X; Zhang, X; Pu, J J; Qi, Y X; Li, H P

    2011-12-15

    Commercial banana varieties are highly susceptible to fungal pathogens, as well as bacterial pathogens, nematodes, viruses, and insect pests. The largest known family of plant resistance genes encodes proteins with nucleotide-binding site (NBS) and C-terminal leucine-rich repeat (LRR) domains. Conserved motifs in such genes in diverse plant species offer a means for the isolation of candidate genes in banana that may be involved in plant defense. Six degenerate PCR primers were designed to target NBS and additional domains were tested on commercial banana species Musa acuminata subsp malaccensis and the Musa AAB Group propagated in vitro and plants maintained in a greenhouse. Total DNA was isolated by a modified CTAB extraction technique. Four resistance gene analogs were amplified and deposited in GenBank and assigned numbers HQ199833-HQ199836. The predicted amino acid sequences compared to the amino acid sequences of known resistance genes (MRGL1, MRGL2, MRGL3, and MRGL4) revealed significant sequence similarity. The presence of consensus domains, namely kinase-1a, kinase-2 and hydrophobic domain, provided evidence that the cloned sequences belong to the typical non-Toll/interleukin-1 receptor-like domain NBS-LRR gene family.

  18. Folded isometric deformations and banana-shaped seedpod.

    PubMed

    Couturier, Etienne

    2016-08-01

    Thin vegetal shells have recently been a significant source of inspiration for the design of smart materials and soft actuators. Herein is presented a novel analytical family of isometric deformations with a family of θ-folds crossing a family of parallel z-folds; it contains the isometric deformations of a banana-shaped surface inspired by a seedpod, which converts a vertical closing into either an horizontal closing or an opening depending on the location of the fold. Similarly to the seedpod, optimum shapes for opening ease are the most elongated ones.

  19. Folded isometric deformations and banana-shaped seedpod

    NASA Astrophysics Data System (ADS)

    Couturier, Etienne

    2016-08-01

    Thin vegetal shells have recently been a significant source of inspiration for the design of smart materials and soft actuators. Herein is presented a novel analytical family of isometric deformations with a family of θ-folds crossing a family of parallel z-folds; it contains the isometric deformations of a banana-shaped surface inspired by a seedpod, which converts a vertical closing into either an horizontal closing or an opening depending on the location of the fold. Similarly to the seedpod, optimum shapes for opening ease are the most elongated ones.

  20. Water use efficiency of a banana plantation in a screenhouse

    NASA Astrophysics Data System (ADS)

    Tanny, J.; Dicken, U.; Grava, A.; Cohen, S.

    2009-04-01

    Shading banana and other orchard crops with screens is becoming increasingly popular in arid and semi-arid regions due to the resulting decreased water use and increased fruit quality. This study focused on measurements of water vapor and CO2 fluxes in a large commercial flat-roof banana screenhouse in northern Israel whose dimensions were 300 m long, 200 m wide and 6 m high. Measurements were conducted using an eddy covariance system deployed on a pole near the center of the screenhouse, allowing a minimum fetch of 100 m in all wind directions. The system measured the three air velocity components, air sonic temperature, air humidity and CO2 concentration. Measurements were conducted during 21 days between July 7th (DOY 189) and August 17th 2007 (DOY 230). During this period the banana plants grew from 2.8 to 4.6 m height and leaf area index increased from 0.5 to 1.8. Additional measurements of net radiation and soil heat flux enabled the analysis of energy balance closure. Energy balance closure analysis gave the regression line Y = 0.85X - 0.5 (R2 = 0.84) where Y represents the consumed energy (latent plus sensible heat fluxes) and X represents the available energy (net radiation minus soil heat flux). This result (slope close to unity) validates the measured evapotranspiration (latent heat flux). Farmer's irrigation increased during the measurement period due to both plant growth and climate variation. Daily evapotranspiration of the plantation increased from 1.7 to 3.2 mm of water during the measurement period. Daily water consumption was on average 70% of the applied irrigation, suggesting that the plantation was over-irrigated. The water use efficiency (WUE) was defined as the total daily mass of CO2 consumed by the plantation per unit mass of water used. Results show that WUE generally increased during the measurement period, implying that larger banana plants were more efficient in using the available water than smaller plants.

  1. Nematicidal effects of oxamyl applied to leaves of banana seedlings.

    PubMed

    Gowen, S R

    1977-04-01

    Foliar applications of oxamyl prevented nematodes from invading roots of diploid bananas. One spray with 1,250 microg/ml was more effective than 1, 2, or 3 sprays with 625 microg/ml applied at 5-day intervals. After 3 sprays with 1,250 microg/ml, invasion may be prevented for up to 4 weeks and possibly longer. Washing roots after oxamyl treatments prevented nematicidal control. When applied to nematode-infected plants, three sprays of oxamyl decreased nematode populations in the roots.

  2. Development of the Microstructure Based Stochastic Life Prediction Model

    DTIC Science & Technology

    1993-08-01

    the formulation of preliminary life prediction models[l]. In the microstruc - 3 tural characterization part of the program we have concentrated on the...microstructural models may be needed to describe behavior during different stages of fatigue life3 and intend to integrate them using Markov chain approach. -- B...precipitate phases present in the studied alloy the obtained diffraction patterns were compared with those found in the literature on 7075 and 7050 alloys. The

  3. Respiratory Pattern Variability Analysis Based on Nonlinear Prediction Methods

    DTIC Science & Technology

    2007-11-02

    Brobely. All-night sleep EEG and artificial stochastic control signals have similar correlation dimensions . Electroencephalogr. Clin. Neurophisiol...methods. These methods use the volume signals generated by the respiratory system in order to construct a model of its dynamics, and then to estimate the...definition have been considered. The incidence of different prediction depths and embedding dimensions have been analyzed. A group of 12 patients on

  4. Predicting solar radiation based on available weather indicators

    NASA Astrophysics Data System (ADS)

    Sauer, Frank Joseph

    Solar radiation prediction models are complex and require software that is not available for the household investor. The processing power within a normal desktop or laptop computer is sufficient to calculate similar models. This barrier to entry for the average consumer can be fixed by a model simple enough to be calculated by hand if necessary. Solar radiation modeling has been historically difficult to predict and accurate models have significant assumptions and restrictions on their use. Previous methods have been limited to linear relationships, location restrictions, or input data limits to one atmospheric condition. This research takes a novel approach by combining two techniques within the computational limits of a household computer; Clustering and Hidden Markov Models (HMMs). Clustering helps limit the large observation space which restricts the use of HMMs. Instead of using continuous data, and requiring significantly increased computations, the cluster can be used as a qualitative descriptor of each observation. HMMs incorporate a level of uncertainty and take into account the indirect relationship between meteorological indicators and solar radiation. This reduces the complexity of the model enough to be simply understood and accessible to the average household investor. The solar radiation is considered to be an unobservable state that each household will be unable to measure. The high temperature and the sky coverage are already available through the local or preferred source of weather information. By using the next day's prediction for high temperature and sky coverage, the model groups the data and then predicts the most likely range of radiation. This model uses simple techniques and calculations to give a broad estimate for the solar radiation when no other universal model exists for the average household.

  5. Development of the Microstructure Based Stochastic Life Prediction Models

    DTIC Science & Technology

    1991-06-27

    initiation of the work on the characterization of the 7050 alloys and development of the image analysis software. This progress report gives account for...project. Dr. ’ hang will be additionally working of the development of the image analysis software and on the life prediction models. Dr. Przystupa...the implementation of the tessellation programs I1 ], texture analysis and on the development of the image analysis system. Page 2 Equipment The image

  6. Analyzing Log Files to Predict Students' Problem Solving Performance in a Computer-Based Physics Tutor

    ERIC Educational Resources Information Center

    Lee, Young-Jin

    2015-01-01

    This study investigates whether information saved in the log files of a computer-based tutor can be used to predict the problem solving performance of students. The log files of a computer-based physics tutoring environment called Andes Physics Tutor was analyzed to build a logistic regression model that predicted success and failure of students'…

  7. A CBR-Based and MAHP-Based Customer Value Prediction Model for New Product Development

    PubMed Central

    Zhao, Yu-Jie; Luo, Xin-xing; Deng, Li

    2014-01-01

    In the fierce market environment, the enterprise which wants to meet customer needs and boost its market profit and share must focus on the new product development. To overcome the limitations of previous research, Chan et al. proposed a dynamic decision support system to predict the customer lifetime value (CLV) for new product development. However, to better meet the customer needs, there are still some deficiencies in their model, so this study proposes a CBR-based and MAHP-based customer value prediction model for a new product (C&M-CVPM). CBR (case based reasoning) can reduce experts' workload and evaluation time, while MAHP (multiplicative analytic hierarchy process) can use actual but average influencing factor's effectiveness in stimulation, and at same time C&M-CVPM uses dynamic customers' transition probability which is more close to reality. This study not only introduces the realization of CBR and MAHP, but also elaborates C&M-CVPM's three main modules. The application of the proposed model is illustrated and confirmed to be sensible and convincing through a stimulation experiment. PMID:25162050

  8. A CBR-based and MAHP-based customer value prediction model for new product development.

    PubMed

    Zhao, Yu-Jie; Luo, Xin-xing; Deng, Li

    2014-01-01

    In the fierce market environment, the enterprise which wants to meet customer needs and boost its market profit and share must focus on the new product development. To overcome the limitations of previous research, Chan et al. proposed a dynamic decision support system to predict the customer lifetime value (CLV) for new product development. However, to better meet the customer needs, there are still some deficiencies in their model, so this study proposes a CBR-based and MAHP-based customer value prediction model for a new product (C&M-CVPM). CBR (case based reasoning) can reduce experts' workload and evaluation time, while MAHP (multiplicative analytic hierarchy process) can use actual but average influencing factor's effectiveness in stimulation, and at same time C&M-CVPM uses dynamic customers' transition probability which is more close to reality. This study not only introduces the realization of CBR and MAHP, but also elaborates C&M-CVPM's three main modules. The application of the proposed model is illustrated and confirmed to be sensible and convincing through a stimulation experiment.

  9. Comparative Genomics of the Sigatoka Disease Complex on Banana Suggests a Link between Parallel Evolutionary Changes in Pseudocercospora fijiensis and Pseudocercospora eumusae and Increased Virulence on the Banana Host

    PubMed Central

    Chang, Ti-Cheng; Crous, Pedro W.; Stergiopoulos, Ioannis

    2016-01-01

    The Sigatoka disease complex, caused by the closely-related Dothideomycete fungi Pseudocercospora musae (yellow sigatoka), Pseudocercospora eumusae (eumusae leaf spot), and Pseudocercospora fijiensis (black sigatoka), is currently the most devastating disease on banana worldwide. The three species emerged on bananas from a recent common ancestor and show clear differences in virulence, with P. eumusae and P. fijiensis considered the most aggressive. In order to understand the genomic modifications associated with shifts in the species virulence spectra after speciation, and to identify their pathogenic core that can be exploited in disease management programs, we have sequenced and analyzed the genomes of P. eumusae and P. musae and compared them with the available genome sequence of P. fijiensis. Comparative analysis of genome architectures revealed significant differences in genome size, mainly due to different rates of LTR retrotransposon proliferation. Still, gene counts remained relatively equal and in the range of other Dothideomycetes. Phylogenetic reconstruction based on a set of 46 conserved single-copy genes strongly supported an earlier evolutionary radiation of P. fijiensis from P. musae and P. eumusae. However, pairwise analyses of gene content indicated that the more virulent P. eumusae and P. fijiensis share complementary patterns of expansions and contractions in core gene families related to metabolism and enzymatic degradation of plant cell walls, suggesting that the evolution of virulence in these two pathogens has, to some extent, been facilitated by convergent changes in metabolic pathways associated with nutrient acquisition and assimilation. In spite of their common ancestry and shared host-specificity, the three species retain fairly dissimilar repertoires of effector proteins, suggesting that they likely evolved different strategies for manipulating the host immune system. Finally, 234 gene families, including seven putative effectors, were

  10. Quality evaluation of dissolving pulp fabricated from banana plant stem and its potential for biorefinery.

    PubMed

    Das, Atanu Kumar; Nakagawa-Izumi, Akiko; Ohi, Hiroshi

    2016-08-20

    The study was conducted to evaluate the quality of dissolving pulp of Musa sapientum L. (banana) plant stem and its potential for biorefinery. Introduction of pre-hydrolysis prior to any alkaline pulping process helps to reduce the content of hemicellulose and consequently produce acceptably high content of cellulose pulp. Water pre-hydrolysis was done at 150°C for 90min. The amount of lignin, xylan and glucan in the extracted pre-hydrolysis liquor (PHL) was 1.6, 4.9 and 1.6%, respectively. Pulping of pre-extracted chips was done following soda-AQ, alkaline sulfite and kraft process. The ratio of chip to liquor was 1:7 for both pre-hydrolysis and pulping. The kraft pulping process with 20% active alkali and 25% sulfidity at 150°C for 90min showed the best result. The lowest kappa number was 26.2 with a considerable pulp yield of 32.7%. The pulp was bleached by acidic NaClO2 and the consistency was 10% based on air-dried pulp. The lowest amount of 7% NaClO2 was used for the bleaching sequence of D0ED1ED2. After D0ED1ED2 bleaching, the pulp showed that α-cellulose, brightness and ash were 91.9, 77.9 and 1.6% respectively. The viscosity was 19.9cP. Hence, there is a possibility to use banana plant stem as a raw material for dissolving grade pulp and other bioproducts.

  11. Transcriptional Profiling of Banana Shrimp Fenneropenaeus merguiensis with Differing Levels of Viral Load.

    PubMed

    Powell, Daniel; Knibb, Wayne; Nguyen, Nguyen Hong; Elizur, Abigail

    2016-12-01

    Viral pathogens are of serious concern to the culture of penaeid shrimps worldwide. However, little is known about the molecular response of shrimp to viral infection. Selective breeding has been suggested as an effective long-term strategy to manage viral disease, though more information on gene function is needed to help inform breeding programs. The study of cultured banana shrimp (Fenneropenaeus merguiensis) infected with hepatopancreatic parvo-like virus (HPV) provides a unique opportunity to explore the host response to viral infection independent of challenge testing. To gain insight into the genetic mechanisms underlying resistance to high levels of HPV, we examined hepatopancreas tissue from six full-sib groups of banana shrimp with differing levels of HPV infection for differences in gene expression. A total of 404 differentially expressed genes were identified with 180 being over-expressed and 224 under-expressed among high-HPV full-sib groups. Based on homology analysis, a large proportion of these genes were associated with processes reported to be involved in the immune response of crustaceans, including pattern recognition proteins, antimicrobial peptides, components of the prophenoloxidase system, and antiviral activity. The results indicate shrimp from high-HPV full-sib groups appear to have a lower presence of important immune response elements, yet possess upregulated putative antiviral pathways. Within the differentially expressed genes, over 4000 sequence variants were identified to be exclusive to either the high- or low-HPV full-sib groups. To our knowledge, this is the first report of differential expression analysis using RNA-Seq to explore differences in viral load among high- and low-HPV full-sib groups of cultured shrimp. This research has provided additional insight into our understanding of the mechanisms involved in the response of this shrimp species to a naturally occurring viral pathogen. Sequence variants identified in this study

  12. Lipophilic extracts from banana fruit residues: a source of valuable phytosterols.

    PubMed

    Oliveira, Lúcia; Freire, Carmen S R; Silvestre, Armando J D; Cordeiro, Nereida

    2008-10-22

    The chemical composition of the lipophilic extracts of unripe pulp and peel of banana fruit 'Dwarf Cavendish' was studied by gas chromatography-mass spectrometry. Fatty acids, sterols, and steryl esters are the major families of lipophilic components present in banana tissues, followed by diacylglycerols, steryl glucosides, long chain fatty alcohols, and aromatic compounds. Fatty acids are more abundant in the banana pulp (29-90% of the total amount of lipophilic extract), with linoleic, linolenic, and oleic acids as the major compounds of this family. In banana peel, sterols represent about 49-71% of the lipophilic extract with two triterpenic ketones (31-norcyclolaudenone and cycloeucalenone) as the major components. The detection of high amounts of steryl esters (469-24405 mg/kg) and diacylglycerols (119-878 mg/kg), mainly present in the banana peel extract, explains the increase in the abundance of fatty acids and sterols after alkaline hydrolysis. Several steryl glucosides were also found in significative amounts (273-888 mg/kg), particularly in banana pulp (888 mg/kg). The high content of sterols (and their derivatives) in the 'Dwarf Cavendish' fruit can open new strategies for the valorization of the banana residues as a potential source of high-value phytochemicals with nutraceutical and functional food additive applications.

