Sample records for agar diffusion method

  1. In vitro antifungal susceptibility testing of Scopulariopsis brevicaulis strains using agar diffusion method.

    PubMed

    Skóra, Magdalena; Macura, Anna B

    2011-01-01

    The genus Scopulariopsis is a common soil saprotroph and has been isolated from air, organic waste and also from plant, animal and human tissues. Scopulariopsis has mainly been associated in humans with superficial mycoses, but it has also been described as the cause of subcutaneous and invasive infections. The most common aetiological agent of infections in humans is Scopulariopsis brevicaulis. This species has been reported to be resistant in vitro to broad-spectrum antifungal agents available today. The aim of the study was to establish in vitro antifungal susceptibility of 35 S. brevicaulis strains against amphotericin B (AMB), flucytosine (FC), caspofungin (CAS), terbinafine (TER), ciclopirox (CIC), voriconazole (VOR), clotrimazole (CTR), miconazole (MCZ), econazole (ECO), ketoconazole (KET), itraconazole (ITR), and fluconazole (FLU). Antifungal susceptibility tests were evaluated by an agar diffusion method (Neo-Sensitabs, Rosco, Denmark). AMB, FC, CAS, ITR and FLU showed no antifungal activity against S. brevicaulis. TER, CIC, CTR, KET, VOR, ECO, and MCZ revealed inhibitory activity for S. brevicaulis, but it varied for each of the drugs. The best antifungal effect was observed for TER and CIC. All isolates had large inhibition zones for TER and CIC. CTR was also inhibitory for all tested S. brevicaulis isolates, but the diameters of inhibition zones were smaller than for TER and CIC. Nearly 89% isolates showed inhibition zones for KET and the mean diameter of the inhibition zone was comparable to CTR. The least antifungal activity exhibited VQR, ECO and MCZ. Because of the multiresistance of S. brevicaulis, infections due to this species may not respond to particular antifungal treatment and other therapeutic approaches should be considered, e.g., combined therapy and/or surgery. PMID:21682097

  2. Comparison of Microscan Broth Microdilution, Synergy Quad Plate Agar Dilution, and Disk Diffusion Screening Methods for Detection of High-Level Aminoglycoside Resistance in Enterococcus Species

    PubMed Central

    Murdoch, David R.; Mirrett, Stanley; Harrell, Lizzie J.; Donabedian, Susan M.; Zervos, Marcus J.; Reller, L. Barth

    2003-01-01

    We compared the dried MicroScan microdilution panel, Synergy Quad plate agar dilution, and high-potency disk diffusion screening methods for the detection of high-level aminoglycoside resistance in 815 enterococcal bloodstream isolates. Agreement between the three methods was 99% when testing for high-level gentamicin resistance and 96% when testing for high-level streptomycin resistance. PMID:12791910

  3. The antibacterial activity of sodium hypochlorite and chlorhexidine against Enterococcus faecalis: A review on agar diffusion and direct contact methods

    PubMed Central

    Luddin, Norhayati; Ahmed, Hany Mohamed Aly

    2013-01-01

    Complete debridement and disinfection of the root canal system are fundamental requirements for successful endodontic treatment. Despite the morphological challenges of the internal root anatomy, root canal irrigants play an important role in the optimization of the root canal preparation, which is essentially a chemo-mechanical procedure. Enterococcus faecalis is one of the most resistant microorganisms that dominants the microbial ecosystem of persistent periradicular lesions in retreatment cases. For that reason, many in vitro and in vivo studies evaluated and compared the antibacterial activity of sodium hypochlorite and chlorhexidine at varying concentrations using different experimental models against this microorganism. However, many controversies with regard to the ideal irrigant and concentration do in fact exist. Hence, this review aims to discuss the antibacterial activity of these two main root canal irrigants against Enterococcus faecalis using the agar diffusion and direct contact methods and the possible modulating factors responsible for inconsistent findings among different studies. In addition, the disinfection potential of both chemical agents on gutta percha and Resilon cones are also discussed. The source of this review was conducted through an electronic literature search using PubMed database from December 1997 until December 2011, which analyze the related laboratory investigations of both irrigants, published in major endodontic journals. PMID:23349569

  4. The antibacterial activity of sodium hypochlorite and chlorhexidine against Enterococcus faecalis: A review on agar diffusion and direct contact methods.

    PubMed

    Luddin, Norhayati; Ahmed, Hany Mohamed Aly

    2013-01-01

    Complete debridement and disinfection of the root canal system are fundamental requirements for successful endodontic treatment. Despite the morphological challenges of the internal root anatomy, root canal irrigants play an important role in the optimization of the root canal preparation, which is essentially a chemo-mechanical procedure. Enterococcus faecalis is one of the most resistant microorganisms that dominants the microbial ecosystem of persistent periradicular lesions in retreatment cases. For that reason, many in vitro and in vivo studies evaluated and compared the antibacterial activity of sodium hypochlorite and chlorhexidine at varying concentrations using different experimental models against this microorganism. However, many controversies with regard to the ideal irrigant and concentration do in fact exist. Hence, this review aims to discuss the antibacterial activity of these two main root canal irrigants against Enterococcus faecalis using the agar diffusion and direct contact methods and the possible modulating factors responsible for inconsistent findings among different studies. In addition, the disinfection potential of both chemical agents on gutta percha and Resilon cones are also discussed. The source of this review was conducted through an electronic literature search using PubMed database from December 1997 until December 2011, which analyze the related laboratory investigations of both irrigants, published in major endodontic journals. PMID:23349569

  5. Antibiotic susceptibility testing (agar disk diffusion and agar dilution) of clinical isolates of Corynebacterium jeikeium.

    PubMed

    Traub, W H; Geipel, U; Leonhard, B; Bauer, D

    1998-01-01

    Thirty-three clinical isolates of Corynebacterium jeikeium were examined for susceptibility to 27 antimicrobial drugs with the agar dilution test. Sheep-blood-supplemented Mueller-Hinton agar performed better than Wilkins-Chalgren agar. Disk susceptibility (Bauer-Kirby) tests were carried out in parallel with 24 of the chemotherapeutic agents. All isolates were susceptible to teicoplanin and vancomycin. All isolates resisted fosfomycin, mupirocin, and trimethoprim-sulfamethoxazole. The isolates varied in susceptibility to ciprofloxacin, doxycycline, fusidic acid, ofloxacin, and tetracycline; most were susceptible to rifampin. Surprisingly few discrepancies between agar dilution and disk diffusion tests were encountered when utilizing NCCLS interpretive criteria currently valid for enterococcal isolates. PMID:9681199

  6. Antimicrobial activity of seven root canal sealers. Results of agar diffusion and agar dilution tests.

    PubMed

    Pumarola, J; Berastegui, E; Brau, E; Canalda, C; Jiménez de Anta, M T

    1992-08-01

    A comparative study of the antimicrobial action of seven root canal sealers: Traitement Spad, Endométhasone, N2 Universal, Diaket-A, AH26 with silver, Tubli Seal, and Sealapex was done with 120 strains of Staphylococcus aureus. Two antimicrobial susceptibility tests were used: the agar dilution test and the agar diffusion test. The Diaket-A and Traitement Spad sealer cements showed the highest efficiency in the dilution test, whereas Diaket-A was in fourth place in the diffusion test, only better than the antimicrobial activity of the Tubli Seal and Sealapex sealers. PMID:1508532

  7. Arbovirus Identification by an Agar-Gel Diffusion Technique

    PubMed Central

    Calisher, C. H.; Maness, K. S. C.

    1970-01-01

    A double diffusion-in-agar test was used to investigate precipitation reactions of 75 arboviruses. Specific reactions were regularly observed with members of arbovirus groups B, California, Simbu, Turlock, Hart Park, vesicular stomatitis, and several other arboviruses as well as with a member of the Tacaribe group and a herpesvirus. The results demonstrated the feasibility of applying this technique to the identification of arboviruses. PMID:4315859

  8. Agar disk diffusion (Bauer-Kirby) tests with various fastidious and nonfastidious reference (ATCC) strains: comparison of several agar media.