  13. Study on oil absorbency of succinic anhydride modified banana cellulose in ionic liquid.

    PubMed

    Shang, Wenting; Sheng, Zhanwu; Shen, Yixiao; Ai, Binling; Zheng, Lili; Yang, Jingsong; Xu, Zhimin

    2016-05-05

    Banana cellulose contained number of hydrophilic hydroxyl groups which were succinylated to be hydrophobic groups with high oil affinity. Succinic anhydride was used to modify banana cellulose in 1-allyl-3-methylimidazolium chloride ionic liquid in this study. The modified banana cellulose had a high oil absorption capacity. The effects of reaction time, temperature, and molar ratio of succinic anhydride to anhydroglucose on the degree of substitution of modified banana cellulose were evaluated. The optimal reaction condition was at a ratio of succinic anhydride and anhydroglucose 6:1 (m:m), reaction time 60min and temperature 90°C. The maximum degree of acylation reaction reached to 0.37. The characterization analysis of the modified banana cellulose was performed using X-ray diffractometer, Fourier transform infrared spectrometer, scanning electron microscopy and thermogravimetry. The oil absorption capacity and kinetics of the modified banana cellulose were evaluated at the modified cellulose dose (0.025-0.3g), initial oil amount (5-30g), and temperature (15-35°C) conditions. The maximum oil absorption capacity was 32.12g/g at the condition of the cellulose dose (0.05g), initial oil amount (25g) and temperature (15°C). The kinetics of oil absorption of the cellulose followed a pseudo-second-order model. The results of this study demonstrated that the modified banana cellulose could be used as an efficient bio-sorbent for oil adsorption.

  14. Involvement of a banana MADS-box transcription factor gene in ethylene-induced fruit ripening.

    PubMed

    Liu, Juhua; Xu, Biyu; Hu, Lifang; Li, Meiying; Su, Wei; Wu, Jing; Yang, Jinghao; Jin, Zhiqiang

    2009-01-01

    To investigate the regulation of MADS-box genes in banana (Musa acuminata L. AAA group cv. Brazilian) fruit development and postharvest ripening, we isolated from banana fruit a MADS-box gene designated MuMADS1. Amino acid alignment indicated MuMADS1 belongs to the AGAMOUS subfamily, and phylogenetic analysis indicates that this gene is most similar to class D MADS-box genes. Reverse transcriptase-polymerase chain reaction (RT-PCR) analysis showed that MuMADS1 is expressed in the stamen and pistil of male and female flowers and in the rhizome, the vegetative reproductive organ of the banana plant. In preharvest banana fruit, MuMADS1 is likely expressed throughout banana fruit development. In postharvest banana ripening, MuMADS1 is associated with ethylene biosynthesis. Expression patterns of MuMADS1 during postharvest ripening as determined by real-time RT-PCR suggest that differential expression of MuMADS1 may not only be induced by ethylene biosynthesis associated with postharvest banana ripening, but also may be induced by exogenous ethylene.

  15. Effect of the degree of substitution of octenyl succinic anhydride-banana starch on emulsion stability.

    PubMed

    Bello-Pérez, Luis A; Bello-Flores, Christopher A; Nuñez-Santiago, María del Carmen; Coronel-Aguilera, Claudia P; Alvarez-Ramirez, J

    2015-11-05

    Banana starch was esterified with octenylsuccinic anhydride (OSA) at different degree substitution (DS) and used to stabilize emulsions. Morphology, emulsion stability, emulsification index, rheological properties and particle size distribution of the emulsions were tested. Emulsions dyed with Solvent Red 26 showed affinity for the oil phase. Backscattering light showed three regions in the emulsion where the emulsified region was present. Starch concentration had higher effect in the emulsification index (EI) than the DS used in the study because similar values were found with OSA-banana and native starches. However, OSA-banana presented greater stability of the emulsified region. Rheological tests in emulsions with OSA-banana showed G'>G" values and low dependence of G' with the frequency, indicating a dominant elastic response to shear. When emulsions were prepared under high-pressure conditions, the emulsions with OSA-banana starch with different DS showed a bimodal distribution of particle size. The emulsion with OSA-banana starch and the low DS showed similar mean droplet diameter than its native counterpart. In contrast, the highest DS led to the highest mean droplet diameter. It is concluded that OSA-banana starch with DS can be used to stabilize specific emulsion types.

  16. Link prediction based on temporal similarity metrics using continuous action set learning automata

    NASA Astrophysics Data System (ADS)

    Moradabadi, Behnaz; Meybodi, Mohammad Reza

    2016-10-01

    Link prediction is a social network research area that tries to predict future links using network structure. The main approaches in this area are based on predicting future links using network structure at a specific period, without considering the links behavior through different periods. For example, a common traditional approach in link prediction calculates a chosen similarity metric for each non-connected link and outputs the links with higher similarity scores as the prediction result. In this paper, we propose a new link prediction method based on temporal similarity metrics and Continuous Action set Learning Automata (CALA). The proposed method takes advantage of using different similarity metrics as well as different time periods. In the proposed algorithm, we try to model the link prediction problem as a noisy optimization problem and use a team of CALAs to solve the noisy optimization problem. CALA is a reinforcement based optimization tool which tries to learn the optimal behavior from the environment feedbacks. To determine the importance of different periods and similarity metrics on the prediction result, we define a coefficient for each of different periods and similarity metrics and use a CALA for each coefficient. Each CALA tries to learn the true value of the corresponding coefficient. Final link prediction is obtained from a combination of different similarity metrics in different times based on the obtained coefficients. The link prediction results reported here show satisfactory of the proposed method for some social network data sets.

  17. Crystal structure at 1.45-A resolution of the major allergen endo-beta-1,3-glucanase of banana as a molecular basis for the latex-fruit syndrome.

    PubMed

    Receveur-Bréchot, Véronique; Czjzek, Mirjam; Barre, Annick; Roussel, Alain; Peumans, Willy J; Van Damme, Els J M; Rougé, Pierre

    2006-04-01

    Resolution of the crystal structure of the banana fruit endo-beta-1,3-glucanase by synchrotron X-ray diffraction at 1.45-A resolution revealed that the enzyme possesses the eightfold beta/alpha architecture typical for family 17 glycoside hydrolases. The electronegatively charged catalytic central cleft harbors the two glutamate residues (Glu94 and Glu236) acting as hydrogen donor and nucleophile residue, respectively. Modeling using a beta-1,3 linked glucan trisaccharide as a substrate confirmed that the enzyme readily accommodates a beta-1,3-glycosidic linkage in the slightly curved catalytic groove between the glucose units in positions -2 and -1 because of the particular orientation of residue Tyr33 delimiting subsite -2. The location of Phe177 in the proximity of subsite +1 suggested that the banana glucanase might also cleave beta-1,6-branched glucans. Enzymatic assays using pustulan as a substrate demonstrated that the banana glucanase can also cleave beta-1,6-glucans as was predicted from docking experiments. Similar to many other plant endo-beta-1,3-glucanases, the banana glucanase exhibits allergenic properties because of the occurrence of well-conserved IgE-binding epitopes on the surface of the enzyme. These epitopes might trigger some cross-reactions toward IgE antibodies and thus account for the IgE-binding cross-reactivity frequently reported in patients with the latex-fruit syndrome.

  18. Prediction of Stock Returns Based on Cross-Sectional Multivariable Model

    NASA Astrophysics Data System (ADS)

    Yamada, Shinya; Takahashi, Shinsuke; Funabashi, Motohisa

    A new prediction method of stock returns was constructed from a cross-sectional multivariable model where explanatory variables are current financial indexes and an explained variable is a future stock return. To achieve precise prediction, explanatory variables were appropriately selected over time based on various test statistics and optimization of a performance index of expected portfolio return. A long-short portfolio, in which stocks with high predicted return were bought and stocks with low predicted return were sold short, was constructed to evaluate the proposed method. The simulation test showed that the proposed prediction method was effective to achieve high portfolio performance.

  19. Predicting bicycle setup for children based on anthropometrics and comfort.

    PubMed

    Grainger, Karl; Dodson, Zoe; Korff, Thomas

    2017-03-01

    Bicycling is a popular activity for children. In order for children to enjoy cycling and to minimize injury, it is important that they are positioned appropriately on the bicycle. The purpose of this study was therefore to identify a suitable bicycle setup for children aged between 7 and 16 years which accommodates developmental differences in anthropometrics, flexibility and perceptions of comfort. Using an adjustable bicycle fitting rig, we found the most comfortable position of 142 children aged 7 to 16. In addition, a number of anthropometric measures were recorded. Seat height and the horizontal distance between seat and handlebars were strongly predictable (R(2) > 0.999, p < 0.001 and R(2) = 0.649, p < 0.001 respectively), whilst the predictability of the vertical distance between seat and handlebars was weaker (R(2) = 0.231, p < 0.001). These results have practical implications for children and parents, paediatric researchers and clinicians as well as bicycle manufacturers.

  20. Structure-Based Predictive model for Coal Char Combustion.

    SciTech Connect

    Hurt, R.; Colo, J; Essenhigh, R.; Hadad, C; Stanley, E.

    1997-09-24

    During the third quarter of this project, progress was made on both major technical tasks. Progress was made in the chemistry department at OSU on the calculation of thermodynamic properties for a number of model organic compounds. Modelling work was carried out at Brown to adapt a thermodynamic model of carbonaceous mesophase formation, originally applied to pitch carbonization, to the prediction of coke texture in coal combustion. This latter work makes use of the FG-DVC model of coal pyrolysis developed by Advanced Fuel Research to specify the pool of aromatic clusters that participate in the order/disorder transition. This modelling approach shows promise for the mechanistic prediction of the rank dependence of char structure and will therefore be pursued further. Crystalline ordering phenomena were also observed in a model char prepared from phenol-formaldehyde carbonized at 900{degrees}C and 1300{degrees}C using high-resolution TEM fringe imaging. Dramatic changes occur in the structure between 900 and 1300{degrees}C, making this char a suitable candidate for upcoming in situ work on the hot stage TEM. Work also proceeded on molecular dynamics simulations at Boston University and on equipment modification and testing for the combustion experiments with widely varying flame types at Ohio State.

  1. Role for the banana AGAMOUS-like gene MaMADS7 in regulation of fruit ripening and quality.

    PubMed

    Liu, Juhua; Liu, Lin; Li, Yujia; Jia, Caihong; Zhang, Jianbin; Miao, Hongxia; Hu, Wei; Wang, Zhuo; Xu, Biyu; Jin, Zhiqiang

    2015-11-01

    MADS-box transcription factors play important roles in organ development. In plants, most studies on MADS-box genes have mainly focused on flower development and only a few concerned fruit development and ripening. A new MADS-box gene named MaMADS7 was isolated from banana fruit by rapid amplification of cDNA ends (RACE) based on a MADS-box fragment obtained from a banana suppression subtractive hybridization (SSH) cDNA library. MaMADS7 is an AGAMOUS-like MADS-box gene that is preferentially expressed in the ovaries and fruits and in tobacco its protein product localizes to the nucleus. This study found that MaMADS7 expression can be induced by exogenous ethylene. Ectopic expression of MaMADS7 in tomato resulted in broad ripening phenotypes. The expression levels of seven ripening and quality-related genes, ACO1, ACS2, E4, E8, PG, CNR and PSY1 in MaMADS7 transgenic tomato fruits were greatly increased while the expression of the AG-like MADS-box gene TAGL1 was suppressed. Compared with the control, the contents of β-carotene, lycopene, ascorbic acid and organic acid in transformed tomato fruits were increased, while the contents of glucose and fructose were slightly decreased. MaMADS7 interacted with banana 1-aminocyclopropane-1-carboxylic acid (ACC) oxidase gene 1 (MaACO1) and tomato phytoene synthase gene (LePSY1) promoters. Our results indicated that MaMADS7 plays an important role in initiating endogenous ethylene biosynthesis and fruit ripening.

  2. Evidence-based gene predictions in plant genomes

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Automated evidence-based gene building is a rapid and cost-effective way to provide reliable gene annotations on newly sequenced genomes. One of the limitations of evidence-based gene builders, however, is their requirement for gene expression evidence—known proteins, full-length cDNAs, or expressed...

  3. Impact Resistance Behaviour of Banana Fiber Reinforced Slabs

    NASA Astrophysics Data System (ADS)

    Che Muda, Zakaria; Syamsir, Agusril; Nasharuddin Mustapha, Kamal; Rifdy Samsudin, Muhamad; Thiruchelvam, Sivadass; Usman, Fathoni; Beddu, Salmia; Liyana Mohd Kamal, Nur; Ashraful Alam, Md; Birima, Ahmed H.; Zaroog, O. S.

    2016-03-01

    This paper investigate the performance of banana fibre reinforced slabs 300mm × 300mm size with varied thickness subjected to low impact projectile test. A self-fabricated drop-weight impact test rig with a steel ball weight of 1.25 kg drop at 1 m height has been used in this research work. The main variables for the study is to find the relationship of the impact resistance against the BF contents and slab thickness. A linear relationship has been established between first and ultimate crack resistance against BF contents and slab thickness by the experiment. The linear relationship has also been established between the service (first) crack and ultimate crack resistance against the BF contents for a constant spacing for various banana fibre reinforced slab thickness. The increment in BF content has more effect on the first crack resistance than the ultimate crack resistance. The linear relationship has also been established between the service (first) crack and ultimate crack resistance against the various slab thickness. Overall 1.5% BF content with slab thickness of 40 mm exhibit better first and ultimate crack resistance up to 16 times and up to 17 times respectively against control slab (without BF)

  4. Unusual events involved in Banana bunchy top virus strain evolution.

    PubMed

    Fu, Hui-Chuan; Hu, Jer-Ming; Hung, Ting-Hsuan; Su, Hong-Ji; Yeh, Hsin-Hung

    2009-07-01

    Banana bunchy top virus (BBTV) can be transmitted by aphids and consists of at least six integral components (DNA-R, -U3, -S, -M, -C, and -N). Several additional replication-competent components (additional Reps) are associated with some BBTV isolates. A collected BBTV strain (TW3) that causes mild symptoms was selected to study the processes in BBTV evolution. Southern blot hybridization, polymerase chain reaction (PCR), and real-time PCR did not detect DNA-N in TW3. Real-time PCR quantification of BBTV components revealed that, except for the copy number of TW3 DNA-U3, each detected integral component of BBTV TW3 was at least two orders lower than that of the severe strains. No infection was observed in plants inoculated with aphids, which were first given acquisition access to the TW3-infected banana leaves. Recombination analysis revealed recombination between the integral component TW3 DNA-U3 and the additional Rep DNA-Y. All BBTV integral components contain a replication initiation region (stem-loop common region) that share high sequence identity. Sequence alignment revealed that TW3 DNA-R, -S, -M, and -C all have a stem-loop common region containing a characteristic 9-nucleotide deletion found only in all reported DNA-N. Our data suggest that the additional Rep DNAs can serve as sources of additional genetic diversity for integral BBTV components.

  5. An optimized item-based collaborative filtering recommendation algorithm based on item genre prediction

    NASA Astrophysics Data System (ADS)

    Zhang, De-Jia

    2009-07-01

    With the fast development of Internet, many systems have emerged in e-commerce applications to support the product recommendation. Collaborative filtering is one of the most promising techniques in recommender systems, providing personalized recommendations to users based on their previously expressed preferences in the form of ratings and those of other similar users. In practice, with the adding of user and item scales, user-item ratings are becoming extremely sparsity and recommender systems utilizing traditional collaborative filtering are facing serious challenges. To address the issue, this paper presents an approach to compute item genre similarity, through mapping each item with a corresponding descriptive genre, and computing similarity between genres as similarity, then make basic predictions according to those similarities to lower sparsity of the user-item ratings. After that, item-based collaborative filtering steps are taken to generate predictions. Compared with previous methods, the presented collaborative filtering employs the item genre similarity can alleviate the sparsity issue in the recommender systems, and can improve accuracy of recommendation.

  6. Chemical composition and physicochemical properties of green banana (Musa acuminata x balbisiana Colla cv. Awak) flour.

    PubMed

    Haslinda, W H; Cheng, L H; Chong, L C; Noor Aziah, A A

    2009-01-01

    Flour was prepared from peeled and unpeeled banana Awak ABB. Samples prepared were subjected to analysis for determination of chemical composition, mineral, dietary fibre, starch and total phenolics content, antioxidant activity and pasting properties. In general, flour prepared from unpeeled banana was found to show enhanced nutrition values with higher contents of mineral, dietary fibre and total phenolics. Hence, flour fortified with peel showed relatively higher antioxidant activity. On the other hand, better pasting properties were shown when banana flour was blended with peel. It was found that a relatively lower pasting temperature, peak viscosity, breakdown, final viscosity and setback were evident in a sample blended with peel.

  7. Chlorophyll breakdown as seen in bananas: sign of aging and ripening--a mini-review.

    PubMed

    Müller, Thomas; Kräutler, Bernhard

    2011-01-01

    The ripening of bananas is seen by a characteristic change of their color from deep green to bright yellow. Likewise, their over-ripening and eventual rotting are accompanied by the appearance of an unappetizing brown. Chlorophyll breakdown is a major contributor to the visual signs of these processes in bananas. Outlined here are the basic structures of chlorophyll catabolites in higher plants, with particular reference to ripening and aging bananas. In these fruits, unique fluorescent chlorophyll catabolites accumulate and give rise to their fascinating blue luminescence.

  8. Ontology-based tools to expedite predictive model construction.

    PubMed

    Haug, Peter; Holmen, John; Wu, Xinzi; Mynam, Kumar; Ebert, Matthew; Ferraro, Jeffrey

    2014-01-01

    Large amounts of medical data are collected electronically during the course of caring for patients using modern medical information systems. This data presents an opportunity to develop clinically useful tools through data mining and observational research studies. However, the work necessary to make sense of this data and to integrate it into a research initiative can require substantial effort from medical experts as well as from experts in medical terminology, data extraction, and data analysis. This slows the process of medical research. To reduce the effort required for the construction of computable, diagnostic predictive models, we have developed a system that hybridizes a medical ontology with a large clinical data warehouse. Here we describe components of this system designed to automate the development of preliminary diagnostic models and to provide visual clues that can assist the researcher in planning for further analysis of the data behind these models.

  9. Correlation-based tracking using tunable training and Kalman prediction

    NASA Astrophysics Data System (ADS)

    Ontiveros-Gallardo, Sergio E.; Kober, Vitaly

    2016-09-01

    Tracking solves the problem of detecting and estimating the future target state in an input video sequence. In this work, an adaptive tracking algorithm by means of multiple object detections in reduced frame areas with a tunable bank of correlation filters is proposed. Prediction of the target state is carried out with the Kalman filtering. It helps us to estimate the target state, to reduce the search area in the next frame, and to solve the occlusion problem. The bank of composite filters is updated frame by frame with tolerance to different recent viewpoint and scale changes of the target. The performance of the proposed algorithm with the help of computer simulation is evaluated in terms of detection and location errors.

  10. Predicting drug response and toxicity based on gene polymorphisms.

    PubMed

    Robert, Jacques; Morvan, Valérie Le; Smith, Denis; Pourquier, Philippe; Bonnet, Jacques

    2005-06-01

    The sequencing of the human genome has allowed the identification of thousands of gene polymorphisms, most often single nucleotide polymorphims (SNP), which may play an important role in the expression level and activity of the corresponding proteins. When these polymorphisms occur at the level of drug metabolising enzymes or transporters, the disposition of the drug may be altered and, consequently, its efficacy may be compromised or its toxicity enhanced. Polymorphisms can also occur at the level of proteins directly involved in drug action, either when the protein is the target of the drug or when the protein is involved in the repair of drug-induced lesions. There again, these polymorphisms may lead to alterations in drug efficacy and/or toxicity. The identification of functional polymorphisms in patients undergoing chemotherapy may help the clinician prescribe the optimal drug combination or schedule and predict with more accuracy the response to these prescriptions. We have recorded in this review the polymorphisms that have been identified up till now in genes involved in anticancer drug activity. Some of them appear especially important in predicting drug toxicity and should be determined in routine before drug administration; this is the case of the most common variations of thiopurine methyltransferase for 6-mercaptopurine and of dihydropyrimidine dehydrogenase for fluorouracil. Other appear determinant for drug response, such as the common SNPs found in glutathione S-transferase P1 or xereoderma pigmentosum group D enzyme for the activity of oxaliplatin. However, confusion factors may exist between the role of gene polymorphisms in cancer risk or overall prognosis and their role in drug response.

  11. Sequential expectations: the role of prediction-based learning in language.

    PubMed

    Misyak, Jennifer B; Christiansen, Morten H; Bruce Tomblin, J

    2010-01-01

    Prediction-based processes appear to play an important role in language. Few studies, however, have sought to test the relationship within individuals between prediction learning and natural language processing. This paper builds upon existing statistical learning work using a novel paradigm for studying the on-line learning of predictive dependencies. Within this paradigm, a new "prediction task" is introduced that provides a sensitive index of individual differences for developing probabilistic sequential expectations. Across three interrelated experiments, the prediction task and results thereof are used to bridge knowledge of the empirical relation between statistical learning and language within the context of nonadjacency processing. We first chart the trajectory for learning nonadjacencies, documenting individual differences in prediction learning. Subsequent simple recurrent network simulations then closely capture human performance patterns in the new paradigm. Finally, individual differences in prediction performances are shown to strongly correlate with participants' sentence processing of complex, long-distance dependencies in natural language.

  12. Microcellular propagation prediction model based on an improved ray tracing algorithm.

    PubMed

    Liu, Z-Y; Guo, L-X; Fan, T-Q

    2013-11-01

    Two-dimensional (2D)/two-and-one-half-dimensional ray tracing (RT) algorithms for the use of the uniform theory of diffraction and geometrical optics are widely used for channel prediction in urban microcellular environments because of their high efficiency and reliable prediction accuracy. In this study, an improved RT algorithm based on the "orientation face set" concept and on the improved 2D polar sweep algorithm is proposed. The goal is to accelerate point-to-point prediction, thereby making RT prediction attractive and convenient. In addition, the use of threshold control of each ray path and the handling of visible grid points for reflection and diffraction sources are adopted, resulting in an improved efficiency of coverage prediction over large areas. Measured results and computed predictions are also compared for urban scenarios. The results indicate that the proposed prediction model works well and is a useful tool for microcellular communication applications.

  13. Long-term Satellite Clock Bias Prediction Based on ARMA Model

    NASA Astrophysics Data System (ADS)

    Xi, C.; Cai, C. L.; Li, S. M.; Li, X. H.; Li, Z. B.; Deng, K. Q.

    2014-01-01

    The long-term and reliable prediction of satellite clock bias (SCB) is a key to implement the satellite autonomous navigation and orbit determination. Considering the shortcomings of the quadratic polynomial model (PM) and graysystem model (GM) in predicting the long-term SCB, a new prediction method of SCB that based on the ARMA (Auto-Regressive Moving Average) model is proposed to predict SCB, and show its property clearer. In this paper, a careful precision analysis of the 90-day SCB prediction is made to verify the feasibility and validity of this proposed method by using the IGS (International GNSS Service) clock data. According to the various changes of each satellite clock, the pattern recognition, modeling, and predicting are conducted, and the detailed comparison is made with the other three models at the same time. The results show that the ARMA model is reliable and valid to predict the long-term SCB.

  14. Machine learning-based methods for prediction of linear B-cell epitopes.

    PubMed

    Wang, Hsin-Wei; Pai, Tun-Wen

    2014-01-01

    B-cell epitope prediction facilitates immunologists in designing peptide-based vaccine, diagnostic test, disease prevention, treatment, and antibody production. In comparison with T-cell epitope prediction, the performance of variable length B-cell epitope prediction is still yet to be satisfied. Fortunately, due to increasingly available verified epitope databases, bioinformaticians could adopt machine learning-based algorithms on all curated data to design an improved prediction tool for biomedical researchers. Here, we have reviewed related epitope prediction papers, especially those for linear B-cell epitope prediction. It should be noticed that a combination of selected propensity scales and statistics of epitope residues with machine learning-based tools formulated a general way for constructing linear B-cell epitope prediction systems. It is also observed from most of the comparison results that the kernel method of support vector machine (SVM) classifier outperformed other machine learning-based approaches. Hence, in this chapter, except reviewing recently published papers, we have introduced the fundamentals of B-cell epitope and SVM techniques. In addition, an example of linear B-cell prediction system based on physicochemical features and amino acid combinations is illustrated in details.

  15. A comprehensive propagation prediction model comprising microfacet based scattering and probability based coverage optimization algorithm.

    PubMed

    Kausar, A S M Zahid; Reza, Ahmed Wasif; Wo, Lau Chun; Ramiah, Harikrishnan

    2014-01-01

    Although ray tracing based propagation prediction models are popular for indoor radio wave propagation characterization, most of them do not provide an integrated approach for achieving the goal of optimum coverage, which is a key part in designing wireless network. In this paper, an accelerated technique of three-dimensional ray tracing is presented, where rough surface scattering is included for making a more accurate ray tracing technique. Here, the rough surface scattering is represented by microfacets, for which it becomes possible to compute the scattering field in all possible directions. New optimization techniques, like dual quadrant skipping (DQS) and closest object finder (COF), are implemented for fast characterization of wireless communications and making the ray tracing technique more efficient. In conjunction with the ray tracing technique, probability based coverage optimization algorithm is accumulated with the ray tracing technique to make a compact solution for indoor propagation prediction. The proposed technique decreases the ray tracing time by omitting the unnecessary objects for ray tracing using the DQS technique and by decreasing the ray-object intersection time using the COF technique. On the other hand, the coverage optimization algorithm is based on probability theory, which finds out the minimum number of transmitters and their corresponding positions in order to achieve optimal indoor wireless coverage. Both of the space and time complexities of the proposed algorithm surpass the existing algorithms. For the verification of the proposed ray tracing technique and coverage algorithm, detailed simulation results for different scattering factors, different antenna types, and different operating frequencies are presented. Furthermore, the proposed technique is verified by the experimental results.

  16. Gender dimorphism of a visual anomaly: a deductive prediction based on an ethological model.

    PubMed

    Mackey, W C; Johnson, J W

    1994-06-01

    Using an ethological model, we deduced a prediction concerning gender dimorphism in a visual anomaly from a re-construction of the phylogeny of man. The prediction, which is based on four premises, is that deficits in distance vision (myopia) would be more prevalent in contemporaneous women than in men. Data collected in a de facto double-blind method support the prediction, and thereby support the unique efficacy in using an ethological model to understand facets of the contemporary human condition.

  17. Study on tunnel settlement prediction method based on parallel grey neural network model

    NASA Astrophysics Data System (ADS)

    Zhu, Lei; Huang, Teng; Shen, Yue-qian; Zeng, Xian-min

    2015-12-01

    In this paper, according to the characteristics of the grey forecast method and the neural network, constructed the parallel grey neural network model(PGNN) and apply to forecast a tunnel monitoring point's settlement displacement data based on Nanjing metro. The results showed that the prediction accuracy of PGNN is significantly higher than that of unitary grey and neural forecast method. proves that the effectiveness of PGNN in the tunnel settlement prediction. Keywords: Tunnel settlement, grey model, neural network model, prediction

  18. Structure-Based Predictive model for Coal Char Combustion.

    SciTech Connect

    Hurt, R.; Calo, J.; Essenhigh, R.; Hadad, C.; Stanley, E.

    1997-06-25

    During the second quarter of this project, progress was made on both major technical tasks. Three parallel efforts were initiated on the modeling of carbon structural evolution. Structural ordering during carbonization was studied by a numerical simulation scheme proposed by Alan Kerstein involving molecular weight growth and rotational mobility. Work was also initiated to adapt a model of carbonaceous mesophase formation, originally developed under parallel NSF funding, to the prediction of coke texture. This latter work makes use of the FG-DVC model of coal pyrolysis developed by Advanced Fuel Research to specify the pool of aromatic clusters that participate in the order/disorder transition. Boston University has initiated molecular dynamics simulations of carbonization processes and Ohio State has begun theoretical treatment of surface reactions. Experimental work has also begun on model compound studies at Brown and on pilot-scale combustion systems with widely varying flame types at OSE. The work on mobility / growth models shows great promise and is discussed in detail in the body of the report.

  19. Predicting dispersal distance in mammals: a trait-based approach.

    PubMed

    Whitmee, Sarah; Orme, C David L

    2013-01-01

    Dispersal is one of the principal mechanisms influencing ecological and evolutionary processes but quantitative empirical data are unfortunately scarce. As dispersal is likely to influence population responses to climate change, whether by adaptation or by migration, there is an urgent need to obtain estimates of dispersal distance. Cross-species correlative approaches identifying predictors of dispersal distance can provide much-needed insights into this data-scarce area. Here, we describe the compilation of a new data set of natal dispersal distances and use it to test life-history predictors of dispersal distance in mammals and examine the strength of the phylogenetic signal in dispersal distance. We find that both maximum and median dispersal distances have strong phylogenetic signals. No single model performs best in describing either maximum or median dispersal distances when phylogeny is taken into account but many models show high explanatory power, suggesting that dispersal distance per generation can be estimated for mammals with comparatively little data availability. Home range area, geographic range size and body mass are identified as the most important terms across models. Cross-validation of models supports the ability of these variables to predict dispersal distances, suggesting that models may be extended to species where dispersal distance is unknown.

  20. High-throughput detection of banana bunchy top virus in banana plants and aphids using real-time TaqMan(®) PCR.

    PubMed

    Chen, Yan; Hu, Xiaoping

    2013-10-01

    Banana bunchy top virus (BBTV) is the causal agent of banana bunchy top disease. Current diagnostic methods for BBTV are laborious and prone to generate false-negative results. A simple, reliable, and high-throughput method for detecting BBTV in plants and aphids has been developed, which involves tissues disruption from banana plants and viruliferous aphids followed by real-time TaqMan(®) PCR. Extraction of BBTV single-stranded DNA using this method is simple and less prone to contamination than using the CTAB (hexadecyltrimethylammonium bromide) method. The high throughput TaqMan(®) PCR system was highly sensitive, detecting as few as 2.76 copies of BBTV genomic DNA or 1.0 ng-1.0mg of infected banana leaves. The entire assay could be completed within 2h. Regression analysis showed that the quantitative results of TaqMan(®) PCR and copies of the virus have good correlation for plasmids (R(2)=0.966) and for infected leaves (R(2)=0.979). The method developed in this study can quantify BBTV in aphids and plants, even before the appearance of symptoms of banana bunchy top disease.

  1. Banana Ovate Family Protein MaOFP1 and MADS-Box Protein MuMADS1 Antagonistically Regulated Banana Fruit Ripening

    PubMed Central

    Hu, Wei; Miao, Hongxia; Zhang, Jianbin; Jia, Caihong; Wang, Zhuo; Xu, Biyu; Jin, Zhiqiang

    2015-01-01

    The ovate family protein named MaOFP1 was identified in banana (Musa acuminata L.AAA) fruit by a yeast two-hybrid (Y2H) method using the banana MADS-box gene MuMADS1 as bait and a 2 day postharvest (DPH) banana fruit cDNA library as prey. The interaction between MuMADS1 and MaOFP1 was further confirmed by Y2H and Bimolecular Fluorescence Complementation (BiFC) methods, which showed that the MuMADS1 K domain interacted with MaOFP1. Real-time quantitative PCR evaluation of MuMADS1 and MaOFP1 expression patterns in banana showed that they are highly expressed in 0 DPH fruit, but present in low levels in the stem, which suggests that simultaneous but different expression patterns exist for both MuMADS1 and MaOFP1 in different tissues and developing fruits. Meanwhile, MuMADS1 and MaOFP1 expression was highly stimulated and greatly suppressed, respectively, by exogenous ethylene. In contrast, MaOFP1 expression was highly stimulated while MuMADS1 was greatly suppressed by the ethylene competitor 1-methylcyclopropene (1-MCP). These results indicate that MuMADS1 and MaOFP1 are antagonistically regulated by ethylene and might play important roles in postharvest banana fruit ripening. PMID:25886169

  2. A High Performance Cloud-Based Protein-Ligand Docking Prediction Algorithm

    PubMed Central

    Chen, Jui-Le; Yang, Chu-Sing

    2013-01-01

    The potential of predicting druggability for a particular disease by integrating biological and computer science technologies has witnessed success in recent years. Although the computer science technologies can be used to reduce the costs of the pharmaceutical research, the computation time of the structure-based protein-ligand docking prediction is still unsatisfied until now. Hence, in this paper, a novel docking prediction algorithm, named fast cloud-based protein-ligand docking prediction algorithm (FCPLDPA), is presented to accelerate the docking prediction algorithm. The proposed algorithm works by leveraging two high-performance operators: (1) the novel migration (information exchange) operator is designed specially for cloud-based environments to reduce the computation time; (2) the efficient operator is aimed at filtering out the worst search directions. Our simulation results illustrate that the proposed method outperforms the other docking algorithms compared in this paper in terms of both the computation time and the quality of the end result. PMID:23762864

  3. Protein Function Prediction using Text-based Features extracted from the Biomedical Literature: The CAFA Challenge

    PubMed Central

    2013-01-01

    Background Advances in sequencing technology over the past decade have resulted in an abundance of sequenced proteins whose function is yet unknown. As such, computational systems that can automatically predict and annotate protein function are in demand. Most computational systems use features derived from protein sequence or protein structure to predict function. In an earlier work, we demonstrated the utility of biomedical literature as a source of text features for predicting protein subcellular location. We have also shown that the combination of text-based and sequence-based prediction improves the performance of location predictors. Following up on this work, for the Critical Assessment of Function Annotations (CAFA) Challenge, we developed a text-based system that aims to predict molecular function and biological process (using Gene Ontology terms) for unannotated proteins. In this paper, we present the preliminary work and evaluation that we performed for our system, as part of the CAFA challenge. Results We have developed a preliminary system that represents proteins using text-based features and predicts protein function using a k-nearest neighbour classifier (Text-KNN). We selected text features for our classifier by extracting key terms from biomedical abstracts based on their statistical properties. The system was trained and tested using 5-fold cross-validation over a dataset of 36,536 proteins. System performance was measured using the standard measures of precision, recall, F-measure and overall accuracy. The performance of our system was compared to two baseline classifiers: one that assigns function based solely on the prior distribution of protein function (Base-Prior) and one that assigns function based on sequence similarity (Base-Seq). The overall prediction accuracy of Text-KNN, Base-Prior, and Base-Seq for molecular function classes are 62%, 43%, and 58% while the overall accuracy for biological process classes are 17%, 11%, and 28

  4. Protein-protein interactions prediction based on iterative clique extension with gene ontology filtering.

    PubMed

    Yang, Lei; Tang, Xianglong

    2014-01-01

    Cliques (maximal complete subnets) in protein-protein interaction (PPI) network are an important resource used to analyze protein complexes and functional modules. Clique-based methods of predicting PPI complement the data defection from biological experiments. However, clique-based predicting methods only depend on the topology of network. The false-positive and false-negative interactions in a network usually interfere with prediction. Therefore, we propose a method combining clique-based method of prediction and gene ontology (GO) annotations to overcome the shortcoming and improve the accuracy of predictions. According to different GO correcting rules, we generate two predicted interaction sets which guarantee the quality and quantity of predicted protein interactions. The proposed method is applied to the PPI network from the Database of Interacting Proteins (DIP) and most of the predicted interactions are verified by another biological database, BioGRID. The predicted protein interactions are appended to the original protein network, which leads to clique extension and shows the significance of biological meaning.