    PubMed

    Traub, W H; Leonhard, B

    1994-01-01

    Several agar media (Mueller-Hinton agar, MHA; diagnostic sensitivity test agar, DSTA; Schaedler agar, SchA; Todd-Hewitt agar with added yeast extract, THYA; Wilkins-Chalgren agar, WCA) were compared using the Bauer-Kirby agar disk diffusion test against six nonfastidious quality control strains: Staphylococcus aureus ATCC 25923 and ATCC 29213, Escherichia coli ATCC 25922 and ATCC 35218, Pseudomonas aeruginosa ATCC 27853, and Enterococcus faecalis ATCC 29212. MHA, DSTA, and THYA yielded essentially comparable inhibition zones. However, WCA and SchA antagonized cotrimoxazole and aminoglycoside antibiotics; furthermore, SchA antagonized polymyxin B, and both WCA and SchA antagonized imipenem against the P. aeruginosa strain, but not against the E. coli strains. Sheep blood-MHA (Bl-MHA), WCA, THYA, and DSTA were examined with Streptococcus pyogenes ATCC 19615, Streptococcus agalactiae ATCC 13813, and Streptococcus pneumoniae ATCC 6306. In comparison with Bl-MHA, both WCA and THYA yielded comparable inhibition zones against S. pyogenes; DSTA afforded suboptimal growth. DSTA yielded larger inhibition zones with the majority of antimicrobial drugs against S. agalactiae, whereas WCA and THYA enhanced the activity of oxacillin and penicillin G against this strain. S. pneumoniae strain ATCC 6306 grew well on Bl-MHA, yielded suboptimal growth on WCA and faint growth on THYA, and failed to grow on DSTA. Chocolate-supplemented sheep blood-MHA (CHOC-MHA) was compared with Haemophilus test medium (HTM), WCA with added NAD, and THYA with added hematin and NAD against Haemophilus influenzae strains ATCC 35056 and ATCC 49247. The activities of doxycycline and rifampin were enhanced against both strains by HTM, WCA+NAD, and THYA+hematin+NAD. Only WCA+NAD antagonized cotrimoxazole against both H. influenzae strains, an effect due to thymidine; however, HTM antagonized cotrimoxazole against S. aureus ATCC 25923 and E. coli ATCC 25922. It was concluded that Bl-MHA performed best for beta-hemolytic streptococci quality control strains. Likewise, CHOC-MHA was optimal for the two H. influenzae strains used in this comparative agar disk diffusion study. PMID:7842820

  9. Screening fungicides for use in fish culture: Evaluation of the agar plug transfer, cellophane transfer, and agar dilution methods

    USGS Publications Warehouse

    Bailey, Tom A.

    1983-01-01

    The reliability, reproducibility, and usefulness of three screening methods -- the cellophane transfer, the agar plug transfer, and the agar dilution -- to screen aquatic fungicides were evaluated. Achlya flagellata and Saprolegnia hypogyna were exposed to 1, 10, and 100 mg/L of malachite green to test each method. The cellophane transfer and agar plug transfer techniques had similar reliability and reproducibility in rating fungicidal activity, and were both superior to the agar dilution technique. The agar plug transfer and agar dilution techniques adequately projected in vivo activity of malachite green, but the cellophane transfer technique overestimated its activity. Overall, the agar plug transfer technique most accurately rated the activity of malachite green and was the easiest test to perform. It therefore appears to be the method of choice for testing aquatic fungicides.

  10. Diffusion of Methylene Blue in Phantoms of Agar Using a Photoacoustic Technique

    NASA Astrophysics Data System (ADS)

    Vilca-Quispe, L.; Alvarado-Gil, J. J.; Quintana, P.; Ordonez-Miranda, J.

    2010-05-01

    In this work, the kinetics of diffusion of methylene blue in agar aqueous solution is studied using a photoacoustic technique. Two agar phantoms solutions in water with a relation of mass/volume of 0.01% and 0.05% were analyzed. The study was performed using a modified Rosencwaig photoacoustic cell that is enclosed by transparent windows, on both sides. The sample is deposited directly on top of the upper window. A red light beam, at a fixed modulation frequency, is sent through the lower window illuminating the sample and inducing the photoacoustic effect inside the closed chamber of the cell. At the beginning of the experiment, a droplet of 100?L of agar solution is deposited; afterwards, the signal stabilizes, and 10?L of methylene blue aqueous solution (0.0125 g · mL-1) is added to the surface of the agar. During the first seconds of the experiment, the photoacoustic signal amplitude increases followed by a gradual and long decay. Results for modulation frequencies in the range from 10Hz to 80Hz for both agar concentrations are presented. A simple theoretical approach is presented to analyze the experimental data. It is demonstrated that the kinetics of the process can be parameterized as a function of the changes of an effective optical absorption coefficient. From these results, the characteristic time, in which the dye diffusion process stabilizes, is obtained. It is found that this time is larger for samples with a higher agar concentration. These differences provide important results for biomedical sciences in which agar gels are used as phantoms resembling some of the properties of living organs and tissues.

  11. Antibiotic susceptibility testing (agar disk diffusion and agar dilution) of clinical isolates of Enterococcus faecalis and E. faecium: comparison of Mueller-Hinton, Iso-Sensitest, and Wilkins-Chalgren agar media.

    PubMed

    Traub, W H; Geipel, U; Leonhard, B

    1998-01-01

    Forty-two isolates of Enterococcus faecalis and 56 isolates of Enterococcus faecium, including 8 vancomycin-resistant strains, were examined for comparative susceptibility to 27 antimicrobial drugs with the agar dilution method, employing Mueller-Hinton (MHA), Iso-Sensitest (ISTA), and Wilkins-Chalgren (WCA) agar. The Bauer-Kirby agar disk diffusion method was used to comparatively test 24 of the agents in parallel. The enterococci yielded better growth on ISTA and WCA. However, WCA completely antagonized co-trimoxazole and, though less, fosfomycin. Importantly, WCA slightly reduced the activities of teicoplanin (minimal inhibitory concentrations, MICs, raised up to twofold) and vancomycin (MICs raised two- to fourfold) against enterococci and staphylococcal quality control strains. Therefore, WCA was judged unsuitable for susceptibility testing of enterococci. For E. faecalis no discrepancies between agar dilution MICs and inhibition zone diameters were encountered with augmentin, ampicillin, ampicillin-sulbactam, chloramphenicol, mupirocin, oxacillin, teicoplanin, and co-trimoxazole. Overall, MHA yielded fewer very major (category I) and major (category II) discrepancies than ISTA. However, numerous minor (category III), slight (category IV), minimal (category V), and/or negligible (category VI) discrepancies were encountered with ciprofloxacin, doxycycline, erythromycin, fosfomycin, fusidic acid, meropenem, ofloxacin and rifampin. With respect to E. faecium, only cefotaxime, mupirocin, oxacillin, and teicoplanin yielded nondiscrepant results. Several very major (I) and major (II) discrepancies were observed with augmentin, ampicillin, ampicillin-sulbactam, doxycycline, fusidic acid, imipenem, and penicillin G. Minor discrepancies (categories III-VI) were particularly numerous with augmentin, chloramphenicol, ciprofloxacin, doxycycline, and piperacillin. The largest numbers of negligible (VI) discrepancies were noted with fosfomycin, fusidic acid, and ofloxacin. It is recommended to test one cephalosporin (cefuroxime or the like) in parallel for educational purposes and to exclude fosfomycin, fusidic acid, and rifampin from test batteries because of the wide scatter of test results. The large number of minimal (V) discrepancies of ciprofloxacin against E. faecalis, the numerous minor (III) and slight (IV) discrepancies of chloramphenicol against E. faecium, and the not insignificant number of very major (I) and minor (III) discrepancies observed with meropenem against isolates of E. faecalis necessitated proposals for new disk intermediate susceptibility criteria. PMID:9681198

  12. Combination cellulose plate (non-agar solid support) and agar plate method improves isolation of fungi from soil.

    PubMed

    Nonaka, Kenichi; Todaka, Nemuri; ?mura, Satoshi; Masuma, Rokuro

    2014-11-01

    This is the first report describing the improved isolation of common filamentous fungi via a method combining cellulose plate and agar plate system. A cellulose plate is a porous plate made of nanofibrous crystaline cellulose. Isolating fungi from soils using these types of media separately resulted in the number of fungal colonies appearing on cellulose plates being lower than that on agar plates. However, the number of actual fungal species isolated using cellulose plates alone was more or less the same as that found using agar plates. Significantly, the diversity of isolates using a combination of the two media was greater than using each media individually. As a result, numerous new or rare fungal species with potential, including previously proposed new species, were isolated successfully in this way. All fungal colonies, including the Penicillium species, that appeared on the cellulose plate penetrated in potato dextrose were either white or yellow. Cultivation on cellulose plates with added copper ion overcomes the change in coloration, the colonies appearing as they do following cultivation on potato dextrose agar. PMID:24849537

  13. Antimicrobial susceptibility testing for Helicobacter pylori isolates from Brazilian children and adolescents: Comparing agar dilution, E-test, and disk diffusion

    PubMed Central

    Ogata, Silvio Kazuo; Gales, Ana Cristina; Kawakami, Elisabete

    2014-01-01

    Antimicrobial susceptibility testing for Helicobacter pylori is increasingly important due to resistance to the most used antimicrobials agents. Only agar dilution method is approved by CLSI, but it is difficult to perform routinely. We evaluated the reliability of E-test and disk diffusion comparing to agar dilution method on Helicobacter pylori antimicrobial susceptibility testing. Susceptibility testing was performed for amoxicillin, clarithromycin, furazolidone, metronidazole and tetracycline using E-test, disk-diffusion and agar dilution method in 77 consecutive Helicobacter pylori strains from dyspeptic children and adolescents. Resistance rates were: amoxicillin - 10.4%, 9% and 68.8%; clarithromycin - 19.5%, 20.8%, 36.3%; metronidazole - 40.2%33.7%, 38.9%, respectively by agar dilution, E-test and disk diffusion method. Furazolidone and tetracycline showed no resistance rates. Metronidazole presented strong correlation to E-test (r = 0.7992, p < 0.0001) and disk diffusion method (r=-0.6962, p < 0.0001). Clarithromycin presented moderate correlation to E-test (r = 0.6369, p < 0.0001) and disk diffusion method (r=?0.5656, p < 0.0001). Amoxicillin presented weak correlation to E-test (r = 0.3565, p = 0.0015) and disk diffusion (r=?0.3565, p = 0.0015). Tetracycline presented weak correlation with E-test (r = 0.2346, p = 0.04) and furazolidone to disk diffusion (r=?0.0288, p = 0.8038). E-test presented better agreement with gold standard. It is an easy and reliable method for Helicobacter pylori susceptibility testing. Disk diffusion method presented high disagreement and high rates of major errors. PMID:25763052

  14. Comparison of microtiter broth dilution and agar dilution methods for susceptibility testing of Eikenella corrodens.

    PubMed

    Goldstein, E J; Cherubin, C E; Shulman, M

    1983-01-01

    Eikenella corrodens is a slow-growing, capnophilic, gram-negative rod which often grows poorly in liquid media. Consequently, the agar dilution technique is the method of choice for susceptibility testing of E. corrodens. We report a new microtiter broth dilution method for susceptibility testing of E. corrodens which compared favorably with results obtained by the agar dilution technique. Minimal bactericidal concentrations correlated well with minimal inhibitory concentrations. PMID:6338819

  15. Smart approach to evaluate drug diffusivity in injectable agar-carbomer hydrogels for drug delivery.

    PubMed

    Santoro, M; Marchetti, P; Rossi, F; Perale, G; Castiglione, F; Mele, A; Masi, M

    2011-03-24

    Hydrogels are commonly studied for tissue engineering applications and controlled drug delivery. In order to evaluate their reliability as scaffolds and delivery devices, literature describes many release studies performed involving different analytical techniques. However, these experiments can be expensive, time-consuming, and often not reproducible. In this study, two injectable agar-carbomer-based hydrogels were studied, both being loaded with sodium fluorescein, a harmless fluorophore with a steric hindrance similar to many small drugs, such as for example steroids and other neuroprotecting agents. Starting from simple, traditional, and inexpensive release experiments, it was possible to indirectly estimate the self-diffusion coefficient (D) of loaded sodium fluorescein. Such a parameter was also directly measured in the gel matrix by means of high resolution magic angle spinning (HRMAS) diffusion-ordered spectroscopy NMR. Because of the agreement between the calculated values and those measured by HRMAS-NMR spectroscopy, the latter approach can be considered as a simple and fast alternative to long analytic procedures. PMID:21355616

  16. Diagnostic Accuracy Assessment of Sensititre and Agar Disk Diffusion for Determining Antimicrobial Resistance Profiles of Bovine Clinical Mastitis Pathogens?

    PubMed Central

    Saini, V.; Riekerink, R. G. M. Olde; McClure, J. T.; Barkema, H. W.

    2011-01-01

    Determining the accuracy and precision of a measuring instrument is pertinent in antimicrobial susceptibility testing. This study was conducted to predict the diagnostic accuracy of the Sensititre MIC mastitis panel (Sensititre) and agar disk diffusion (ADD) method with reference to the manual broth microdilution test method for antimicrobial resistance profiling of Escherichia coli (n = 156), Staphylococcus aureus (n = 154), streptococcal (n = 116), and enterococcal (n = 31) bovine clinical mastitis isolates. The activities of ampicillin, ceftiofur, cephalothin, erythromycin, oxacillin, penicillin, the penicillin-novobiocin combination, pirlimycin, and tetracycline were tested against the isolates. Diagnostic accuracy was determined by estimating the area under the receiver operating characteristic curve; intertest essential and categorical agreements were determined as well. Sensititre and the ADD method demonstrated moderate to highly accurate (71 to 99%) and moderate to perfect (71 to 100%) predictive accuracies for 74 and 76% of the isolate-antimicrobial MIC combinations, respectively. However, the diagnostic accuracy was low for S. aureus-ceftiofur/oxacillin combinations and other streptococcus-ampicillin combinations by either testing method. Essential agreement between Sensititre automatic MIC readings and MIC readings obtained by the broth microdilution test method was 87%. Essential agreement between Sensititre automatic and manual MIC reading methods was 97%. Furthermore, the ADD test method and Sensititre MIC method exhibited 92 and 91% categorical agreement (sensitive, intermediate, resistant) of results, respectively, compared with the reference method. However, both methods demonstrated lower agreement for E. coli-ampicillin/cephalothin combinations than for Gram-positive isolates. In conclusion, the Sensititre and ADD methods had moderate to high diagnostic accuracy and very good essential and categorical agreement for most udder pathogen-antimicrobial combinations and can be readily employed in veterinary diagnostic laboratories. PMID:21270215

  17. Diagnostic accuracy assessment of Sensititre and agar disk diffusion for determining antimicrobial resistance profiles of bovine clinical mastitis pathogens.

    PubMed

    Saini, V; Riekerink, R G M Olde; McClure, J T; Barkema, H W

    2011-04-01

    Determining the accuracy and precision of a measuring instrument is pertinent in antimicrobial susceptibility testing. This study was conducted to predict the diagnostic accuracy of the Sensititre MIC mastitis panel (Sensititre) and agar disk diffusion (ADD) method with reference to the manual broth microdilution test method for antimicrobial resistance profiling of Escherichia coli (n = 156), Staphylococcus aureus (n = 154), streptococcal (n = 116), and enterococcal (n = 31) bovine clinical mastitis isolates. The activities of ampicillin, ceftiofur, cephalothin, erythromycin, oxacillin, penicillin, the penicillin-novobiocin combination, pirlimycin, and tetracycline were tested against the isolates. Diagnostic accuracy was determined by estimating the area under the receiver operating characteristic curve; intertest essential and categorical agreements were determined as well. Sensititre and the ADD method demonstrated moderate to highly accurate (71 to 99%) and moderate to perfect (71 to 100%) predictive accuracies for 74 and 76% of the isolate-antimicrobial MIC combinations, respectively. However, the diagnostic accuracy was low for S. aureus-ceftiofur/oxacillin combinations and other streptococcus-ampicillin combinations by either testing method. Essential agreement between Sensititre automatic MIC readings and MIC readings obtained by the broth microdilution test method was 87%. Essential agreement between Sensititre automatic and manual MIC reading methods was 97%. Furthermore, the ADD test method and Sensititre MIC method exhibited 92 and 91% categorical agreement (sensitive, intermediate, resistant) of results, respectively, compared with the reference method. However, both methods demonstrated lower agreement for E. coli-ampicillin/cephalothin combinations than for Gram-positive isolates. In conclusion, the Sensititre and ADD methods had moderate to high diagnostic accuracy and very good essential and categorical agreement for most udder pathogen-antimicrobial combinations and can be readily employed in veterinary diagnostic laboratories. PMID:21270215

  18. Use of agar diffusion assay to evaluate bactericidal activity of formulations of alkaline salts of fatty acids against bacteria associated with poultry processing

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The agar diffusion assay was used to examine antibacterial activity of alkaline salts of fatty acids (FA). Wells in agar media seeded with bacteria were filled with FA-potassium hydroxide (KOH) solutions, plates were incubated, and zones of inhibition were measured. The relationship between bacteric...

  19. Agar plate method for rapid screening of rhizobium for tolerance to acid-aluminum stress

    SciTech Connect

    Ayanaba, A.; Asanuma, S.; Munns, D.N.

    1983-01-01

    An agar plate method has been developed for the rapid, preliminary screening of large numbers of rhizobia for tolerance to acidity and aluminum (acid-Al). Media containing pH indicators are used, and distinguish true tolerance from cases where growth depends on a previous pH shift. Strains which were highly tolerant or sensitive to acid Al on agar behaved similarly in defined liquid media. Strains that formed dry, pinpoint colonies were more sensitive to acid-Al than those that formed large, gummy colonies.

  20. MODIFIED AGAR MEDIUM FOR DETECTING ENVIRONMENTAL SALMONELLAE BY THE MOST-PROBABLE-NUMBER METHOD

    EPA Science Inventory

    Salmonellae in the environment remain a potential source of disease. Low numbers of salmonellae have been detected and enumerated from environmental samples by most probable number methods that require careful colony selection from plated agar medium. A modified xylose lysine bri...