  5. Multi-Sensor Based State Prediction for Personal Mobility Vehicles

    PubMed Central

    Gupta, Pankaj; Umata, Ichiro; Watanabe, Atsushi; Even, Jani; Suyama, Takayuki; Ishii, Shin

    2016-01-01

    This paper presents a study on multi-modal human emotional state detection while riding a powered wheelchair (PMV; Personal Mobility Vehicle) in an indoor labyrinth-like environment. The study reports findings on the habituation of human stress response during self-driving. In addition, the effects of “loss of controllability”, change in the role of the driver to a passenger, are investigated via an autonomous driving modality. The multi-modal emotional state detector sensing framework consists of four sensing devices: electroencephalograph (EEG), heart inter-beat interval (IBI), galvanic skin response (GSR) and stressor level lever (in the case of autonomous riding). Physiological emotional state measurement characteristics are organized by time-scale, in terms of capturing slower changes (long-term) and quicker changes from moment-to-moment. Experimental results with fifteen participants regarding subjective emotional state reports and commercial software measurements validated the proposed emotional state detector. Short-term GSR and heart signal characterizations captured moment-to-moment emotional state during autonomous riding (Spearman correlation; ρ = 0.6, p < 0.001). Short-term GSR and EEG characterizations reliably captured moment-to-moment emotional state during self-driving (Classification accuracy; 69.7). Finally, long-term GSR and heart characterizations were confirmed to reliably capture slow changes during autonomous riding and also of emotional state during participant resting state. The purpose of this study and the exploration of various algorithms and sensors in a structured framework is to provide a comprehensive background for multi-modal emotional state prediction experiments and/or applications. Additional discussion regarding the feasibility and utility of the possibilities of these concepts are given. PMID:27732589

  6. Predicting Proficiency on Statewide Assessments: A Comparison of Curriculum-Based Measures in Middle School

    ERIC Educational Resources Information Center

    Stevenson, Nathan A.

    2015-01-01

    A key tool in multitiered systems of support is the use of curriculum-based measures to predict which students are at risk for academic failure. However, there are few studies that examine which measures are most suitable for students in middle school. The authors examine the reliability of predicting outcomes on state assessments for 3 commonly…

  7. Predictive Validity of Curriculum-Based Measures for English Learners at Varying English Proficiency Levels

    ERIC Educational Resources Information Center

    Kim, Jennifer Sun; Vanderwood, Michael L.; Lee, Catherine Y.

    2016-01-01

    This study examined the predictive validity of curriculum-based measures in reading for Spanish-speaking English learners (ELs) at various levels of English proficiency. Third-grade Spanish-speaking EL students were screened during the fall using DIBELS Oral Reading Fluency (DORF) and Daze. Predictive validity was examined in relation to spring…

  8. Finite Element Based HWB Centerbody Structural Optimization and Weight Prediction

    NASA Technical Reports Server (NTRS)

    Gern, Frank H.

    2012-01-01

    This paper describes a scalable structural model suitable for Hybrid Wing Body (HWB) centerbody analysis and optimization. The geometry of the centerbody and primary wing structure is based on a Vehicle Sketch Pad (VSP) surface model of the aircraft and a FLOPS compatible parameterization of the centerbody. Structural analysis, optimization, and weight calculation are based on a Nastran finite element model of the primary HWB structural components, featuring centerbody, mid section, and outboard wing. Different centerbody designs like single bay or multi-bay options are analyzed and weight calculations are compared to current FLOPS results. For proper structural sizing and weight estimation, internal pressure and maneuver flight loads are applied. Results are presented for aerodynamic loads, deformations, and centerbody weight.

  9. SCALABLE FUSED LASSO SVM FOR CONNECTOME-BASED DISEASE PREDICTION

    PubMed Central

    Watanabe, Takanori; Scott, Clayton D.; Kessler, Daniel; Angstadt, Michael; Sripada, Chandra S.

    2015-01-01

    There is substantial interest in developing machine-based methods that reliably distinguish patients from healthy controls using high dimensional correlation maps known as functional connectomes (FC's) generated from resting state fMRI. To address the dimensionality of FC's, the current body of work relies on feature selection techniques that are blind to the spatial structure of the data. In this paper, we propose to use the fused Lasso regularized support vector machine to explicitly account for the 6-D structure of the FC (defined by pairs of points in 3-D brain space). In order to solve the resulting nonsmooth and large-scale optimization problem, we introduce a novel and scalable algorithm based on the alternating direction method. Experiments on real resting state scans show that our approach can recover results that are more neuroscientifically informative than previous methods. PMID:25892971

  10. Chemical control of the red palm mite, Raoiella indica (Acari: Tenuipalpidae) in banana and coconut.

    PubMed

    Rodrigues, Jose Carlos Verle; Peña, J E

    2012-08-01

    The red palm mite (RPM), Raoiella indica Hirst, is a predominant pest of coconuts, date palms and other palm species, as well as a major pest of bananas (Musa spp.) in different parts of the world. Recently, RPM dispersed throughout the Caribbean islands and has reached both the North and South American continents. The RPM introductions have caused severe damage to palm species, and bananas and plantains in the Caribbean region. The work presented herein is the result of several acaricide trials conducted in Puerto Rico and Florida on palms and bananas in order to provide chemical control alternatives to minimize the impact of this pest. Spiromesifen, dicofol and acequinocyl were effective in reducing the population of R. indica in coconut in Puerto Rico. Spray treatments with etoxanole, abamectin, pyridaben, milbemectin and sulfur showed mite control in Florida. In addition, the acaricides acequinocyl and spiromesifen were able to reduce the population of R. indica in banana trials.

  11. Discrete Dynamical Systems Meet the Classic Monkey-and-the-Bananas Problem.

    ERIC Educational Resources Information Center

    Gannon, Gerald E.; Martelli, Mario U.

    2001-01-01

    Presents a solution of the three-sailors-and-the-bananas problem and attempts a generalization. Introduces an interesting way of looking at the mathematics with an idea drawn from discrete dynamical systems. (KHR)

  12. Changes in resistant starch from two banana cultivars during postharvest storage.

    PubMed

    Wang, Juan; Tang, Xue Juan; Chen, Ping Sheng; Huang, Hui Hua

    2014-08-01

    Banana resistant starch samples were extracted and isolated from two banana cultivars (Musa AAA group, Cavendish subgroup and Musa ABB group, Pisang Awak subgroup) at seven ripening stages during postharvest storage. The structures of the resistant starch samples were analysed by light microscopy, polarising microscopy, scanning electron microscopy, X-ray diffraction, and infrared spectroscopy. Physicochemical properties (e.g., water-holding capacity, solubility, swelling power, transparency, starch-iodine absorption spectrum, and Brabender microviscoamylograph profile) were determined. The results revealed significant differences in microstructure and physicochemical characteristics among the banana resistant starch samples during different ripening stages. The results of this study provide valuable information for the potential applications of banana resistant starches.

  13. A simple diffraction experiment using banana stem as a natural grating

    NASA Astrophysics Data System (ADS)

    Prasetya Aji, Mahardika; Karunawan, Jotti; Rochimatun Chasanah, Widyastuti; Iman Nursuhud, Puji; Ajeng Wiguna, Pradita; Sulhadi

    2017-03-01

    A simple diffraction experiment was designed using banana stem as natural grating. Coherent beams of lasers with wavelengths of 632.8 nm and 532 nm that pass through banana stem produce periodic diffraction patterns on a screen. The diffraction experiments were able to measure the distances between the slit of the banana stem, i.e. d=≤ft(28.76+/- 0.295\\right)× {{10}-6} \\text{m} for a laser with a wavelength of 632.8 nm and d=≤ft(26.62+/- 0.002\\right)× {{10}-6} \\text{m} for a wavelength of 532 nm. Therefore, banana stem could be used as an easily obtained and low cost grating for diffraction experiments.

  14. STRUCTURE-BASED PREDICTIVE MODEL FOR COAL CHAR COMBUSTION

    SciTech Connect

    CHRISTOPHER M. HADAD; JOSEPH M. CALO; ROBERT H. ESSENHIGH; ROBERT H. HURT

    1998-06-04

    During the past quarter of this project, significant progress continued was made on both major technical tasks. Progress was made at OSU on advancing the application of computational chemistry to oxidative attack on model polyaromatic hydrocarbons (PAHs) and graphitic structures. This work is directed at the application of quantitative ab initio molecular orbital theory to address the decomposition products and mechanisms of coal char reactivity. Previously, it was shown that the �hybrid� B3LYP method can be used to provide quantitative information concerning the stability of the corresponding radicals that arise by hydrogen atom abstraction from monocyclic aromatic rings. In the most recent quarter, these approaches have been extended to larger carbocyclic ring systems, such as coronene, in order to compare the properties of a large carbonaceous PAH to that of the smaller, monocyclic aromatic systems. It was concluded that, at least for bond dissociation energy considerations, the properties of the large PAHs can be modeled reasonably well by smaller systems. In addition to the preceding work, investigations were initiated on the interaction of selected radicals in the �radical pool� with the different types of aromatic structures. In particular, the different pathways for addition vs. abstraction to benzene and furan by H and OH radicals were examined. Thus far, the addition channel appears to be significantly favored over abstraction on both kinetic and thermochemical grounds. Experimental work at Brown University in support of the development of predictive structural models of coal char combustion was focused on elucidating the role of coal mineral matter impurities on reactivity. An �inverse� approach was used where a carbon material was doped with coal mineral matter. The carbon material was derived from a high carbon content fly ash (Fly Ash 23 from the Salem Basin Power Plant. The ash was obtained from Pittsburgh #8 coal (PSOC 1451). Doped

  15. Biology, etiology, and control of virus diseases of banana and plantain.

    PubMed

    Kumar, P Lava; Selvarajan, Ramasamy; Iskra-Caruana, Marie-Line; Chabannes, Matthieu; Hanna, Rachid

    2015-01-01

    Banana and plantain (Musa spp.), produced in 10.3 million ha in the tropics, are among the world's top 10 food crops. They are vegetatively propagated using suckers or tissue culture plants and grown almost as perennial plantations. These are prone to the accumulation of pests and pathogens, especially viruses which contribute to yield reduction and are also barriers to the international exchange of germplasm. The most economically important viruses of banana and plantain are Banana bunchy top virus (BBTV), a complex of banana streak viruses (BSVs) and Banana bract mosaic virus (BBrMV). BBTV is known to cause the most serious economic losses in the "Old World," contributing to a yield reduction of up to 100% and responsible for a dramatic reduction in cropping area. The BSVs exist as episomal and endogenous forms are known to be worldwide in distribution. In India and the Philippines, BBrMV is known to be economically important but recently the virus was discovered in Colombia and Costa Rica, thus signaling its spread into the "New World." Banana and plantain are also known to be susceptible to five other viruses of minor significance, such as Abaca mosaic virus, Abaca bunchy top virus, Banana mild mosaic virus, Banana virus X, and Cucumber mosaic virus. Studies over the past 100 years have contributed to important knowledge on disease biology, distribution, and spread. Research during the last 25 years have led to a better understanding of the virus-vector-host interactions, virus diversity, disease etiology, and epidemiology. In addition, new diagnostic tools were developed which were used for surveillance and the certification of planting material. Due to a lack of durable host resistance in the Musa spp., phytosanitary measures and the use of virus-free planting material are the major methods of virus control. The state of knowledge on BBTV, BBrMV, and BSVs, and other minor viruses, disease spread, and control are summarized in this review.

  16. Banana NAC transcription factor MusaNAC042 is positively associated with drought and salinity tolerance.

    PubMed

    Tak, Himanshu; Negi, Sanjana; Ganapathi, T R

    2017-03-01

    Banana is an important fruit crop and its yield is hampered by multiple abiotic stress conditions encountered during its growth. The NAC (NAM, ATAF, and CUC) transcription factors are involved in plant response to biotic and abiotic stresses. In the present study, we studied the induction of banana NAC042 transcription factor in drought and high salinity conditions and its overexpression in transgenic banana to improve drought and salinity tolerance. MusaNAC042 expression was positively associated with stress conditions like salinity and drought and it encoded a nuclear localized protein. Transgenic lines of banana cultivar Rasthali overexpressing MusaNAC042 were generated by Agrobacterium-mediated transformation of banana embryogenic cells and T-DNA insertion was confirmed by PCR and Southern blot analysis. Our results using leaf disc assay indicated that transgenic banana lines were able to tolerate drought and high salinity stress better than the control plants and retained higher level of total chlorophyll and lower level of MDA content (malondialdehyde). Transgenic lines analyzed for salinity (250 mM NaCl) and drought (Soil gravimetric water content 0.15) tolerance showed higher proline content, better Fv/Fm ratio, and lower levels of MDA content than control suggesting that MusaNAC042 may be involved in responses to higher salinity and drought stresses in banana. Expression of several abiotic stress-related genes like those coding for CBF/DREB, LEA, and WRKY factors was altered in transgenic lines indicating that MusaNAC042 is an efficient modulator of abiotic stress response in banana.

  17. STRUCTURE BASED PREDICTIVE MODEL FOR COAL CHAR COMBUSTION

    SciTech Connect

    Robert Hurt; Joseph Calo; Robert Essenhigh; Christopher Hadad

    2001-06-15

    This report is part on the ongoing effort at Brown University and Ohio State University to develop structure based models of coal combustion. A very fundamental approach is taken to the description of coal chars and their reaction processes, and the results are therefore expected to have broad applicability to the spectrum of carbon materials of interest in energy technologies. This quarter, the project was in a period no-cost extension and discussions were held about the end phase of the project and possible continuations. The technical tasks were essentially dormant this period, but presentations of results were made, and plans were formulated for renewed activity in the fiscal year 2001.

  18. Classification and predictions of RNA pseudoknots based on topological invariants

    NASA Astrophysics Data System (ADS)

    Vernizzi, Graziano; Orland, Henri; Zee, A.

    2016-10-01

    We propose a new topological characterization of ribonucleic acid (RNA) secondary structures with pseudoknots based on two topological invariants. Starting from the classic arc representation of RNA secondary structures, we consider a model that couples both (i) the topological genus of the graph and (ii) the number of crossing arcs of the corresponding primitive graph. We add a term proportional to these topological invariants to the standard free energy of the RNA molecule, thus obtaining a novel free-energy parametrization that takes into account the abundance of topologies of RNA pseudoknots observed in RNA databases.

  19. Statistical validation of event predictors: A comparative study based on the field of seizure prediction

    SciTech Connect

    Feldwisch-Drentrup, Hinnerk; Schulze-Bonhage, Andreas; Timmer, Jens; Schelter, Bjoern

    2011-06-15

    The prediction of events is of substantial interest in many research areas. To evaluate the performance of prediction methods, the statistical validation of these methods is of utmost importance. Here, we compare an analytical validation method to numerical approaches that are based on Monte Carlo simulations. The comparison is performed in the field of the prediction of epileptic seizures. In contrast to the analytical validation method, we found that for numerical validation methods insufficient but realistic sample sizes can lead to invalid high rates of false positive conclusions. Hence we outline necessary preconditions for sound statistical tests on above chance predictions.

  20. Fatigue Life Prediction of Ductile Iron Based on DE-SVM Algorithm

    NASA Astrophysics Data System (ADS)

    Yiqun, Ma; Xiaoping, Wang; lun, An

    the model, predicting fatigue life of ductile iron, based on SVM (Support Vector Machine, SVM) has been established. For it is easy to fall into local optimum during parameter optimization of SVM, DE (Differential Evolution algorithm, DE) algorithm was adopted to optimize to improve prediction precision. Fatigue life of ductile iron is predicted combining with concrete examples, and simulation experiment to optimize SVM is conducted adopting GA (Genetic Algorithm), ACO (Ant Colony Optimization) and POS (Partial Swarm Optimization). Results reveal that DE-SVM algorithm is of a better prediction performance.

  1. Anti-ulcerogenic effect of banana powder (Musa sapientum var. paradisiaca) and its effect on mucosal resistance.

    PubMed

    Goel, R K; Gupta, S; Shankar, R; Sanyal, A K

    1986-10-01

    Orally administered banana pulp powder (Musa sapientum var. paradisiaca) was shown to have significant anti-ulcerogenic activity in rats subjected to aspirin, indomethacin, phenylbutazone, prednisolone and cysteamine and in guinea-pigs subjected to histamine. Banana powder not only increased mucosal thickness but also significantly increased [3H]thymidine incorporation into mucosal DNA. Relative to untreated control sections, histological studies showed that banana treatment increased staining by alcian blue in the apical cells with staining noted in the deeper layers of the mucosal glands. Banana-treated and control sections were also stained for DNA by the Feulgen reaction. The banana-treated sections showed a greater aggregation and intensity of pink spots when compared to controls. The present study suggests that banana powder treatment not only strengthens mucosal resistance against ulcerogens but also promotes healing by inducing cellular proliferation.