  1. Modified agar medium for detecting environmental salmonellae by the most-probable-number method.

    PubMed Central

    Hussong, D; Enkiri, N K; Burge, W D

    1984-01-01

    Salmonellae in the environment remain a potential source of disease. Low numbers of salmonellae have been detected and enumerated from environmental samples by most-probable-number methods which require careful colony selection from a plated agar medium. A modified xylose lysine brilliant green medium was prepared to control the loss of selectivity caused by heating the brilliant green component. Added agar reduced colony spreading. The medium contained 47 g of xylose lysine agar base per liter; the agar content was adjusted to 2%, autoclaved, cooled to 50 degrees C, and then amended just before pouring to include H2S indicator and 7 ppm (7 ml of 1:1,000 brilliant green per liter) of unheated brilliant green dye. H2S-positive salmonellae were easily detected from sewage sludge compost to the exclusion of most other gram-negative bacteria. As a result, fewer non-salmonellae were picked for further most-probable-number analysis, greatly reducing the work load associated with the most-probable-number method. Direct plating was possible for enumerating salmonellae in laboratory composts containing ca. 10(3) or more salmonellae. PMID:6439119

  2. Comparison of the E Test and Agar Dilution Method for Antimicrobial Suceptibility Testing of Helicobacter pylori

    Microsoft Academic Search

    Y. Glupczynski; N. Broutet; A. Cantagrel; L. Andersen; T. Alarcon; M. López-Brea; F. Mégraud

    2002-01-01

    .  A multicentre study was carried out in order to validate the E test in comparison with the reference agar dilution method\\u000a for testing the susceptibility of Helicobacter pylori to amoxicillin, clarithromycin, and metronidazole. Ten clinical isolates and one control collection isolate (Helicobacter pylori ATCC 43504) were tes\\u000a \\u000a ted blindly at four centres according to a uniform methodology. The E test

  3. Bacterial interference in vitro. Comparison between a quantitative kinetic and a cocultivation blood agar test method.

    PubMed

    Johansson, A; Bergenholtz, A; Holm, S E

    1994-11-01

    The aim of the present study was to compare two methods for estimation of bacterial growth interference between various bacteria using a Bioscreen robot analyzer, allowing kinetic documentation, and a cocultivation test on blood agar plates. Six laboratory strains with different virulence and growth requirements were used: Actinobacillus actinomycetemcomitans, Porphyromonas gingivalis, Fusobacterium nucleatum, Streptococcus mitis, Staphylococcus aureus, and Staphylococcus epidermidis. The interference activity was correlated with a reference system of Streptococcus sanguis (strain alpha 89) and Streptococcus pyogenes (group A streptococci, GAS serotypes T 9 and T 22). The methods used and results obtained were as follows: 1. Estimation of synergistic and antagonistic bacterial interferences using a Bioscreen robot analyzer. Suspensions of viable bacteria were added to microtiter plates with different concentrations of UV light-killed bacteria in liquid media. The Bioscreen analyzer monitored bacterial growth every 10 min for 24 h giving kinetic data during the growth period. Synergisms as well as antagonisms were demonstrated between the tested bacterial strains which have not earlier been reported in the literature. However, the antagonistic effect observed between the six strains was less than that induced by the S. sanguis strain on the two strains of S. pyogenes. 2. Cocultivation of bacterial strains on blood agar surface with precultivated or simultaneously stamped interfering bacteria indicated no detectable interference between the six tested bacterial strains, while the S. sanguis strain inhibited the growth of S. pyogenes strains as well as the hemolysis around the colonies. The Bioscreen method was found more sensitive for testing bacterial interference compared to the commonly used blood agar test. PMID:7833000

  4. AgarTrap: a simplified Agrobacterium-mediated transformation method for sporelings of the liverwort Marchantia polymorpha L.

    PubMed

    Tsuboyama, Shoko; Kodama, Yutaka

    2014-01-01

    The liverwort Marchantia polymorpha L. is being developed as an emerging model plant, and several transformation techniques were recently reported. Examples are biolistic- and Agrobacterium-mediated transformation methods. Here, we report a simplified method for Agrobacterium-mediated transformation of sporelings, and it is termed Agar-utilized Transformation with Pouring Solutions (AgarTrap). The procedure of the AgarTrap was carried out by simply exchanging appropriate solutions in a Petri dish, and completed within a week, successfully yielding sufficient numbers of independent transformants for molecular analysis (e.g. characterization of gene/protein function) in a single experiment. The AgarTrap method will promote future molecular biological study in M. polymorpha. PMID:24259681

  5. COMPARISON OF MENTEROCOCCUS AGAR AND THE U.S. ENVIRONMENTAL PROTECTION AGENCY-RECOMENDED ENTEROCOCCI METHODS, ME AND MEI AGAR

    EPA Science Inventory

    To maintain waters that are "fishable and swimmable", mandated by the Clean Water Act, the U.S. Environmental Protection Agency (EPA) is developing a list of approved methods for use in enumerating enterococci and E. coli in ambient waters. As part of this effort, we compared mEn...

  6. Use of agar diffusion assay to measure bactericidal activity of alkaline salts of fatty acids against bacteria associated with poultry processing

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The agar diffusion assay was used to examine antibacterial activity of alkaline salts of caproic, caprylic, capric, lauric, and myristic acids. A 0.5M concentration of each fatty acid was dissolved in 1.0 M potassium hydroxide (KOH), and pH of the mixtures was adjusted to 10.5 with citric acid. Solu...

  7. Comparison of Broth Microdilution, E Test, and Agar Dilution Methods for Antibiotic Susceptibility Testing of Campylobacter jejuni and Campylobacter coli

    Microsoft Academic Search

    Petra Luber; Edda Bartelt; Elke Genschow; Jutta Wagner; Helmut Hahn

    2003-01-01

    A standardized broth microdilution method was compared to the E test and an agar dilution method for the antimicrobial susceptibility testing of Campylobacter jejuni and C. coli isolates. A group of 47 human clinical isolates, 37 isolates from retail poultry, and 29 isolates from living turkeys (total, 113 isolates) was included in the study. These encompassed 92 C. jejuni and

  8. Agar Block Smear Preparation: a Novel Method of Slide Preparation for Preservation of Native Fungal Structures for Microscopic Examination and Long-Term Storage?

    PubMed Central

    Woo, Patrick C. Y.; Ngan, Antonio H. Y.; Chui, Hon-Kit; Lau, Susanna K. P.; Yuen, Kwok-Yung

    2010-01-01

    We describe a novel method of fungal slide preparation named “agar block smear preparation.” A total of 510 agar block smears of 25 fungal strains obtained from culture collections, 90 QC fungal strains, and 82 clinical fungal strains from our clinical microbiology laboratory, which included a total of 137 species of yeasts, molds, and thermal dimorphic fungi, were prepared and examined. In contrast to adhesive tape preparation, agar block smears preserved the native fungal structures, such as intact conidiophores of Aspergillus species and arrangements of conidia in Scopulariopsis brevicaulis. Furthermore, agar block smears allowed examination of fungal structures embedded in the agar, such as the ascomata with ascomal hairs in Chaetomium funicola; pycnidium of Phoma glomerata; the intercalary ovoidal chlamydospores arranged in chains of Fusarium dimerum; and the lateral, spherical chlamydospores arranged in pairs of Fusarium solani. After 1 year of storage, morphological integrity was found to have been maintained in 459 (90%) of the 510 agar block smears. After 3 years of storage, morphological integrity was found to have been maintained in 72 (71%) of the 102 smears prepared in 2006. Agar block smear preparation preserves the native fungal structures and allows long-term storage and examination of fungal structures embedded in the agar, hence overcoming the major drawbacks of adhesive tape preparation. The major roles of agar block smear should be diagnosis for difficult cases, accurate identification of fungal species for clinical management of patients and epidemiological studies, and long-term storage for transportation of slides and education purposes. PMID:20660221

  9. Enumeration of beta-glucuronidase-positive Escherichia coli in foods by using the ISO-GRID method with SD-39 agar.

    PubMed

    Entis, P; Lerner, I

    1998-07-01

    A study was undertaken to compare beta-glucuronidase-positive Escherichia coli counts produced by the ISO-GRID hydrophobic grid membrane filter method using SD-39 agar (test method) with those produced by AOAC Official Method 990.11, an existing ISO-GRID method using lactose monensin glucuronate agar and buffered MUG agar (reference method). The methods were evaluated using 21 food products, with three independent lots of five replicate samples analyzed per product by both methods. The test and reference methods were statistically equivalent for 19 of the 21 products; frozen, raw ground lamb produced significantly higher counts using the reference method, whereas counts obtained from cottage cheese were significantly higher using the SD-39 agar-based method. PMID:9678181

  10. VIDAS Salmonella (SLM) assay method EasySLM with ChromID Salmonella (SM2) Agar. Performance Tested Method 020901.

    PubMed

    Johnson, Ronald; Mills, John; Colón-Reveles, Judith

    2009-01-01

    A method modification study was conducted for the VIDAS Salmonella (SLM) assay (AOAC Performance Tested Method 020901) using the EasySLM method to validate a matrix extension for peanut butter. The VIDAS EasySLM method is a simple enrichment procedure compared to traditional Salmonella methods, requiring only pre-enrichment and a single selective enrichment media, Salmonella Xpress 2 (SX2) broth. SX2 replaces the two selective broths in traditional methods and eliminates the M broth transfer, incubation, and subsequent pooling of M broths prior to VIDAS assay. The validation study was conducted under the AOAC Research Institute Emergency Response Validation program. VIDAS SLM was compared to the U.S. Food and Drug Administration's Bacteriological Analytical Manual (FDA-BAM) method for detection of S. enterica ser. Typhimurium in peanut butter. All peanut butter samples were prepared, blind-coded, and shipped to the method developers' laboratory by Q Laboratories. In addition, Q Laboratories performed most probable number and reference method analyses on peanut butter samples. The VIDAS EasySLM ChromID Salmonella (SM2) Agar was previously validated in the Performance Tested Methods program for the detection of Salmonella in roast beef, raw ground pork, turkey, pork sausage, raw chicken breast, dry pet food, whole milk, ice cream, bagged spinach, shrimp (raw, peeled), raw cod, spent irrigation water, pecans, peanut butter, dry pasta, cake mix, ground black pepper, nonfat dry milk, liquid eggs, cantaloupe, and orange juice. In the matrix extension study for peanut butter, the VIDAS EasySLM method was shown to be equivalent to the appropriate reference culture procedure using both buffered peptone water pre-enrichment and the FDA-BAM lactose pre-enrichment in the two-step enrichment method with SX2 media. The current study extends the validation to include peanut butter. PMID:20166608

  11. Methods in diffuse optical imaging.

    PubMed

    Arridge, Simon R

    2011-11-28

    We describe some modelling and reconstruction methods for optical imaging in the macroscopic and mesoscopic regimes. Beginning with the basic model of radiative transport, we describe the diffusion approximation and its extensions. Some linear and nonlinear problems in diffuse optical imaging are outlined, together with some indications of current trends and future directions. PMID:22006906

  12. Comparison of a novel MPN method against the yeast extract agar (YEA) pour plate method for the enumeration of heterotrophic bacteria from drinking water

    Microsoft Academic Search

    David P. Sartory; Haoyi Gu; Chun-Ming Chen

    2008-01-01

    This study compared the Quanti-Disc™ most probable number (MPN) test for heterotrophic bacteria from drinking water with the widely used yeast extract agar (YEA) pour plate method. The Quanti-Disc™ test module contains 50 reaction wells in which a medium has been pre-deposited. The medium contains a suite of three fluorogenic enzyme substrates selected for the detection of enzymes expressed widely

  13. Abstract--Hybrid diffusion imaging (HYDI) is a new diffusion MRI method for characterizing complex diffusion.

    E-print Network

    Bucci, David J.

    Abstract-- Hybrid diffusion imaging (HYDI) is a new diffusion MRI method for characterizing complex diffusion. Diffusion-weighted measurements are obtained on multiple `shells' of constant diffusion weighting. This diffusion encoding approach is amenable to multiple types of diffusion imaging analysis. The inner shells

  14. Novel Method for Rapid Assessment of Antibiotic Resistance in Escherichia coli Isolates from Environmental Waters by Use of a Modified Chromogenic Agar

    Microsoft Academic Search

    A. J. Watkinson; G. R. Micalizzi; J. R. Bates; S. D. Costanzo

    2007-01-01

    We validated a novel method for screening Escherichia coli resistance to antibiotics in environmental samples using modified Difco MI agar (Becton Dickinson) impregnated with selected antibiotics (tetracycline, ampi- cillin, cephalexin, and sulfamethoxazole), termed MI-R. This method combines an existing rapid assessment technique for E. coli enumeration with clinical reference data for breakpoint analysis of antibiotic resistance and was developed to

  15. Generalizing the finite element method: Diffuse approximation and diffuse elements

    Microsoft Academic Search

    B. Nayroles; G. Touzot; P. Villon

    1992-01-01

    This paper describes the new “diffuse approximation” method, which may be presented as a generalization of the widely used “finite element approximation” method. It removes some of the limitations of the finite element approximation related to the regularity of approximated functions, and to mesh generation requirements. The diffuse approximation method may be used for generating smooth approximations of functions known

  16. Interlaboratory Evaluation of Etest Method for Testing Antifungal Susceptibilities of Pathogenic Yeasts to Five Antifungal Agents by Using Casitone Agar and Solidified RPMI 1640 Medium with 2% Glucose

    Microsoft Academic Search

    A. ESPINEL-INGROFF; M. PFALLER; M. E. ERWIN; N. JONES

    1996-01-01

    An interlaboratory evaluation (two centers) of the Etest method was conducted for testing the antifungal susceptibilities of yeasts. The MICs of amphotericin B,fluconazole,flucytosine, itraconazole, and ketoconazole were determined for 83 isolates ofCandidaspp.,Cryptococcus neoformans, andTorulopsis glabrata. Two buffered (phosphate buffer) culture media were evaluated: solidified RPMI 1640 medium with 2% glucose and Casitone agar. MIC endpoints were determined after both 24

  17. Validation of a modified Kirby-Bauer disk diffusion method for metronidazole susceptibility testing of Helicobacter pylori

    Microsoft Academic Search

    Peter D. Midolo; John Turnidge; John R. Lambert; Jan M. Bell

    1995-01-01

    Triple antimicrobial therapy that includes metronidazole has been recommended as a first-line therapy for Helicobacter pylori because it has the highest eradication rates. However, resistance in H. pylori to metronidazole has been reported worldwide and its presence may reduce the efficacy of triple therapy. Various methods for testing H. pylori against metronidazole have been used including agar dilution, disk diffusion

  18. Bacteria holding times for fecal coliform by mFC agar method and total coliform and Escherichia coli by Colilert®-18 Quanti-Tray® method

    USGS Publications Warehouse

    Aulenbach, Brent T.

    2010-01-01

    Bacteria holding-time experiments of up to 62 h were performed on five surface-water samples from four urban stream sites in the vicinity of Atlanta, GA, USA that had relatively high densities of coliform bacteria (Escherichia coli densities were all well above the US Environmental Protection Agency criterion of 126 colonies (100 ml)???1 for recreational waters). Holding-time experiments were done for fecal coliform using the membrane filtration modified fecal coliform (mFC) agar method and for total coliform and E. coli using the Colilert®-18 Quanti-Tray® method. The precisions of these analytical methods were quantified. Precisions determined for fecal coliform indicated that the upper bound of the ideal range of counts could reasonably be extended upward and would improve precision. For the Colilert®-18 method, analytical precisions were similar to the theoretical precisions for this method. Fecal and total coliform densities did not change significantly with holding times up to about 27 h. Limited information indicated that fecal coliform densities might be stable for holding times of up to 62 h, whereas total coliform densities might not be stable for holding times greater than about 27 h. E. coli densities were stable for holding times of up to 18 h—a shorter period than indicated from a previous studies. These results should be applicable to non-regulatory monitoring sampling designs for similar urban surface-water sample types.

  19. Radial diffusion method for determining tannin in plant extracts

    Microsoft Academic Search

    Ann E. Hagerman

    1987-01-01

    Tannin in plant extracts can be determined by reacting the tannin with a protein and quantitating the precipitated complex. In the new assay described here, a tannin-containing solution is placed in a well in a protein-containing agar slab. As the tannin diffuses into the gel and complexes with protein, a visible ring of precipitation develops. The area of the ring

  20. Demonstrating Diffusion

    ERIC Educational Resources Information Center

    Foy, Barry G.