  2. Episodic memories predict adaptive value-based decision-making.

    PubMed

    Murty, Vishnu P; FeldmanHall, Oriel; Hunter, Lindsay E; Phelps, Elizabeth A; Davachi, Lila

    2016-05-01

    Prior research illustrates that memory can guide value-based decision-making. For example, previous work has implicated both working memory and procedural memory (i.e., reinforcement learning) in guiding choice. However, other types of memories, such as episodic memory, may also influence decision-making. Here we test the role for episodic memory-specifically item versus associative memory-in supporting value-based choice. Participants completed a task where they first learned the value associated with trial unique lotteries. After a short delay, they completed a decision-making task where they could choose to reengage with previously encountered lotteries, or new never before seen lotteries. Finally, participants completed a surprise memory test for the lotteries and their associated values. Results indicate that participants chose to reengage more often with lotteries that resulted in high versus low rewards. Critically, participants not only formed detailed, associative memories for the reward values coupled with individual lotteries, but also exhibited adaptive decision-making only when they had intact associative memory. We further found that the relationship between adaptive choice and associative memory generalized to more complex, ecologically valid choice behavior, such as social decision-making. However, individuals more strongly encode experiences of social violations-such as being treated unfairly, suggesting a bias for how individuals form associative memories within social contexts. Together, these findings provide an important integration of episodic memory and decision-making literatures to better understand key mechanisms supporting adaptive behavior.

  3. Factor analysis and predictive validity of microcomputer-based tests

    NASA Technical Reports Server (NTRS)

    Kennedy, R. S.; Baltzley, D. R.; Turnage, J. J.; Jones, M. B.

    1989-01-01

    11 tests were selected from two microcomputer-based performance test batteries because previously these tests exhibited rapid stability (less than 10 min, of practice) and high retest reliability efficiencies (r greater than 0.707 for each 3 min. of testing). The battery was administered three times to each of 108 college students (48 men and 60 women) and a factor analysis was performed. Two of the three identified factors appear to be related to information processing ("encoding" and "throughput/decoding"), and the third named an "output/speed" factor. The spatial, memory, and verbal tests loaded on the "encoding" factor and included Grammatical Reasoning, Pattern Comparison, Continuous Recall, and Matrix Rotation. The "throughput/decoding" tests included perceptual/numerical tests like Math Processing, Code Substitution, and Pattern Comparison. The output speed factor was identified by Tapping and Reaction Time tests. The Wonderlic Personnel Test was group administered before the first and after the last administration of the performance tests. The multiple Rs in the total sample between combined Wonderlic as a criterion and less than 5 min. of microcomputer testing on Grammatical Reasoning and Math Processing as predictors ranged between 0.41 and 0.52 on the three test administrations. Based on these results, the authors recommend a core battery which, if time permits, would consist of two tests from each factor. Such a battery is now known to permit stable, reliable, and efficient assessment.

  4. Trust from the past: Bayesian Personalized Ranking based Link Prediction in Knowledge Graphs

    SciTech Connect

    Zhang, Baichuan; Choudhury, Sutanay; Al-Hasan, Mohammad; Ning, Xia; Agarwal, Khushbu; Purohit, Sumit; Pesantez, Paola

    2016-02-01

    Estimating the confidence for a link is a critical task for Knowledge Graph construction. Link prediction, or predicting the likelihood of a link in a knowledge graph based on prior state is a key research direction within this area. We propose a Latent Feature Embedding based link recommendation model for prediction task and utilize Bayesian Personalized Ranking based optimization technique for learning models for each predicate. Experimental results on large-scale knowledge bases such as YAGO2 show that our approach achieves substantially higher performance than several state-of-art approaches. Furthermore, we also study the performance of the link prediction algorithm in terms of topological properties of the Knowledge Graph and present a linear regression model to reason about its expected level of accuracy.

  5. Characterization of banana (Musa spp.) plantation wastes as a potential renewable energy source

    NASA Astrophysics Data System (ADS)

    Abdullah, Nurhayati; Sulaiman, Fauziah; Taib, Rahmad Mohd

    2013-05-01

    Agricultural residue such as banana waste is one of the biomass categories that can be used for conversion to bio-char, bio-oil, and gases by using thermochemical process. The aim of this work is to characterize banana leaves and pseudo-stem through proximate analysis, elemental analysis, chemical analysis, thermo-gravimetric analysis, and heating calorific value. The ash contents of the banana leaves and pseudo-stem are 7.5 mf wt.% and 11.0 mf wt.%, while the carbon content of banana leaf and pseudo-stem are 42.4 mf wt.% and 37.9 mf wt.%, respectively. The measured heating value of banana leaf and pseudo-stem are 17.7MJ/kg and 15.5MJ/kg, respectively. By chemical analysis, the lignin, cellulose, and hemicellulose contents in the samples will also be presented. The potential of the banana wastes to be a feedstock for thermochemical process in comparison with other biomass will be discussed in this paper.

  6. Fluorescent chlorophyll catabolites in bananas light up blue halos of cell death.

    PubMed

    Moser, Simone; Müller, Thomas; Holzinger, Andreas; Lütz, Cornelius; Jockusch, Steffen; Turro, Nicholas J; Kräutler, Bernhard

    2009-09-15

    Breakdown of chlorophyll is a major contributor to the diagnostic color changes in fall leaves, and in ripening apples and pears, where it commonly provides colorless, nonfluorescent tetrapyrroles. In contrast, in ripening bananas (Musa acuminata) chlorophylls fade to give unique fluorescent catabolites (FCCs), causing yellow bananas to glow blue, when observed under UV light. Here, we demonstrate the capacity of the blue fluorescent chlorophyll catabolites to signal symptoms of programmed cell death in a plant. We report on studies of bright blue luminescent rings on the peel of very ripe bananas, which arise as halos around necrotic areas in 'senescence associated' dark spots. These dark spots appear naturally on the peel of ripe bananas and occur in the vicinity of stomata. Wavelength, space, and time resolved fluorescence measurements allowed the luminescent areas to be monitored on whole bananas. Our studies revealed an accumulation of FCCs in luminescent rings, within senescing cells undergoing the transition to dead tissue, as was observable by morphological textural cellular changes. FCCs typically are short lived intermediates of chlorophyll breakdown. In some plants, FCCs are uniquely persistent, as is seen in bananas, and can thus be used as luminescent in vivo markers in tissue undergoing senescence. While FCCs still remain to be tested for their own hypothetical physiological role in plants, they may help fill the demand for specific endogenous molecular reporters in noninvasive assays of plant senescence. Thus, they allow for in vivo studies, which provide insights into critical stages preceding cell death.

  7. Continous application of bioorganic fertilizer induced resilient culturable bacteria community associated with banana Fusarium wilt suppression.

    PubMed

    Fu, Lin; Ruan, Yunze; Tao, Chengyuan; Li, Rong; Shen, Qirong

    2016-06-16

    Fusarium wilt of banana always drives farmers to find new land for banana cultivation due to the comeback of the disease after a few cropping years. A novel idea for solving this problem is the continuous application of bioorganic fertilizer (BIO), which should be practiced from the beginning of banana planting. In this study, BIO was applied in newly reclaimed fields to pre-control banana Fusarium wilt and the culturable rhizobacteria community were evaluated using Biolog Ecoplates and culture-dependent denaturing gradient gel electrophoresis (CD-DGGE). The results showed that BIO application significantly reduced disease incidences and increased crop yields, respectivly. And the stabilized general bacterial metabolic potential, especially for the utilization of carbohydrates, carboxylic acids and phenolic compounds, was induced by BIO application. DGGE profiles demonstrated that resilient community structure of culturable rhizobacteria with higher richness and diversity were observed in BIO treated soils. Morever, enriched culturable bacteria affiliated with Firmicutes, Gammaproteobacteria and Actinobacteria were also detected. In total, continuous application of BIO effectively suppressed Fusarium wilt disease by stabilizing culturable bacterial metabolic potential and community structure. This study revealed a new method to control Fusarium wilt of banana for long term banana cultivation.

  8. Continous application of bioorganic fertilizer induced resilient culturable bacteria community associated with banana Fusarium wilt suppression

    PubMed Central

    Fu, Lin; Ruan, Yunze; Tao, Chengyuan; Li, Rong; Shen, Qirong

    2016-01-01

    Fusarium wilt of banana always drives farmers to find new land for banana cultivation due to the comeback of the disease after a few cropping years. A novel idea for solving this problem is the continuous application of bioorganic fertilizer (BIO), which should be practiced from the beginning of banana planting. In this study, BIO was applied in newly reclaimed fields to pre-control banana Fusarium wilt and the culturable rhizobacteria community were evaluated using Biolog Ecoplates and culture-dependent denaturing gradient gel electrophoresis (CD-DGGE). The results showed that BIO application significantly reduced disease incidences and increased crop yields, respectivly. And the stabilized general bacterial metabolic potential, especially for the utilization of carbohydrates, carboxylic acids and phenolic compounds, was induced by BIO application. DGGE profiles demonstrated that resilient community structure of culturable rhizobacteria with higher richness and diversity were observed in BIO treated soils. Morever, enriched culturable bacteria affiliated with Firmicutes, Gammaproteobacteria and Actinobacteria were also detected. In total, continuous application of BIO effectively suppressed Fusarium wilt disease by stabilizing culturable bacterial metabolic potential and community structure. This study revealed a new method to control Fusarium wilt of banana for long term banana cultivation. PMID:27306096

  9. Socioeconomic importance of the banana tree (Musa spp.) in the Guinean Highland Savannah agroforests.

    PubMed

    Mapongmetsem, Pierre Marie; Nkongmeneck, Bernard Aloys; Gubbuk, Hamide

    2012-01-01

    Home gardens are defined as less complex agroforests which look like and function as natural forest ecosystems but are integrated into agricultural management systems located around houses. Investigations were carried out in 187 households. The aim of the study was to identify the different types of banana home gardens existing in the periurban zone of Ngaoundere town. The results showed that the majority of home gardens in the area were very young (less than 15 years old) and very small in size (less than 1 ha). Eleven types of home gardens were found in the periurban area of Ngaoundere town. The different home garden types showed important variations in all their structural characteristics. Two local species of banana are cultivated in the systems, Musa sinensis and Musa paradisiaca. The total banana production is 3.57 tons per year. The total quantity of banana consumed in the periurban zone was 3.54 tons (93.5%) whereas 1.01 tons were sold in local or urban markets. The main banana producers belonged to home gardens 2, 4, 7, and 9. The quantity of banana offered to relatives was more than what the farmers received from others. Farmers, rely on agroforests because the flow of their products helps them consolidate friendship and conserve biodiversity at the same time.

  10. Use of Banana (Musa acuminata Colla AAA) Peel Extract as an Antioxidant Source in Orange Juices.

    PubMed

    Ortiz, Lucía; Dorta, Eva; Gloria Lobo, M; González-Mendoza, L Antonio; Díaz, Carlos; González, Mónica

    2017-03-01

    Using banana peel extract as an antioxidant in freshly squeezed orange juices and juices from concentrate was evaluated. Free radical scavenging capacity increased by adding banana peel extracts to both types of orange juice. In addition, remarkable increases in antioxidant capacity using 2,2'-azino-bis-(3-ethylbenzothiazoline)-6-sulfonic acid (ABTS) radical were observed when equal or greater than 5 mg of banana peel extract per ml of freshly squeezed juice was added. No clear effects were observed in the capacity to inhibit lipid peroxidation. Adding 5 mg banana peel extract per ml of orange juice did not substantially modify the physicochemical and sensory characteristics of either type of juice. However, undesirable changes in the sensory characteristics (in-mouth sensations and colour) were detected when equal or greater than 10 mg banana peel extract per ml of orange juice was added. These results confirm that banana peel is a promising natural additive that increases the capacity to scavenge free radicals of orange juice with acceptable sensory and physicochemical characteristics for the consumer.

  11. Effects of Green Banana Flour on the Physical, Chemical and Sensory Properties of Ice Cream.

    PubMed

    Yangılar, Filiz

    2015-09-01

    In the present study, possible effects of the addition of banana flour at different mass fractions (1 and 2%) are investigated on physical (overrun, viscosity), chemical (dry matter, fat and ash content, acidity, pH, water and oil holding capacity and colour), mineral content (Ca, K, Na, P, S, Mg, Fe, Mn, Zn and Ni) and sensory properties of ice cream. Fibre--rich banana pieces were found to contain 66.8 g per 100 g of total dietary fibre, 58.6 g per 100 g of which were insoluble dietary fibre, while 8.2 g per 100 g were soluble dietary fibre. It can be concluded from these results that banana is a valuable dietary fibre source which can be used in food production. Flour obtained from green banana pulp and peel was found to have significant (p<0.05) effect on the chemical composition of ice creams. Sulphur content increased while calcium content decreased in ice cream depending on banana flour content. Sensory results indicated that ice cream sample containing 2% of green banana pulp flour received the highest score from panellists.

  12. Dietary fibre components and pectin chemical features of peels during ripening in banana and plantain varieties.

    PubMed

    Happi Emaga, Thomas; Robert, Christelle; Ronkart, Sébastien N; Wathelet, Bernard; Paquot, Michel

    2008-07-01

    The effects of the ripeness stage of banana (Musa AAA) and plantain (Musa AAB) peels on neutral detergent fibre, acid detergent fibre, cellulose, hemicelluloses, lignin, pectin contents, and pectin chemical features were studied. Plantain peels contained a higher amount of lignin but had a lower hemicellulose content than banana peels. A sequential extraction of pectins showed that acid extraction was the most efficient to isolate banana peel pectins, whereas an ammonium oxalate extraction was more appropriate for plantain peels. In all the stages of maturation, the pectin content in banana peels was higher compared to plantain peels. Moreover, the galacturonic acid and methoxy group contents in banana peels were higher than in plantain peels. The average molecular weights of the extracted pectins were in the range of 132.6-573.8 kDa and were not dependant on peel variety, while the stage of maturation did not affect the dietary fibre yields and the composition in pectic polysaccharides in a consistent manner. This study has showed that banana peels are a potential source of dietary fibres and pectins.

  13. Socioeconomic Importance of the Banana Tree (Musa Spp.) in the Guinean Highland Savannah Agroforests

    PubMed Central

    Mapongmetsem, Pierre Marie; Nkongmeneck, Bernard Aloys; Gubbuk, Hamide

    2012-01-01

    Home gardens are defined as less complex agroforests which look like and function as natural forest ecosystems but are integrated into agricultural management systems located around houses. Investigations were carried out in 187 households. The aim of the study was to identify the different types of banana home gardens existing in the periurban zone of Ngaoundere town. The results showed that the majority of home gardens in the area were very young (less than 15 years old) and very small in size (less than 1 ha). Eleven types of home gardens were found in the periurban area of Ngaoundere town. The different home garden types showed important variations in all their structural characteristics. Two local species of banana are cultivated in the systems, Musa sinensis and Musa paradisiaca. The total banana production is 3.57 tons per year. The total quantity of banana consumed in the periurban zone was 3.54 tons (93.5%) whereas 1.01 tons were sold in local or urban markets. The main banana producers belonged to home gardens 2, 4, 7, and 9. The quantity of banana offered to relatives was more than what the farmers received from others. Farmers, rely on agroforests because the flow of their products helps them consolidate friendship and conserve biodiversity at the same time. PMID:22629136

  14. Effects of Green Banana Flour on the Physical, Chemical and Sensory Properties of Ice Cream

    PubMed Central

    2015-01-01

    Summary In the present study, possible effects of the addition of banana flour at different mass fractions (1 and 2%) are investigated on physical (overrun, viscosity), chemical (dry matter, fat and ash content, acidity, pH, water and oil holding capacity and colour), mineral content (Ca, K, Na, P, S, Mg, Fe, Mn, Zn and Ni) and sensory properties of ice cream. Fibre--rich banana pieces were found to contain 66.8 g per 100 g of total dietary fibre, 58.6 g per 100 g of which were insoluble dietary fibre, while 8.2 g per 100 g were soluble dietary fibre. It can be concluded from these results that banana is a valuable dietary fibre source which can be used in food production. Flour obtained from green banana pulp and peel was found to have significant (p<0.05) effect on the chemical composition of ice creams. Sulphur content increased while calcium content decreased in ice cream depending on banana flour content. Sensory results indicated that ice cream sample containing 2% of green banana pulp flour received the highest score from panellists. PMID:27904363

  15. Fluorescent chlorophyll catabolites in bananas light up blue halos of cell death

    PubMed Central

    Moser, Simone; Müller, Thomas; Holzinger, Andreas; Lütz, Cornelius; Jockusch, Steffen; Turro, Nicholas J.; Kräutler, Bernhard

    2009-01-01

    Breakdown of chlorophyll is a major contributor to the diagnostic color changes in fall leaves, and in ripening apples and pears, where it commonly provides colorless, nonfluorescent tetrapyrroles. In contrast, in ripening bananas (Musa acuminata) chlorophylls fade to give unique fluorescent catabolites (FCCs), causing yellow bananas to glow blue, when observed under UV light. Here, we demonstrate the capacity of the blue fluorescent chlorophyll catabolites to signal symptoms of programmed cell death in a plant. We report on studies of bright blue luminescent rings on the peel of very ripe bananas, which arise as halos around necrotic areas in ‘senescence associated’ dark spots. These dark spots appear naturally on the peel of ripe bananas and occur in the vicinity of stomata. Wavelength, space, and time resolved fluorescence measurements allowed the luminescent areas to be monitored on whole bananas. Our studies revealed an accumulation of FCCs in luminescent rings, within senescing cells undergoing the transition to dead tissue, as was observable by morphological textural cellular changes. FCCs typically are short lived intermediates of chlorophyll breakdown. In some plants, FCCs are uniquely persistent, as is seen in bananas, and can thus be used as luminescent in vivo markers in tissue undergoing senescence. While FCCs still remain to be tested for their own hypothetical physiological role in plants, they may help fill the demand for specific endogenous molecular reporters in noninvasive assays of plant senescence. Thus, they allow for in vivo studies, which provide insights into critical stages preceding cell death. PMID:19805212

  16. Extraction and partial characterization of polyphenol oxidase from banana (Musa acuminata Grande naine) roots.

    PubMed

    Wuyts, Nathalie; De Waele, Dirk; Swennen, Rony

    2006-01-01

    Polyphenol oxidase activity (PPO, EC 1.14.18.1, monophenol monooxygenase, and EC 1.10.3.2, o-diphenoloxidase) has been extensively studied in banana fruit for its role in enzymatic browning. Rapid discolouration of leaf, stem and root tissue after injury and strong pigmentation of tissue extracts indicate that PPO and phenolic compounds are ubiquitous in vegetative tissue of banana as well. They hamper biochemical and molecular studies in banana, as cumbersome adaptations of extraction protocols are required. On the other hand, PPO and phenolic compounds could be an important part of the plant's defence system against pests and diseases, including root parasitic nematodes. To facilitate future studies in this area, extraction and assay conditions for PPO from roots of banana (Musa acuminata AAA, Grande naine) were optimized. Highest enzyme activities were obtained in a 0.2 M phosphate buffer at pH 7.0 with 5% insoluble polyvinylpyrrolidone and 0.25% Triton X-100. The lowest K(m) values were obtained for dopamine and D-catechin. Monophenolase activity was shown with p-cresol. Banana root PPO was strongly inhibited by dithiothreitol and sodium metabisulfite. In root sections, oxidation of dopamine strongly co-localized with aerenchyma in the cortex. The experiments revealed indications for the involvement of root PPO and dopamine in resistance of banana against the parasitic nematode Radopholus similis.