    1977-01-01

    Two demonstrations are described. Materials and instructions for demonstrating movement of molecules into cytoplasm using agar blocks, phenolphthalein, and sodium hydroxide are given. A simple method for demonstrating that the rate of diffusion of a gas is inversely proportional to its molecular weight is also presented. (AJ)

  1. The Growth of Steroidobacter agariperforans sp. nov., a Novel Agar-Degrading Bacterium Isolated from Soil, is Enhanced by the Diffusible Metabolites Produced by Bacteria Belonging to Rhizobiales

    PubMed Central

    Sakai, Masao; Hosoda, Akifumi; Ogura, Kenjiro; Ikenaga, Makoto

    2014-01-01

    An agar-degrading bacterium was isolated from soil collected in a vegetable cropping field. The growth of this isolate was enhanced by supplying culture supernatants of bacteria belonging to the order Rhizobiales. Phylogenetic analysis based on 16S rRNA gene sequences indicated the novel bacterium, strain KA5–BT, belonged to the genus Steroidobacter in Gammaproteobacteria, but differed from its closest relative, Steroidobacter denitrificans FST, at the species level with 96.5% similarity. Strain KA5–BT was strictly aerobic, Gram-negative, non-motile, non-spore forming, and had a straight to slightly curved rod shape. Cytochrome oxidase and catalase activities were positive. The strain grew on media containing culture supernatants in a temperature range of 15–37°C and between pH 4.5 and 9.0, with optimal growth occurring at 30°C and pH 6.0–8.0. No growth occurred at 10 or 42°C or at NaCl concentrations more than 3% (w/v). The main cellular fatty acids were iso–C15:0, C16:1?7c, and iso–C17:1?9c. The main quinone was ubiquinone-8 and DNA G+C content was 62.9 mol%. In contrast, strain FST was motile, did not grow on the agar plate, and its dominant cellular fatty acids were C15:0 and C17:1?8c. Based on its phylogenetic and phenotypic properties, strain KA5–BT (JCM 18477T = KCTC 32107T) represents a novel species in genus Steroidobacter, for which the name Steroidobacter agariperforans sp. nov. is proposed. PMID:24621511

  2. Evaluation of Escherichia coli O157:H7 in apple juice with Cornus fruit ( Cornus officinalis Sieb. et Zucc.) extract by conventional media and thin agar layer method

    Microsoft Academic Search

    Vivian C. H. Wu; Xujian Qiu; Y.-H. Peggy Hsieh

    2008-01-01

    Escherichia coli O157:H7 survival in apple juice supplemented with Cornus fruit (Cornus officinalis Sieb. et Zucc.) extract was studied. Inoculated samples with or without Cornus fruit extract were kept at 21 and 7°C. Microbial analysis was conducted on days 0, 1, 3, 5, and 7. MacConkey sorbitol agar (MSA), tryptic soy agar (TSA), and thin agar layer (TAL) medium were

  3. Screening of lactic acid bacteria for reducing power using a tetrazolium salt reduction method on milk agar.

    PubMed

    Michelon, Damien; Tachon, Sybille; Ebel, Bruno; De Coninck, Joëlle; Feron, Gilles; Gervais, Patrick; Yvon, Mireille; Cachon, Rémy

    2013-02-01

    Reducing activity is a physiological property of lactic acid bacteria (LAB) of technological importance. We developed a solid medium with tetrazolium dyes enabling weakly and strongly reducing LAB to be discriminated. It was used to quantify populations in a mixed culture (spreading method) and screen strains (spot method). PMID:23063698

  4. Hektoen Enteric Agar Protocol

    NSDL National Science Digital Library

    American Society For Microbiology

    2010-11-11

    Hektoen enteric agar is a selective and differential media for the recovery of enteric gram-negative rods from mixed microbiota.  The growth of gram-positive organisms and nonpathogenic enteric coliforms is inhibited through the use of bile salts and dyes, allowing intestinal pathogens, such as Salmonella and Shigella, to be more easily recovered.  The media can also differentiate between organisms that produce H2S and those that do not due to the presence of an iron-containing compound.  The use and interpretation of growth on this media is discussed in this protocol.

  5. Preparation of an agar-silver nanoparticles (A-AgNp) film for increasing the shelf-life of fruits.

    PubMed

    Gudadhe, Janhavi A; Yadav, Alka; Gade, Aniket; Marcato, Priscyla D; Durán, Nelson; Rai, Mahendra

    2014-12-01

    Preparation of protective coating possessing antimicrobial properties is present day need as they increase the shelf life of fruits and vegetables. In the present study, preparation of agar-silver nanoparticle film for increasing the shelf life of fruits is reported. Silver nanoparticles (Ag-NPs) biosynthesised using an extract of Ocimum sanctum leaves, were mixed with agar-agar to prepare an agar-silver nanoparticles (A-AgNp) film. This film was surface-coated over the fruits, Citrus aurantifolium (Thornless lime) and Pyrus malus (Apple), and evaluated for the determination of antimicrobial activity of A-AgNp films using disc diffusion method, weight loss and shelf life of fruits. This study demonstrates that these A-AgNp films possess antimicrobial activity and also increase the shelf life of fruits. PMID:25429496

  6. Comparison of direct and modified direct complement-fixation and agar-gel precipitin methods in detecting chlamydial antibody in wild birds.

    PubMed

    Grimes, J E; Page, L A

    1978-01-01

    Detection of chlamydial antibody in serums of wild birds was compared for the following methods: direct complement-fixation (DCF), modified DCF (MDCF), and agar-gel precipitin (AGP). The birds species used were great-tailed grackles (Cassidix mexicanus), common grackles (Quiscalus quiscula), brown-headed cowbirds (Molothrus ater), bronzed cowbirds (Tangavius aeneus), and mourning doves (Zenaida macroura). The birds were either inoculated with an isolate of Chlamydia psittaci obtained originally from turkeys or kept as uninoculated cagemates. DCF detected antibody in most inoculated common grackles, mourning doves, and brown-headed cowbirds. It was unreliable, however, for great-tailed grackles and bronzed cowbirds inoculated intramuscularly. MDCF method detected antibody in all inoculated birds except 1 mourning dove, and gave higher titers than did DCF. AGP detected antibody in all inoculated brown-headed cowbirds and all mourning doves, 1 inoculated and 1 exposed great-tailed grackle, and none of the other 2 species. Chlamydiae were apparently transmitted to the uninoculated great-tailed and common grackles and mourning doves, for antibody was detected by all 3 methods in these species kept as uninoculated cagemates. PMID:100098

  7. Diffusion method of seperating gaseous mixtures

    Microsoft Academic Search

    Rex B

    1976-01-01

    A method of effecting a relatively large change in the relative concentrations of the components of a gaseous mixture by diffusion which comprises separating the mixture into heavier and lighter portions according to major fraction mass recycle procedure, further separating the heavier portions into still heavier subportions according to a major fraction mass recycle procedure, and further separating the lighter

  8. Performance comparison of the BioSys optical assay and the violet red bile agar method for detecting coliforms in food products.

    PubMed

    Firstenberg-Eden, Ruth; Foti, Debra; McDougal, Susan; Beck, Stephen

    2004-12-01

    Coliform counts in a variety of foods, including dairy products (raw milk, pasteurized milk, yogurt, butter, and ice cream), meats (pork sausage, ground beef, and raw chicken), raw eggs, and chocolate, were performed by the rapid automated BioSys optical assay and the conventional method with violet red bile agar (VRBA). The standard deviation (SD) among five replicate counts for the optical assay was similar to or better than that obtained with VRBA plates for all foods tested. The average SD for all foods tested was 0.21 for the optical assay and 0.30 for the VRBA plates. At very low concentrations of coliforms (1 to 10 CFU/ml for liquid products and 10 to 100 CFU/g for solid samples), the average SDs were 0.26 and 0.47, respectively. The optical assay was less susceptible to interference by noncoliform organisms. In naturally contaminated samples, bacteria such as Serratia liquefaciens, Pantoea spp., Vibrio fluvialis, Aeromonas hydrophilia, and Pseudomonas spp. formed typical colonies in VRBA, resulting in false-positive results or a need to verify colonies in brilliant green lactose broth. The optical assay appeared to be more selective than the VRBA conventional method, detecting fewer noncoliforms. There was close agreement in test results between the two methods, as indicated by correlation coefficients of 0.92 to 0.99 obtained for the regression analysis of the two methods. In most cases both methods distinguished accurately between positive samples containing coliforms and negative controls. All products tested using the automated BioSys Optical Assay for coliforms yielded results more quickly (typically 10 to 12 h) than did those tested with the conventional VRBA method (24 to 72 h with confirmation). PMID:15633683

  9. Introduction to the Diffusion Monte Carlo Method

    E-print Network

    Ioan Kosztin; Byron Faber; Klaus Schulten

    1997-02-20

    A self-contained and tutorial presentation of the diffusion Monte Carlo method for determining the ground state energy and wave function of quantum systems is provided. First, the theoretical basis of the method is derived and then a numerical algorithm is formulated. The algorithm is applied to determine the ground state of the harmonic oscillator, the Morse oscillator, the hydrogen atom, and the electronic ground state of the H2+ ion and of the H2 molecule. A computer program on which the sample calculations are based is available upon request.

  10. Direct Sampling Method for Diffusive Optical Tomography

    E-print Network

    Yat Tin Chow; Kazufumi Ito; Keji Liu; Jun Zou

    2014-10-06

    In this work, we are concerned with the diffusive optical tomography (DOT) problem in the case when only one or two pairs of Cauchy data is available. We propose a simple and efficient direct sampling method (DSM) to locate inhomogeneities inside a homogeneous background and solve the DOT problem in both full and limited aperture cases. This new method is easy to implement and less expensive computationally. Numerical experiments demonstrate its effectiveness and robustness against noise in the data. This provides a new promising numerical strategy for the DOT problem.

  11. A comparison of a new centrifuge sugar flotation technique with the agar method for the extraction of immature Culicoides (Diptera: Ceratopogonidae) life stages from salt marsh soils.

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Two sampling techniques, agar extraction (AE) and centrifuge sugar flotation extraction (CSFE) were compared to determine their relative efficacy to recover immature stages of Culicoides spp from salt marsh substrates. Three types of samples (seeded with known numbers of larvae, homogenized field s...

  12. Carbapenem Disks on MacConkey Agar in Screening Methods for Detection of Carbapenem-Resistant Gram-Negative Rods in Stools

    PubMed Central

    Blackburn, Julie; Tsimiklis, Catherine; Lavergne, Valéry; Pilotte, Josée; Grenier, Sophie; Gilbert, Andrée; Lefebvre, Brigitte; Tremblay, Cécile; Bourgault, Anne-Marie

    2013-01-01

    Direct plating of simulated stool specimens on MacConkey agar (MCA) with 10-?g ertapenem, meropenem, and imipenem disks allowed the establishment of optimal zone diameters for the screening of carbapenem-resistant Gram-negative rods (CRGNR) of ?24 mm (ertapenem), ?34 mm (meropenem), and ?32 mm (imipenem). PMID:23135936

  13. Fastidious anaerobe agar compared with Wilkins-Chalgren agar, brain heart infusion agar, and brucella agar for susceptibility testing of Fusobacterium species.

    PubMed

    Brazier, J S; Goldstein, E J; Citron, D M; Ostovari, M I

    1990-11-01

    Fastidious anaerobe agar supported the growth of 82 strains of fusobacteria better than brain heart infusion agar, brucella agar, and Wilkins-Chalgren agar. Fastidious anaerobe agar showed less hazing and fewer tailing endpoints with beta-lactam antibiotics. Whole-blood supplementation improved the performance of all media. Wilkins-Chalgren agar without blood failed to support the growth of 17% of the strains. All Fusobacterium ulcerans strains were resistant to clindamycin. PMID:2073122

  14. Development of a selective agar plate for the detection of Campylobacter spp. in fresh produce.

    PubMed

    Yoo, Jin-Hee; Choi, Na-Young; Bae, Young-Min; Lee, Jung-Su; Lee, Sun-Young

    2014-10-17

    This study was conducted to develop a selective medium for the detection of Campylobacter spp. in fresh produce. Campylobacter spp. (n=4), non-Campylobacter (showing positive results on Campylobacter selective agar) strains (n=49) isolated from fresh produce, indicator bacteria (n=13), and spoilage bacteria isolated from fresh produce (n=15) were plated on four Campylobacter selective media. Bolton agar and modified charcoal cefoperazone deoxycholate agar (mCCDA) exhibited higher sensitivity for Campylobacter spp. than did Preston agar and Hunt agar, although certain non-Campylobacter strains isolated from fresh produce by using a selective agar isolation method, were still able to grow on Bolton agar and mCCDA. To inhibit the growth of non-Campylobacter strains, Bolton agar and mCCDA were supplemented with 5 antibiotics (rifampicin, polymyxin B, sodium metabisulfite, sodium pyruvate, ferrous sulfate) and the growth of Campylobacter spp. (n=7) and non-Campylobacter strains (n=44) was evaluated. Although Bolton agar supplemented with rifampicin (BR agar) exhibited a higher selectivity for Campylobacter spp. than did mCCDA supplemented with antibiotics, certain non-Campylobacter strains were still able to grow on BR agar (18.8%). When BR agar with various concentrations of sulfamethoxazole-trimethoprim were tested with Campylobacter spp. (n=8) and non-Campylobacter (n=7), sulfamethoxazole-trimethoprim was inhibitory against 3 of 7 non-Campylobacter strains. Finally, we validated the use of BR agar containing 50mg/L sulfamethoxazole (BRS agar) or 0.5mg/L ciprofloxacin (BRCS agar) and other selective agars for the detection of Campylobacter spp. in chicken and fresh produce. All chicken samples were positive for Campylobacter spp. when tested on mCCDA, BR agar, and BRS agar. In fresh produce samples, BRS agar exhibited the highest selectivity for Campylobacter spp., demonstrating its suitability for the detection of Campylobacter spp. in fresh produce. PMID:25126968

  15. Adaptive streamline diffusion finite element methods for stationary convection-diffusion problems

    Microsoft Academic Search

    Kenneth Eriksson; Claes Johnson

    1993-01-01

    Adaptive finite element methods for stationary convection-diffusion problems are designed and analyzed. The underlying discretization scheme is the Shock-capturing Streamline Diffusion method. The adaptive algorithms proposed are based on a posteriori error estimates for this method leading to reliable methods in the sense that the desired error control is guaranteed. A priori error estimates are used to show that the

  16. An accelerated method for isolation of Salmonella enterica serotype Typhimurium from artificially contaminated foods, using a short preenrichment, immunomagnetic separation, and xylose-lysine-desoxycholate agar (6IX method).

    PubMed

    Tatavarthy, Aparna; Peak, Kealy; Veguilla, William; Cutting, Teresa; Harwood, Valerie J; Roberts, Jill; Amuso, Philip; Cattani, Jacqueline; Cannons, Andrew

    2009-03-01

    Rapid isolation of Salmonella from food is essential for faster typing and source tracking in an outbreak. The objective of this study was to investigate a rapid isolation method that would augment the standard U.S. Food and Drug Administration's Bacteriological Analytical Manual (BAM) method. Food samples with low microbial load, including egg salad and ice cream, moderately high-microbial-load tomatoes, and high-microbial-load ground beef were intentionally inoculated with 2 to 48 CFU of Salmonella enterica serotype Typhimurium. The samples were preenriched in buffered peptone water for 6 h, and then selectively concentrated by immunomagnetic separation and plated for isolation on xylose-lysine-desoxycholate agar: the 6IX method. Salmonella Typhimurium was presumptively identified from approximately 97% of the low-microbial-load and moderately high-microbial-load samples by the 6IX method 2 days before the BAM standard method for isolation of Salmonella. In 49% of the beef samples, Salmonella Typhimurium was presumptively identified 1 or 2 days earlier by the 6IX method. Given the inocula used, our data clearly indicated that for most of the food samples tested, with the exception of ground beef, Salmonella Typhimurium could be isolated two laboratory days earlier with the 6IX method compared with the BAM method. In conclusion, this 6IX method may expedite Salmonella isolation and, therefore, has the potential to accelerate strain tracking for epidemiological analysis in a foodborne outbreak. PMID:19343948

  17. Abilities of the mCP Agar method and CRENAME alpha toxin-specific real-time PCR assay to detect Clostridium perfringens spores in drinking water.

    PubMed

    Maheux, Andrée F; Bérubé, Eve; Boudreau, Dominique K; Villéger, Romain; Cantin, Philippe; Boissinot, Maurice; Bissonnette, Luc; Bergeron, Michel G

    2013-12-01

    We first determined the analytical specificity and ubiquity (i.e., the ability to detect all or most strains) of a Clostridium perfringens-specific real-time PCR (rtPCR) assay based on the cpa gene (cpa rtPCR) by using a bacterial strain panel composed of C. perfringens and non-C. perfringens Clostridium strains. All non-C. perfringens Clostridium strains tested negative, whereas all C. perfringens strains tested positive with the cpa rtPCR, for an analytical specificity and ubiquity of 100%. The cpa rtPCR assay was then used to confirm the identity of 116 putative C. perfringens isolates recovered after filtration of water samples and culture on mCP agar. Colonies presenting discordant results between the phenotype on mCP agar and cpa rtPCR were identified by sequencing the 16S rRNA and cpa genes. Four mCP(-)/rtPCR(+) colonies were identified as C. perfringens, whereas 3 mCP(+)/rtPCR(-) colonies were identified as non-C. perfringens. The cpa rtPCR was negative with all 51 non-C. perfringens strains and positive with 64 of 65 C. perfringens strains. Finally, we compared mCP agar and a CRENAME (concentration and recovery of microbial particles, extraction of nucleic acids, and molecular enrichment) procedure plus cpa rtPCR (CRENAME + cpa rtPCR) for their abilities to detect C. perfringens spores in drinking water. CRENAME + cpa rtPCR detected as few as one C. perfringens CFU per 100 ml of drinking water sample in less than 5 h, whereas mCP agar took at least 25 h to deliver results. CRENAME + cpa rtPCR also allows the simultaneous and sensitive detection of Escherichia coli and C. perfringens from the same potable water sample. In itself, it could be used to assess the public health risk posed by drinking water potentially contaminated with pathogens more resistant to disinfection. PMID:24077714

  18. Abilities of the mCP Agar Method and CRENAME Alpha Toxin-Specific Real-Time PCR Assay To Detect Clostridium perfringens Spores in Drinking Water