  17. Total soluble solids from banana: evaluation and optimization of extraction parameters.

    PubMed

    Carvalho, Giovani B M; Silva, Daniel P; Santos, Júlio C; Izário Filho, Hélcio J; Vicente, António A; Teixeira, José A; Felipe, Maria das Graças A; Almeida e Silva, João B

    2009-05-01

    Banana, an important component in the diet of the global population, is one of the most consumed fruits in the world. This fruit is also very favorable to industry processes (e.g., fermented beverages) due to its rich content on soluble solids and minerals, with low acidity. The main objective of this work was to evaluate the influence of factors such as banana weight and extraction time during a hot aqueous extraction process on the total soluble solids content of banana. The extract is to be used by the food and beverage industries. The experiments were performed with 105 mL of water, considering the moisture of the ripe banana (65%). Total sugar concentrations were obtained in a beer analyzer and the result expressed in degrees Plato (degrees P, which is the weight of the extract or the sugar equivalent in 100 g solution at 20 degrees C), aiming at facilitating the use of these results by the beverage industries. After previous studies of characterization of the fruit and of ripening performance, a 2(2) full-factorial star design was carried out, and a model was developed to describe the behavior of the dependent variable (total soluble solids) as a function of the factors (banana weight and extraction time), indicating as optimum conditions for extraction 38.5 g of banana at 39.7 min.

  18. Continous application of bioorganic fertilizer induced resilient culturable bacteria community associated with banana Fusarium wilt suppression

    NASA Astrophysics Data System (ADS)

    Fu, Lin; Ruan, Yunze; Tao, Chengyuan; Li, Rong; Shen, Qirong

    2016-06-01

    Fusarium wilt of banana always drives farmers to find new land for banana cultivation due to the comeback of the disease after a few cropping years. A novel idea for solving this problem is the continuous application of bioorganic fertilizer (BIO), which should be practiced from the beginning of banana planting. In this study, BIO was applied in newly reclaimed fields to pre-control banana Fusarium wilt and the culturable rhizobacteria community were evaluated using Biolog Ecoplates and culture-dependent denaturing gradient gel electrophoresis (CD-DGGE). The results showed that BIO application significantly reduced disease incidences and increased crop yields, respectivly. And the stabilized general bacterial metabolic potential, especially for the utilization of carbohydrates, carboxylic acids and phenolic compounds, was induced by BIO application. DGGE profiles demonstrated that resilient community structure of culturable rhizobacteria with higher richness and diversity were observed in BIO treated soils. Morever, enriched culturable bacteria affiliated with Firmicutes, Gammaproteobacteria and Actinobacteria were also detected. In total, continuous application of BIO effectively suppressed Fusarium wilt disease by stabilizing culturable bacterial metabolic potential and community structure. This study revealed a new method to control Fusarium wilt of banana for long term banana cultivation.

  19. Does Spatial Locative Comprehension Predict Landmark-Based Navigation?

    PubMed Central

    Piccardi, Laura; Palermo, Liana; Bocchi, Alessia; Guariglia, Cecilia; D’Amico, Simonetta

    2015-01-01

    In the present study we investigated the role of spatial locative comprehension in learning and retrieving pathways when landmarks were available and when they were absent in a sample of typically developing 6- to 11-year-old children. Our results show that the more proficient children are in understanding spatial locatives the more they are able to learn pathways, retrieve them after a delay and represent them on a map when landmarks are present in the environment. These findings suggest that spatial language is crucial when individuals rely on sequences of landmarks to drive their navigation towards a given goal but that it is not involved when navigational representations based on the geometrical shape of the environment or the coding of body movements are sufficient for memorizing and recalling short pathways. PMID:25629814

  20. Does spatial locative comprehension predict landmark-based navigation?

    PubMed

    Piccardi, Laura; Palermo, Liana; Bocchi, Alessia; Guariglia, Cecilia; D'Amico, Simonetta

    2015-01-01

    In the present study we investigated the role of spatial locative comprehension in learning and retrieving pathways when landmarks were available and when they were absent in a sample of typically developing 6- to 11-year-old children. Our results show that the more proficient children are in understanding spatial locatives the more they are able to learn pathways, retrieve them after a delay and represent them on a map when landmarks are present in the environment. These findings suggest that spatial language is crucial when individuals rely on sequences of landmarks to drive their navigation towards a given goal but that it is not involved when navigational representations based on the geometrical shape of the environment or the coding of body movements are sufficient for memorizing and recalling short pathways.

  1. Evaluation of artificial intelligence based models for chemical biodegradability prediction.

    PubMed

    Baker, James R; Gamberger, Dragan; Mihelcic, James R; Sabljić, Aleksandar

    2004-12-31

    This study presents a review of biodegradability modeling efforts including a detailed assessment of two models developed using an artificial intelligence based methodology. Validation results for these models using an independent, quality reviewed database, demonstrate that the models perform well when compared to another commonly used biodegradability model, against the same data. The ability of models induced by an artificial intelligence methodology to accommodate complex interactions in detailed systems, and the demonstrated reliability of the approach evaluated by this study, indicate that the methodology may have application in broadening the scope of biodegradability models. Given adequate data for biodegradability of chemicals under environmental conditions, this may allow for the development of future models that include such things as surface interface impacts on biodegradability for example.

  2. Predicting neutron star properties based on chiral effective field theory

    NASA Astrophysics Data System (ADS)

    Laduke, Alison; Sammarruca, Francesca

    2016-09-01

    The energy per nucleon as a function of density, known as the nuclear equation of state, is the crucial input in the structure equations of neutron stars and thus establishes the connection between nuclear physics and compact astrophysical objects. More precisely, the pressure which supports the star against gravitational collapse is mostly determined by the nature of the equation of state of highly neutron-rich matter. In this contribution, we will report on our work in progress to calculate neutron star masses and radii. The equation of state is obtained microscopically from Brueckner-Hartree-Fock calculations based on state-of-the-art nuclear forces which have been developed within the framework of chiral effective field theory. The latter has become popular in recent years as a fundamental and systematic approach firmly connected to low-energy quantum chromodynamics. Supported by the Hill Undergraduate Fellowship and the U.S. Department of Energy.

  3. Theoretically predicted Fox-7 based new high energy density molecules

    NASA Astrophysics Data System (ADS)

    Ghanta, Susanta

    2016-08-01

    Computational investigation of CHNO based high energy density molecules (HEDM) are designed with FOX-7 (1, 1-dinitro 2, 2-diamino ethylene) skeleton. We report structures, stability and detonation properties of these new molecules. A systematic analysis is presented for the crystal density, activation energy for nitro to nitrite isomerisation and the C-NO2 bond dissociation energy of these molecules. The Atoms in molecules (AIM) calculations have been performed to interpret the intra-molecular weak H-bonding interactions and the stability of C-NO2 bonds. The structure optimization, frequency and bond dissociation energy calculations have been performed at B3LYP level of theory by using G03 quantum chemistry package. Some of the designed molecules are found to be more promising HEDM than FOX-7 molecule, and are proposed to be candidate for synthetic purpose.

  4. Prediction of Acute Mountain Sickness using a Blood-Based Test

    DTIC Science & Technology

    2015-01-01

    Award Number: W81XWH-11-2-0034 TITLE: Prediction of Acute Mountain Sickness using a Blood-Based Test PRINCIPAL INVESTIGATOR: Robert Roach...Acute Mountain Sickness using a Blood-Based Test 5a. CONTRACT NUMBER: 5b. GRANT NUMBER W81XWH-11-2-0034 5c. PROGRAM ELEMENT NUMBER 6. AUTHOR... mountain sickness or who was AMS resistant. In Phase II, results suggest a completely independent sample was equally effective in predicting AMS

  5. E-Predict: a computational strategy for species identification based on observed DNA microarray hybridization patterns.

    PubMed

    Urisman, Anatoly; Fischer, Kael F; Chiu, Charles Y; Kistler, Amy L; Beck, Shoshannah; Wang, David; DeRisi, Joseph L

    2005-01-01

    DNA microarrays may be used to identify microbial species present in environmental and clinical samples. However, automated tools for reliable species identification based on observed microarray hybridization patterns are lacking. We present an algorithm, E-Predict, for microarray-based species identification. E-Predict compares observed hybridization patterns with theoretical energy profiles representing different species. We demonstrate the application of the algorithm to viral detection in a set of clinical samples and discuss its relevance to other metagenomic applications.

  6. Predicting the Viscosity of Low VOC Vinyl Ester and Fatty Acid-Based Resins

    DTIC Science & Technology

    2005-12-01

    The sample was titrated with the perchloric acid / peracetic acid solution (Aldrich) until the indicator, 0.1% crystal violet in acetic acid (Aldrich...Predicting the Viscosity of Low VOC Vinyl Ester and Fatty Acid -Based Resins by John J. La Scala, Amutha Jeyarajasingam, Cherise Winston...Aberdeen Proving Ground, MD 21005-5069 ARL-TR-3681 December 2005 Predicting the Viscosity of Low VOC Vinyl Ester and Fatty Acid -Based

  7. Prediction of Filamentous Sludge Bulking using a State-based Gaussian Processes Regression Model

    NASA Astrophysics Data System (ADS)

    Liu, Yiqi; Guo, Jianhua; Wang, Qilin; Huang, Daoping

    2016-08-01

    Activated sludge process has been widely adopted to remove pollutants in wastewater treatment plants (WWTPs). However, stable operation of activated sludge process is often compromised by the occurrence of filamentous bulking. The aim of this study is to build a proper model for timely diagnosis and prediction of filamentous sludge bulking in an activated sludge process. This study developed a state-based Gaussian Process Regression (GPR) model to monitor the filamentous sludge bulking related parameter, sludge volume index (SVI), in such a way that the evolution of SVI can be predicted over multi-step ahead. This methodology was validated with SVI data collected from one full-scale WWTP. Online diagnosis and prediction of filamentous bulking sludge with real-time SVI prediction was tested through a simulation study. The results showed that the proposed methodology was capable of predicting future SVIs with good accuracy, thus providing sufficient time for predicting and controlling filamentous sludge bulking.

  8. Prediction of Filamentous Sludge Bulking using a State-based Gaussian Processes Regression Model

    PubMed Central

    Liu, Yiqi; Guo, Jianhua; Wang, Qilin; Huang, Daoping

    2016-01-01

    Activated sludge process has been widely adopted to remove pollutants in wastewater treatment plants (WWTPs). However, stable operation of activated sludge process is often compromised by the occurrence of filamentous bulking. The aim of this study is to build a proper model for timely diagnosis and prediction of filamentous sludge bulking in an activated sludge process. This study developed a state-based Gaussian Process Regression (GPR) model to monitor the filamentous sludge bulking related parameter, sludge volume index (SVI), in such a way that the evolution of SVI can be predicted over multi-step ahead. This methodology was validated with SVI data collected from one full-scale WWTP. Online diagnosis and prediction of filamentous bulking sludge with real-time SVI prediction was tested through a simulation study. The results showed that the proposed methodology was capable of predicting future SVIs with good accuracy, thus providing sufficient time for predicting and controlling filamentous sludge bulking. PMID:27498888

  9. Fatigue Strength Prediction of Drilling Materials Based on the Maximum Non-metallic Inclusion Size

    NASA Astrophysics Data System (ADS)

    Zeng, Dezhi; Tian, Gang; Liu, Fei; Shi, Taihe; Zhang, Zhi; Hu, Junying; Liu, Wanying; Ouyang, Zhiying

    2015-12-01

    In this paper, the statistics of the size distribution of non-metallic inclusions in five drilling materials were performed. Based on the maximum non-metallic inclusion size, the fatigue strength of the drilling material was predicted. The sizes of non-metallic inclusions in drilling materials were observed to follow the inclusion size distribution rule. Then the maximum inclusion size in the fatigue specimens was deduced. According to the prediction equation of the maximum inclusion size and fatigue strength proposed by Murakami, fatigue strength of drilling materials was obtained. Moreover, fatigue strength was also measured through rotating bending tests. The predicted fatigue strength was significantly lower than the measured one. Therefore, according to the comparison results, the coefficients in the prediction equation were revised. The revised equation allowed the satisfactory prediction results of fatigue strength of drilling materials at the fatigue life of 107 rotations and could be used in the fast prediction of fatigue strength of drilling materials.

  10. Long-term Clock Bias Prediction Based on An ARMA Model

    NASA Astrophysics Data System (ADS)

    Xi, Chao; Cai, Cheng-Lin; Li, Si-Min; Li, Xiao-Hui; Li, Zhi-Bin; Deng, Ke-Qun

    2014-07-01

    The long-term and reliable prediction of satellite clock bias (SCB) is an important prerequisite for realizing the satellite autonomous navigation and orbit determination. Considering the shortcomings of the quadratic polynomial model (PM) and gray system model (GM) in the long-term prediction of SCB, a new prediction method of SCB based on an ARMA (Auto-Regressive Moving Average) model is proposed to represent the variation characteristics of SCB more accurately. In this paper, a careful precision analysis of the 90-day SCB prediction is made to verify the feasibility and validity of this proposed method by using the IGS (International GNSS Service) clock data. According to the variation characteristics of each satellite clock, the pattern recognition, modeling and prediction of SCB are conducted, and the detailed comparison is made with the other three models at the same time. The results show that adopting the ARMA model can effectively improve the accuracy of long-term SCB prediction.

  11. Prediction Uncertainty Analyses for the Combined Physically-Based and Data-Driven Models

    NASA Astrophysics Data System (ADS)

    Demissie, Y. K.; Valocchi, A. J.; Minsker, B. S.; Bailey, B. A.

    2007-12-01

    The unavoidable simplification associated with physically-based mathematical models can result in biased parameter estimates and correlated model calibration errors, which in return affect the accuracy of model predictions and the corresponding uncertainty analyses. In this work, a physically-based groundwater model (MODFLOW) together with error-correcting artificial neural networks (ANN) are used in a complementary fashion to obtain an improved prediction (i.e. prediction with reduced bias and error correlation). The associated prediction uncertainty of the coupled MODFLOW-ANN model is then assessed using three alternative methods. The first method estimates the combined model confidence and prediction intervals using first-order least- squares regression approximation theory. The second method uses Monte Carlo and bootstrap techniques for MODFLOW and ANN, respectively, to construct the combined model confidence and prediction intervals. The third method relies on a Bayesian approach that uses analytical or Monte Carlo methods to derive the intervals. The performance of these approaches is compared with Generalized Likelihood Uncertainty Estimation (GLUE) and Calibration-Constrained Monte Carlo (CCMC) intervals of the MODFLOW predictions alone. The results are demonstrated for a hypothetical case study developed based on a phytoremediation site at the Argonne National Laboratory. This case study comprises structural, parameter, and measurement uncertainties. The preliminary results indicate that the proposed three approaches yield comparable confidence and prediction intervals, thus making the computationally efficient first-order least-squares regression approach attractive for estimating the coupled model uncertainty. These results will be compared with GLUE and CCMC results.

  12. Structure analysis and laxative effects of oligosaccharides isolated from bananas.

    PubMed

    Wang, Juan; Huang, Hui Hua; Cheng, Yan Feng; Yang, Gong Ming

    2012-10-01

    Banana oligosaccharides (BOS) were extracted with water, and then separated and purified using column chromatography. Gel penetration chromatography was used to determine the molecular weights. Thin layer chromatogram and capillary electrophoresis were employed to analyze the monosaccharide composition. The indican bond and structure of the BOS molecule were determined using Fourier transform infrared spectroscopy and nuclear magnetic resonance. Results showed that BOS were probably composed of eight β-D-pyran glucose units linked with 1→6 indican bonds. The laxative effects of BOS were investigated in mice using the method described in "Handbook of Technical Standards for Testing and Assessment of Health Food in China." The length of the small intestine over which a carbon suspension solution advanced in mice treated with low-, middle-, and high-dose BOS was significantly greater than that in the model group, suggesting that BOS are effective in accelerating the movement of the small intestine.

  13. Impact of diseases on export and smallholder production of banana.

    PubMed

    Ploetz, Randy C; Kema, Gert H J; Ma, Li-Jun

    2015-01-01

    Banana (Musa spp.) is one of the world's most valuable primary agricultural commodities. Exported fruit are key commodities in several producing countries yet make up less than 15% of the total annual output of 145 million metric tons (MMT). Transnational exporters market fruit of the Cavendish cultivars, which are usually produced in large plantations with fixed infrastructures and high inputs of fertilizers, pesticides, and irrigation. In contrast, smallholders grow diverse cultivars, often for domestic markets, with minimal inputs. Diseases are serious constraints for export as well as smallholder production. Although black leaf streak disease (BLSD), which is present throughout Asian, African, and American production areas, is a primary global concern, other diseases with limited distributions, notably tropical race 4 of Fusarium wilt, rival its impact. Here, we summarize recent developments on the most significant of these problems.

  14. A class-based link prediction using Distance Dependent Chinese Restaurant Process

    NASA Astrophysics Data System (ADS)

    Andalib, Azam; Babamir, Seyed Morteza

    2016-08-01

    One of the important tasks in relational data analysis is link prediction which has been successfully applied on many applications such as bioinformatics, information retrieval, etc. The link prediction is defined as predicting the existence or absence of edges between nodes of a network. In this paper, we propose a novel method for link prediction based on Distance Dependent Chinese Restaurant Process (DDCRP) model which enables us to utilize the information of the topological structure of the network such as shortest path and connectivity of the nodes. We also propose a new Gibbs sampling algorithm for computing the posterior distribution of the hidden variables based on the training data. Experimental results on three real-world datasets show the superiority of the proposed method over other probabilistic models for link prediction problem.

  15. Prediction of the disulfide-bonding state of cysteines in proteins based on dipeptide composition.

    PubMed

    Song, Jiang-Ning; Wang, Ming-Lei; Li, Wei-Jiang; Xu, Wen-Bo

    2004-05-21

    In this paper, a novel approach has been introduced to predict the disulfide-bonding state of cysteines in proteins by means of a linear discriminator based on their dipeptide composition. The prediction is performed with a newly enlarged dataset with 8114 cysteine-containing segments extracted from 1856 non-homologous proteins of well-resolved three-dimensional structures. The oxidation of cysteines exhibits obvious cooperativity: almost all cysteines in disulfide-bond-containing proteins are in the oxidized form. This cooperativity can be well described by protein's dipeptide composition, based on which the prediction accuracy of the oxidation form of cysteines scores as high as 89.1% and 85.2%, when measured on cysteine and protein basis using the rigorous jack-knife procedure, respectively. The result demonstrates the applicability of this new relatively simple method and provides superior prediction performance compared with existing methods for the prediction of the oxidation states of cysteines in proteins.

  16. Two States Mapping Based Time Series Neural Network Model for Compensation Prediction Residual Error

    NASA Astrophysics Data System (ADS)

    Jung, Insung; Koo, Lockjo; Wang, Gi-Nam

    2008-11-01

    The objective of this paper was to design a model of human bio signal data prediction system for decreasing of prediction error using two states mapping based time series neural network BP (back-propagation) model. Normally, a lot of the industry has been applied neural network model by training them in a supervised manner with the error back-propagation algorithm for time series prediction systems. However, it still has got a residual error between real value and prediction result. Therefore, we designed two states of neural network model for compensation residual error which is possible to use in the prevention of sudden death and metabolic syndrome disease such as hypertension disease and obesity. We determined that most of the simulation cases were satisfied by the two states mapping based time series prediction model. In particular, small sample size of times series were more accurate than the standard MLP model.

  17. State of the art and challenges in sequence based T-cell epitope prediction

    PubMed Central

    2010-01-01

    Sequence based T-cell epitope predictions have improved immensely in the last decade. From predictions of peptide binding to major histocompatibility complex molecules with moderate accuracy, limited allele coverage, and no good estimates of the other events in the antigen-processing pathway, the field has evolved significantly. Methods have now been developed that produce highly accurate binding predictions for many alleles and integrate both proteasomal cleavage and transport events. Moreover have so-called pan-specific methods been developed, which allow for prediction of peptide binding to MHC alleles characterized by limited or no peptide binding data. Most of the developed methods are publicly available, and have proven to be very useful as a shortcut in epitope discovery. Here, we will go through some of the history of sequence-based predictions of helper as well as cytotoxic T cell epitopes. We will focus on some of the most accurate methods and their basic background. PMID:21067545

  18. Evaluation of different protein extraction methods for banana (Musa spp.) root proteome analysis by two-dimensional electrophoresis.

    PubMed

    Vaganan, M Mayil; Sarumathi, S; Nandakumar, A; Ravi, I; Mustaffa, M M

    2015-02-01

    Four protocols viz., the trichloroacetic acid-acetone (TCA), phenol-ammonium acetate (PAA), phenol/SDS-ammonium acetate (PSA) and trisbase-acetone (TBA) were evaluated with modifications for protein extraction from banana (Grand Naine) roots, considered as recalcitrant tissues for proteomic analysis. The two-dimensional electrophoresis (2-DE) separated proteins were compared based on protein yield, number of resolved proteins, sum of spot quantity, average spot intensity and proteins resolved in 4-7 pI range. The PAA protocol yielded more proteins (0.89 mg/g of tissues) and protein spots (584) in 2-DE gel than TCA and other protocols. Also, the PAA protocol was superior in terms of sum of total spot quantity and average spot intensity than TCA and other protocols, suggesting phenol as extractant and ammonium acetate as precipitant of proteins were the most suitable for banana rooteomics analysis by 2-DE. In addition, 1:3 ratios of root tissue to extraction buffer and overnight protein precipitation were most efficient to obtain maximum protein yield.

  19. Biochars with excellent Pb(II) adsorption property produced from fresh and dehydrated banana peels via hydrothermal carbonization.

    PubMed

    Zhou, Nan; Chen, Honggang; Xi, Junting; Yao, Denghui; Zhou, Zhi; Tian, Yun; Lu, Xiangyang

    2017-05-01

    Fresh and dehydrated banana peels were used as biomass feedstock to produce highly effective sorbent biochars through a facile one-step hydrothermal carbonization approach with 20%vol phosphoric acid as the reaction medium. The elemental ratio of oxygen content of the two as-prepared biochars were about 20%, and the FT-IR analysis confirmed the existence of abundant surface functional groups such as hydroxyl and carboxyl which greatly enhanced the adsorption performance. The sorbents showed excellent lead clarification capability of 359mg·g(-1) and 193mg·g(-1) for dehydrated and fresh banana peels based biochars, respectively. The change of the CO/OCO and the appearance of PbO/PbOC on the surface after adsorption confirmed that the ion exchange might be the dominant mechanism. The dehydration and pulverization pre-treatment and the addition of phosphoric acid can benefit the formation of those functional groups and hydrothermal carbonization can be a promising method to transfer biomass like fruit peels into biochars with excellent adsorption performance.

  20. Shifts in banana root exudate profiles after colonization with the non-pathogenic Fusarium oxysporum strain Fo162.

    PubMed

    Kurtz, Andreas; Schouten, Alexander

    2009-01-01

    The non-pathogenic fungus Fusorium oxysporum strain Fo162 can efficiently colonize banana roots and reduce infecting by the burrowing nematode Radopholus similis. It is assumed that the fungus triggers a systemic reaction in the plant, which is affecting the biochemical composition of the root exudates and is thus causing the reduction in nematode colonization. To characterize these shifts, a continuous flow experiment was set up to collect root metabolites on a matrix (XAD-4). Based on HPLC analysis, the extracts, collected from the XAD-4, showed no differences in the composition of the root exudates between plants colonized by the endophyte and the controls. However, the accumulation of several compounds differed significantly. When these extracts were used in a bioassay with Radopholus similis none of the sample-treatment combinations had a significant attracting or repelling effect on the nematodes. This experiment shows that non-pathogenic Fusarium oxysporum strain Fo162 is able to upregulate the synthesis of at least some, so far unidentified compounds released by banana roots under hydroponic conditions. Further studies and optimization of the experimental setup are required to determine whether or not increase in metabolite concentration can affect nematode responses in vitro and ultimately in vivo.

  1. Chip electrophoresis of active banana ingredients with label-free detection utilizing deep UV native fluorescence and mass spectrometry.

    PubMed

    Ohla, Stefan; Schulze, Philipp; Fritzsche, Stefanie; Belder, Detlev

    2011-02-01

    In the present work, we report on a rapid and straightforward approach for the determination of biologically active compounds in bananas applying microchip electrophoresis (MCE). For this purpose, we applied label-free detection utilizing deep UV fluorescence detection with excitation at 266 nm. Using this approach, we could identify dopamine and serotonin, their precursors tryptophan and tyrosine and also the isoquinoline alkaloid salsolinol in less than 1 min. In bananas, after 10 days of ripening, we additionally found the compound levodopa which is a metabolite of the tyrosine pathway. Quantitative analysis of extracts by external calibration revealed concentrations of serotonin, tryptophan, and tyrosine from 2.7 to 7.6 μg/mL with relative standard deviations of less than 3.5%. The corresponding calibration plots showed good linearity with correlation coefficients higher than 0.985. For reliable peak assignment, the compounds were also analyzed by coupling chip electrophoresis with mass spectrometry. This paper demonstrates exemplarily the applicability of MCE with native fluorescence detection for rapid analysis of natural compounds in fruits and reveals the potential of chip-based separation systems for the analysis of complex mixtures.

  2. Knowledge-based prediction of three-dimensional dose distributions for external beam radiotherapy

    SciTech Connect

    Shiraishi, Satomi; Moore, Kevin L.

    2016-01-15

    Purpose: To demonstrate knowledge-based 3D dose prediction for external beam radiotherapy. Methods: Using previously treated plans as training data, an artificial neural network (ANN) was trained to predict a dose matrix based on patient-specific geometric and planning parameters, such as the closest distance (r) to planning target volume (PTV) and organ-at-risks (OARs). Twenty-three prostate and 43 stereotactic radiosurgery/radiotherapy (SRS/SRT) cases with at least one nearby OAR were studied. All were planned with volumetric-modulated arc therapy to prescription doses of 81 Gy for prostate and 12–30 Gy for SRS. Using these clinically approved plans, ANNs were trained to predict dose matrix and the predictive accuracy was evaluated using the dose difference between the clinical plan and prediction, δD = D{sub clin} − D{sub pred}. The mean (〈δD{sub r}〉), standard deviation (σ{sub δD{sub r}}), and their interquartile range (IQR) for the training plans were evaluated at a 2–3 mm interval from the PTV boundary (r{sub PTV}) to assess prediction bias and precision. Initially, unfiltered models which were trained using all plans in the cohorts were created for each treatment site. The models predict approximately the average quality of OAR sparing. Emphasizing a subset of plans that exhibited superior to the average OAR sparing during training, refined models were created to predict high-quality rectum sparing for prostate and brainstem sparing for SRS. Using the refined model, potentially suboptimal plans were identified where the model predicted further sparing of the OARs was achievable. Replans were performed to test if the OAR sparing could be improved as predicted by the model. Results: The refined models demonstrated highly accurate dose distribution prediction. For prostate cases, the average prediction bias for all voxels irrespective of organ delineation ranged from −1% to 0% with maximum IQR of 3% over r{sub PTV} ∈ [ − 6, 30] mm. The

  3. Pollutant exposure at wastewater treatment works affects the detoxification organs of an urban adapter, the Banana Bat.

    PubMed

    Naidoo, Samantha; Vosloo, Dalene; Schoeman, M Corrie

    2016-01-01

    The Banana Bat, Neoromicia nana, exploits pollution-tolerant chironomids at wastewater treatment works (WWTWs). We investigated how pollutant exposure impacts the detoxification organs, namely the liver and kidney of N. nana. (i) We performed SEM-EDS to quantify metal content and mineral nutrients, and found significant differences in essential metal (Fe and Zn) content in the liver, and significant differences in Cu and one mineral nutrient (K) in the kidneys. (ii) We performed histological analysis and found more histopathological lesions in detoxification organs of WWTW bats. (iii) We calculated hepatosomatic/renalsomatic indices (HSI/RSI) to investigate whole organ effects, and found significant increases in organ size at WWTWs. (iv) We quantified metallothionein 1E (MT1E), using Western Blot immunodetection. Contrary to predictions, we found no significant upregulation of MT1E in bats at WWTWs. Ultimately, N. nana exploiting WWTWs may suffer chronic health problems from sub-lethal damage to organs responsible for detoxifying pollutants.

  4. Multi-objective optimization of process conditions in the manufacturing of banana (Musa paradisiaca L.) starch/natural rubber films.

    PubMed

    Ramírez-Hernández, A; Aparicio-Saguilán, A; Reynoso-Meza, G; Carrillo-Ahumada, J

    2017-02-10

    Multi-objective optimization was used to evaluate the effect of adding banana (Musa paradisiaca L.) starch and natural rubber (cis-1,4-poliisopreno) at different ratios (1-13w/w) to the manufacturing process of biodegradable films, specifically the effect on the biodegradability, crystallinity and moisture of the films. A structural characterization of the films was performed by X-ray diffraction, Fourier transform infrared spectroscopy and SEM, moisture and biodegradability properties were studied. The models obtained showed that degradability vs. moisture tend to be inversely proportional and crystallinity vs. degradability tend to be directly proportional. With respect to crystallinity vs. moisture behavior, it is observed that crystallinity remains constant when moisture values remain between 27 and 41%. Beyond this value there is an exponential increase in crystallinity. These results allow for predictions on the mechanical behavior that can occur in starch/rubber films.

  5. Non-Fourier based thermal-mechanical tissue damage prediction for thermal ablation.

    PubMed

    Li, Xin; Zhong, Yongmin; Smith, Julian; Gu, Chengfan

    2017-01-02

    Prediction of tissue damage under thermal loads plays important role for thermal ablation planning. A new methodology is presented in this paper by combing non-Fourier bio-heat transfer, constitutive elastic mechanics as well as non-rigid motion of dynamics to predict and analyze thermal distribution, thermal-induced mechanical deformation and thermal-mechanical damage of soft tissues under thermal loads. Simulations and comparison analysis demonstrate that the proposed methodology based on the non-Fourier bio-heat transfer can account for the thermal-induced mechanical behaviors of soft tissues and predict tissue thermal damage more accurately than classical Fourier bio-heat transfer based model.

  6. Genetic algorithm based adaptive neural network ensemble and its application in predicting carbon flux

    USGS Publications Warehouse

    Xue, Y.; Liu, S.; Hu, Y.; Yang, J.; Chen, Q.

    2007-01-01

    To improve the accuracy in prediction, Genetic Algorithm based Adaptive Neural Network Ensemble (GA-ANNE) is presented. Intersections are allowed between different training sets based on the fuzzy clustering analysis, which ensures the diversity as well as the accuracy of individual Neural Networks (NNs). Moreover, to improve the accuracy of the adaptive weights of individual NNs, GA is used to optimize the cluster centers. Empirical results in predicting carbon flux of Duke Forest reveal that GA-ANNE can predict the carbon flux more accurately than Radial Basis Function Neural Network (RBFNN), Bagging NN ensemble, and ANNE. ?? 2007 IEEE.

  7. A micromechanics-based strength prediction methodology for notched metal matrix composites

    NASA Technical Reports Server (NTRS)

    Bigelow, C. A.

    1992-01-01

    An analytical micromechanics based strength prediction methodology was developed to predict failure of notched metal matrix composites. The stress-strain behavior and notched strength of two metal matrix composites, boron/aluminum (B/Al) and silicon-carbide/titanium (SCS-6/Ti-15-3), were predicted. The prediction methodology combines analytical techniques ranging from a three dimensional finite element analysis of a notched specimen to a micromechanical model of a single fiber. In the B/Al laminates, a fiber failure criteria based on the axial and shear stress in the fiber accurately predicted laminate failure for a variety of layups and notch-length to specimen-width ratios with both circular holes and sharp notches when matrix plasticity was included in the analysis. For the SCS-6/Ti-15-3 laminates, a fiber failure based on the axial stress in the fiber correlated well with experimental results for static and post fatigue residual strengths when fiber matrix debonding and matrix cracking were included in the analysis. The micromechanics based strength prediction methodology offers a direct approach to strength prediction by modeling behavior and damage on a constituent level, thus, explicitly including matrix nonlinearity, fiber matrix debonding, and matrix cracking.

  8. Predicting nucleosome positioning based on geometrically transformed Tsallis entropy.

    PubMed

    Wu, Jing; Zhang, Yusen; Mu, Zengchao

    2014-01-01

    As the fundamental unit of eukaryotic chromatin structure, nucleosome plays critical roles in gene expression and regulation by controlling physical access to transcription factors. In this paper, based on the geometrically transformed Tsallis entropy and two index-vectors, a valid nucleosome positioning information model is developed to describe the distribution of A/T-riched and G/C-riched dimeric and trimeric motifs along the DNA duplex. When applied to train the support vector machine, the model achieves high AUCs across five organisms, which have significantly outperformed the previous studies. Besides, we adopt the concept of relative distance to describe the probability of arbitrary DNA sequence covered by nucleosome. Thus, the average nucleosome occupancy profile over the S.cerevisiae genome is calculated. With our peak detection model, the isolated nucleosomes along genome sequence are located. When compared with some published results, it shows that our model is effective for nucleosome positioning. The index-vector component [Formula in text] is identified to be an important influencing factor of nucleosome organizations.

  9. Fragment-based prediction of skin sensitization using recursive partitioning.

    PubMed

    Lu, Jing; Zheng, Mingyue; Wang, Yong; Shen, Qiancheng; Luo, Xiaomin; Jiang, Hualiang; Chen, Kaixian

    2011-09-01

    Skin sensitization is an important toxic endpoint in the risk assessment of chemicals. In this paper, structure-activity relationships analysis was performed on the skin sensitization potential of 357 compounds with local lymph node assay data. Structural fragments were extracted by GASTON (GrAph/Sequence/Tree extractiON) from the training set. Eight fragments with accuracy significantly higher than 0.73 (p<0.1) were retained to make up an indicator descriptor fragment. The fragment descriptor and eight other physicochemical descriptors closely related to the endpoint were calculated to construct the recursive partitioning tree (RP tree) for classification. The balanced accuracy of the training set, test set I, and test set II in the leave-one-out model were 0.846, 0.800, and 0.809, respectively. The results highlight that fragment-based RP tree is a preferable method for identifying skin sensitizers. Moreover, the selected fragments provide useful structural information for exploring sensitization mechanisms, and RP tree creates a graphic tree to identify the most important properties associated with skin sensitization. They can provide some guidance for designing of drugs with lower sensitization level.

  10. Fragment-based prediction of skin sensitization using recursive partitioning

    NASA Astrophysics Data System (ADS)

    Lu, Jing; Zheng, Mingyue; Wang, Yong; Shen, Qiancheng; Luo, Xiaomin; Jiang, Hualiang; Chen, Kaixian

    2011-09-01

    Skin sensitization is an important toxic endpoint in the risk assessment of chemicals. In this paper, structure-activity relationships analysis was performed on the skin sensitization potential of 357 compounds with local lymph node assay data. Structural fragments were extracted by GASTON (GrAph/Sequence/Tree extractiON) from the training set. Eight fragments with accuracy significantly higher than 0.73 ( p < 0.1) were retained to make up an indicator descriptor fragment. The fragment descriptor and eight other physicochemical descriptors closely related to the endpoint were calculated to construct the recursive partitioning tree (RP tree) for classification. The balanced accuracy of the training set, test set I, and test set II in the leave-one-out model were 0.846, 0.800, and 0.809, respectively. The results highlight that fragment-based RP tree is a preferable method for identifying skin sensitizers. Moreover, the selected fragments provide useful structural information for exploring sensitization mechanisms, and RP tree creates a graphic tree to identify the most important properties associated with skin sensitization. They can provide some guidance for designing of drugs with lower sensitization level.

  11. Structure Based Predictive Model for Coal Char Combustion

    SciTech Connect

    Robert Hurt; Joseph Calo; Robert Essenhigh; Christopher Hadad

    2000-12-30

    This unique collaborative project has taken a very fundamental look at the origin of structure, and combustion reactivity of coal chars. It was a combined experimental and theoretical effort involving three universities and collaborators from universities outside the U.S. and from U.S. National Laboratories and contract research companies. The project goal was to improve our understanding of char structure and behavior by examining the fundamental chemistry of its polyaromatic building blocks. The project team investigated the elementary oxidative attack on polyaromatic systems, and coupled with a study of the assembly processes that convert these polyaromatic clusters to mature carbon materials (or chars). We believe that the work done in this project has defined a powerful new science-based approach to the understanding of char behavior. The work on aromatic oxidation pathways made extensive use of computational chemistry, and was led by Professor Christopher Hadad in the Department of Chemistry at Ohio State University. Laboratory experiments on char structure, properties, and combustion reactivity were carried out at both OSU and Brown, led by Principle Investigators Joseph Calo, Robert Essenhigh, and Robert Hurt. Modeling activities were divided into two parts: first unique models of crystal structure development were formulated by the team at Brown (PI'S Hurt and Calo) with input from Boston University and significant collaboration with Dr. Alan Kerstein at Sandia and with Dr. Zhong-Ying chen at SAIC. Secondly, new combustion models were developed and tested, led by Professor Essenhigh at OSU, Dieter Foertsch (a collaborator at the University of Stuttgart), and Professor Hurt at Brown. One product of this work is the CBK8 model of carbon burnout, which has already found practical use in CFD codes and in other numerical models of pulverized fuel combustion processes, such as EPRI's NOxLOI Predictor. The remainder of the report consists of detailed technical

  12. STRUCTURE-BASED PREDICTIVE MODEL FOR COAL CHAR COMBUSTION

    SciTech Connect

    Robert H. Hurt; Eric M. Suuberg

    2000-05-03

    This report is part on the ongoing effort at Brown University and Ohio State University to develop structure based models of coal combustion. A very fundamental approach is taken to the description of coal chars and their reaction processes, and the results are therefore expected to have broad applicability to the spectrum of carbon materials of interest in energy technologies. This quarter, our work on structure development in carbons continued. A combination of hot stage in situ and ex situ polarized light microscopy was used to identify the preferred orientational of graphene layers at gas interfaces in pitches used as carbon material precursors. The experiments show that edge-on orientation is the equilibrium state of the gas/pitch interface, implying that basal-rich surfaces have higher free energies than edge-rich surfaces in pitch. This result is in agreement with previous molecular modeling studies and TEM observations in the early stages of carbonization. The results may have important implications for the design of tailored carbons with edge-rich or basal-rich surfaces. In the computational chemistry task, we have continued our investigations into the reactivity of large aromatic rings. The role of H-atom abstraction as well as radical addition to monocyclic aromatic rings has been examined, and a manuscript is currently being revised after peer review. We have also shown that OH radical is more effective than H atom in the radical addition process with monocyclic rings. We have extended this analysis to H-atom and OH-radical addition to phenanthrene. Work on combustion kinetics focused on the theoretical analysis of the data previously gathered using thermogravametric analysis.

  13. Detection of antimicrobial activity of banana peel (Musa paradisiaca L.) on Porphyromonas gingivalis and Aggregatibacter actinomycetemcomitans: An in vitro study

    PubMed Central

    Kapadia, Suraj Premal; Pudakalkatti, Pushpa S.; Shivanaikar, Sachin

    2015-01-01

    Introduction and Aim: Banana is used widely because of its nutritional values. In past, there are studies that show banana plant parts, and their fruits can be used to treat the human diseases. Banana peel is a part of banana fruit that also has the antibacterial activity against microorganisms but has not been studied extensively. Since, there are no studies that relate the antibacterial activity of banana peel against periodontal pathogens. Hence, the aim of this study is to determine the antimicrobial activity of banana peel extract on Porphyromonas gingivalis (P. gingivalis) and Aggregatibacter actinomycetemcomitans (A. actinomycetemcomitans). Material and Methods: Standard strains of P. gingivalis and A. actinomycetemcomitans were used in this study which was obtained from the in-house bacterial bank of Department of Molecular Biology and Immunology at Maratha Mandal's Nathajirao G. Halgekar Institute of Dental Sciences and Research Centre. The banana peel extract was prepared, and the antibacterial activity was assessed using well agar diffusion method and minimum inhibitory concentration was assessed using serial broth dilution method. Results: In the current study, both the tested microorganisms showed antibacterial activity. In well diffusion method, P. gingivalis and A. actinomycetemcomitans showed 15 mm and 12 mm inhibition zone against an alcoholic extract of banana peel, respectively. In serial broth dilution method P. gingivalis and A. actinomycetemcomitans were sensitive until 31.25 μg/ml dilutions. Conclusion: From results of the study, it is suggested that an alcoholic extract of banana peel has antimicrobial activity against P. gingivalis and A. actinomycetemcomitans. PMID:26681854

  14. A data base approach for prediction of deforestation-induced mass wasting events

    NASA Technical Reports Server (NTRS)

    Logan, T. L.

    1981-01-01

    A major topic of concern in timber management is determining the impact of clear-cutting on slope stability. Deforestation treatments on steep mountain slopes have often resulted in a high frequency of major mass wasting events. The Geographic Information System (GIS) is a potentially useful tool for predicting the location of mass wasting sites. With a raster-based GIS, digitally encoded maps of slide hazard parameters can be overlayed and modeled to produce new maps depicting high probability slide areas. The present investigation has the objective to examine the raster-based information system as a tool for predicting the location of the clear-cut mountain slopes which are most likely to experience shallow soil debris avalanches. A literature overview is conducted, taking into account vegetation, roads, precipitation, soil type, slope-angle and aspect, and models predicting mass soil movements. Attention is given to a data base approach and aspects of slide prediction.

  15. A Physics-Informed Machine Learning Framework for RANS-based Predictive Turbulence Modeling

    NASA Astrophysics Data System (ADS)

    Xiao, Heng; Wu, Jinlong; Wang, Jianxun; Ling, Julia

    2016-11-01

    Numerical models based on the Reynolds-averaged Navier-Stokes (RANS) equations are widely used in turbulent flow simulations in support of engineering design and optimization. In these models, turbulence modeling introduces significant uncertainties in the predictions. In light of the decades-long stagnation encountered by the traditional approach of turbulence model development, data-driven methods have been proposed as a promising alternative. We will present a data-driven, physics-informed machine-learning framework for predictive turbulence modeling based on RANS models. The framework consists of three components: (1) prediction of discrepancies in RANS modeled Reynolds stresses based on machine learning algorithms, (2) propagation of improved Reynolds stresses to quantities of interests with a modified RANS solver, and (3) quantitative, a priori assessment of predictive confidence based on distance metrics in the mean flow feature space. Merits of the proposed framework are demonstrated in a class of flows featuring massive separations. Significant improvements over the baseline RANS predictions are observed. The favorable results suggest that the proposed framework is a promising path toward RANS-based predictive turbulence in the era of big data. (SAND2016-7435 A).

  16. Improving Computational Efficiency of Prediction in Model-Based Prognostics Using the Unscented Transform

    NASA Technical Reports Server (NTRS)

    Daigle, Matthew John; Goebel, Kai Frank

    2010-01-01

    Model-based prognostics captures system knowledge in the form of physics-based models of components, and how they fail, in order to obtain accurate predictions of end of life (EOL). EOL is predicted based on the estimated current state distribution of a component and expected profiles of future usage. In general, this requires simulations of the component using the underlying models. In this paper, we develop a simulation-based prediction methodology that achieves computational efficiency by performing only the minimal number of simulations needed in order to accurately approximate the mean and variance of the complete EOL distribution. This is performed through the use of the unscented transform, which predicts the means and covariances of a distribution passed through a nonlinear transformation. In this case, the EOL simulation acts as that nonlinear transformation. In this paper, we review the unscented transform, and describe how this concept is applied to efficient EOL prediction. As a case study, we develop a physics-based model of a solenoid valve, and perform simulation experiments to demonstrate improved computational efficiency without sacrificing prediction accuracy.

  17. Label Propagation Prediction of Drug-Drug Interactions Based on Clinical Side Effects.

    PubMed

    Zhang, Ping; Wang, Fei; Hu, Jianying; Sorrentino, Robert

    2015-07-21

    Drug-drug interaction (DDI) is an important topic for public health, and thus attracts attention from both academia and industry. Here we hypothesize that clinical side effects (SEs) provide a human phenotypic profile and can be translated into the development of computational models for predicting adverse DDIs. We propose an integrative label propagation framework to predict DDIs by integrating SEs extracted from package inserts of prescription drugs, SEs extracted from FDA Adverse Event Reporting System, and chemical structures from PubChem. Experimental results based on hold-out validation demonstrated the effectiveness of the proposed algorithm. In addition, the new algorithm also ranked drug information sources based on their contributions to the prediction, thus not only confirming that SEs are important features for DDI prediction but also paving the way for building more reliable DDI prediction models by prioritizing multiple data sources. By applying the proposed algorithm to 1,626 small-molecule drugs which have one or more SE profiles, we obtained 145,068 predicted DDIs. The predicted DDIs will help clinicians to avoid hazardous drug interactions in their prescriptions and will aid pharmaceutical companies to design large-scale clinical trial by assessing potentially hazardous drug combinations. All data sets and predicted DDIs are available at http://astro.temple.edu/~tua87106/ddi.html.

  18. PROTEUS2: a web server for comprehensive protein structure prediction and structure-based annotation.

    PubMed

    Montgomerie, Scott; Cruz, Joseph A; Shrivastava, Savita; Arndt, David; Berjanskii, Mark; Wishart, David S

    2008-07-01

    PROTEUS2 is a web server designed to support comprehensive protein structure prediction and structure-based annotation. PROTEUS2 accepts either single sequences (for directed studies) or multiple sequences (for whole proteome annotation) and predicts the secondary and, if possible, tertiary structure of the query protein(s). Unlike most other tools or servers, PROTEUS2 bundles signal peptide identification, transmembrane helix prediction, transmembrane beta-strand prediction, secondary structure prediction (for soluble proteins) and homology modeling (i.e. 3D structure generation) into a single prediction pipeline. Using a combination of progressive multi-sequence alignment, structure-based mapping, hidden Markov models, multi-component neural nets and up-to-date databases of known secondary structure assignments, PROTEUS is able to achieve among the highest reported levels of predictive accuracy for signal peptides (Q2 = 94%), membrane spanning helices (Q2 = 87%) and secondary structure (Q3 score of 81.3%). PROTEUS2's homology modeling services also provide high quality 3D models that compare favorably with those generated by SWISS-MODEL and 3D JigSaw (within 0.2 A RMSD). The average PROTEUS2 prediction takes approximately 3 min per query sequence. The PROTEUS2 server along with source code for many of its modules is accessible a http://wishart.biology.ualberta.ca/proteus2.

  19. Adaptive Data-based Predictive Control for Short Take-off and Landing (STOL) Aircraft

    NASA Technical Reports Server (NTRS)

    Barlow, Jonathan Spencer; Acosta, Diana Michelle; Phan, Minh Q.

    2010-01-01

    Data-based Predictive Control is an emerging control method that stems from Model Predictive Control (MPC). MPC computes current control action based on a prediction of the system output a number of time steps into the future and is generally derived from a known model of the system. Data-based predictive control has the advantage of deriving predictive models and controller gains from input-output data. Thus, a controller can be designed from the outputs of complex simulation code or a physical system where no explicit model exists. If the output data happens to be corrupted by periodic disturbances, the designed controller will also have the built-in ability to reject these disturbances without the need to know them. When data-based predictive control is implemented online, it becomes a version of adaptive control. The characteristics of adaptive data-based predictive control are particularly appropriate for the control of nonlinear and time-varying systems, such as Short Take-off and Landing (STOL) aircraft. STOL is a capability of interest to NASA because conceptual Cruise Efficient Short Take-off and Landing (CESTOL) transport aircraft offer the ability to reduce congestion in the terminal area by utilizing existing shorter runways at airports, as well as to lower community noise by flying steep approach and climb-out patterns that reduce the noise footprint of the aircraft. In this study, adaptive data-based predictive control is implemented as an integrated flight-propulsion controller for the outer-loop control of a CESTOL-type aircraft. Results show that the controller successfully tracks velocity while attempting to maintain a constant flight path angle, using longitudinal command, thrust and flap setting as the control inputs.

  20. DNA-based eye colour prediction across Europe with the IrisPlex system.

    PubMed

    Walsh, Susan; Wollstein, Andreas; Liu, Fan; Chakravarthy, Usha; Rahu, Mati; Seland, Johan H; Soubrane, Gisele; Tomazzoli, Laura; Topouzis, Fotis; Vingerling, Johannes R; Vioque, Jesus; Fletcher, Astrid E; Ballantyne, Kaye N; Kayser, Manfred

    2012-05-01

    The ability to predict Externally Visible Characteristics (EVCs) from DNA, also referred to as Forensic DNA Phenotyping (FDP), is an exciting new chapter in forensic genetics holding great promise for tracing unknown individuals who are unidentifiable via standard forensic short tandem repeat (STR) profiling. For the purpose of DNA-based eye colour prediction, we previously developed the IrisPlex system consisting of a multiplex genotyping assay and a prediction model based on genotype and phenotype data from 3804 Dutch Europeans. Recently, we performed a forensic developmental validation study of the highly sensitive IrisPlex assay, which currently represents the only validated tool available for DNA-based prediction of eye colour in forensic applications. In the present study, we validate the IrisPlex prediction model by extending our initially described model towards genotype and phenotype data from multiple European populations. We performed IrisPlex analysis on 3840 individuals from seven sites across Europe as part of the European Eye (EUREYE) study for which DNA and high-resolution eye images were available. The accuracy rate of correctly predicting an individual's eye colour as being blue or brown, above the empirically established probability threshold of 0.7, was on average 94% across all seven European populations, ranging from 91% to 98%, despite the large variation in eye colour frequencies between the populations. The overall prediction accuracies expressed by the area under the receiver characteristic operating curves (AUC) were 0.96 for blue and 0.96 for brown eyes, which is considerably higher than those established before. The IrisPlex prediction model parameters generated from this multi-population European dataset, and thus its prediction capabilities, were highly comparable to those previously established. Therefore, the increased information regarding eye colour phenotype and genotype distributions across Europe, and the system's ability to