    PubMed Central

    Maheux, Andrée F.; Bérubé, Ève; Boudreau, Dominique K.; Villéger, Romain; Cantin, Philippe; Boissinot, Maurice; Bissonnette, Luc

    2013-01-01

    We first determined the analytical specificity and ubiquity (i.e., the ability to detect all or most strains) of a Clostridium perfringens-specific real-time PCR (rtPCR) assay based on the cpa gene (cpa rtPCR) by using a bacterial strain panel composed of C. perfringens and non-C. perfringens Clostridium strains. All non-C. perfringens Clostridium strains tested negative, whereas all C. perfringens strains tested positive with the cpa rtPCR, for an analytical specificity and ubiquity of 100%. The cpa rtPCR assay was then used to confirm the identity of 116 putative C. perfringens isolates recovered after filtration of water samples and culture on mCP agar. Colonies presenting discordant results between the phenotype on mCP agar and cpa rtPCR were identified by sequencing the 16S rRNA and cpa genes. Four mCP?/rtPCR+ colonies were identified as C. perfringens, whereas 3 mCP+/rtPCR? colonies were identified as non-C. perfringens. The cpa rtPCR was negative with all 51 non-C. perfringens strains and positive with 64 of 65 C. perfringens strains. Finally, we compared mCP agar and a CRENAME (concentration and recovery of microbial particles, extraction of nucleic acids, and molecular enrichment) procedure plus cpa rtPCR (CRENAME + cpa rtPCR) for their abilities to detect C. perfringens spores in drinking water. CRENAME + cpa rtPCR detected as few as one C. perfringens CFU per 100 ml of drinking water sample in less than 5 h, whereas mCP agar took at least 25 h to deliver results. CRENAME + cpa rtPCR also allows the simultaneous and sensitive detection of Escherichia coli and C. perfringens from the same potable water sample. In itself, it could be used to assess the public health risk posed by drinking water potentially contaminated with pathogens more resistant to disinfection. PMID:24077714

  19. New methods in Diffusion Weighted and Diffusion Tensor Imaging

    PubMed Central

    Bammer, Roland; Holdsworth, Samantha J.; Veldhuis, Wouter B.; Skare, Stefan T.

    2009-01-01

    Synopsis Considerable strides have been made by countless individual researchers in diffusion-weighted imaging (DWI) to push DWI from an experimental tool – limited to a few institutions with specialized instrumentation – to a powerful tool used routinely for diagnostic imaging. Despite its current success, the field of DWI constantly evolves and progress has been made on several fronts, awaiting adoption by vendors and clinical users to bring in the next generation of DWI. These developments are primarily comprised of improved robustness against patient and physiologic motion, increased spatial resolution, new biophysical and tissue models, and new clinical applications for DWI. This article aims to provide a succinct overview of some of these new developments and a description of some of the major challenges associated with DWI. Trying to understand some of these challenges is helpful not only to the technically savvy MRI user, but also to radiologists who are interested in the potential strengths and weaknesses of these techniques, what is in the “diffusion pipeline”, and in how to interpret artifacts on DWI scans. PMID:19406353

  20. Cell aggregates in the soft agar “human tumour stem-cell assay”

    Microsoft Academic Search

    M V Agrez; J S Kovach; M M Lieber

    1982-01-01

    We evaluated colony formation in soft agar by cells obtained after mechanical and\\/or enzymatic disaggregation of 455 malignant human tumours. Counting and assessment of cell colonies in the agar plates were done by inverted microscopy, computerized image analysis, and inspection of serial photomicrographs of the agar plates. Our results indicate that standard methods of tumour disaggregation did not usually produce

  1. Syneresis and delayed detachment in agar plates

    E-print Network

    Thibaut Divoux; Bosi Mao; Patrick Snabre

    2015-02-20

    Biogels made of crosslinked polymers such as proteins or polysaccharides behave as porous soft solids and store large amount of solvent. These gels undergo spontaneous aging, called syneresis that consists in the shrinkage of the gel matrix and the progressive expulsion of the solvent. As a result, a biogel originally casted in a container often lose contact with the container sidewalls, and the detachment time is a priori difficult to anticipate since it may occur over variable time spans (from hours to days). Here we report on the syneresis phenomena in agar plates that consist in Petri dishes filled with a gel mainly composed of agar. Direct observations and speckle pattern correlation analysis allow us to rationalize the delayed detachment of the gel from the sidewall of the Petri dish. The detachment time $t^*$ is surprisingly not controlled by the mass loss as one would intuitively expect. Instead, $t^*$ is strongly correlated to the gel minimum thickness $e_{min}$ measured along the sidewall of the plate, and increases as a robust function of $e_{min}$ independently of the prior mass-loss history. Time-resolved correlation spectroscopy atypically applied to such weakly diffusive media gives access to the local thinning rate of the gel. This technique also allows us to detect the gel micro-displacements that are triggered by the water evaporation prior to the detachment, and even to anticipate the latter from a few hours. Our work provides observables to predict the detachment time of agar gels in dishes, and highlights the relevance of speckle pattern correlation analysis for the quantitative investigation of the syneresis dynamics in biopolymer gels.

  2. Comparison of Fecal Coliform Agar and Violet Red Bile Lactose Agar for Fecal Coliform Enumeration in Foods

    Microsoft Academic Search

    A. Leclercq; C. Wanegue; P. Baylac

    2002-01-01

    A 24-h direct plating method for fecal coliform enumeration with a resuscitation step (preincubation for 2 h at 37 1°C and transfer to 44 1°C for 22 h) using fecal coliform agar (FCA) was compared with the 24-h standardized violet red bile lactose agar (VRBL) method. FCA and VRBL have equivalent specificities and sensitivities, except for lactose-positive non-fecal coliforms such

  3. Range Image Segmentation by an Effective Jump-Diffusion Method

    E-print Network

    Zhu, Song Chun

    Range Image Segmentation by an Effective Jump-Diffusion Method Feng Han, Zhuowen Tu, and Song-Chun Zhu Abstract--This paper presents an effective jump-diffusion method for segmenting a range image accuracy and speed. Then, the algorithm is applied to three data sets of range images under the same

  4. Migration of chemotactic bacteria in soft agar: role of gel concentration

    E-print Network

    O. A. Croze; G. P. Ferguson; M. E. Cates; W. C. K. Poon

    2011-08-06

    We study the migration of chemotactic wild-type Escherichia coli populations in semisolid (soft) agar in the concentration range C = 0.15-0.5% (w/v). For C bacteria migrate as broad circular bands rather than sharp rings. These are growth/diffusion waves arising because of suppression of chemotaxis by the agar and have not been previously reported experimentally to our knowledge. For C = 0.4-0.5%, expanding colonies do not span the depth of the agar and develop pronounced front instabilities. The migration front speed is weakly dependent on agar concentration at C bacteria in porous media and for the design of improved bacteriological chemotaxis assays.

  5. Comparison of Supplemented Brucella Agar and Modified Clostridium difficile Agar for Antimicrobial Susceptibility Testing of Clostridium difficile

    PubMed Central

    Kim, Gye Hyeong; Kim, Jieun; Pai, Hyunjoo

    2014-01-01

    Background Antimicrobial susceptibility testing (AST) of Clostridium difficile is increasingly important because of the rise in resistant strains. The standard medium for the AST of C. difficile is supplemented Brucella agar (sBA), but we found that the growth of C. difficile on sBA was not optimal. Because active growth is critical for reliable AST, we developed a new, modified C. difficile (mCD) agar. C. difficile grew better on mCD agar than on sBA. Methods C. difficile isolates were collected from patients with healthcare-associated diarrhea. sBA medium was prepared according to the CLSI guidelines. Homemade mCD agar containing taurocholate, L-cysteine hydrochloride, and 7% horse blood was used. For 171 C. difficile isolates, we compared the agar dilution AST results from mCD agar with those from sBA. Results No significant differences were observed in the 50% minimal inhibitory concentration (MIC50) and 90% minimal inhibitory concentration (MIC90) of clindamycin (CLI), metronidazole (MTZ), moxifloxacin (MXF), piperacillin-tazobactam (PTZ), and rifaximin (RIX), but the values for vancomycin (VAN) were two-fold higher on mCD agar than on sBA. The MICs of CLI, MXF, and RIX were in 100% agreement within two-fold dilutions, but for MTZ, VAN, and PTZ, 13.7%, 0.6%, and 3.1% of the isolates, respectively, were outside the acceptable range. Conclusions The MIC ranges, MIC50 and MIC90, were acceptable when AST was performed on mCD agar. Thus, mCD agar could be used as a substitute medium for the AST of C. difficile. PMID:25368819

  6. Diffuse-Interface Methods in Fluid Mechanics

    NASA Technical Reports Server (NTRS)

    Anderson, D. M.; McFadden, G. B.; Wheeler, A. A.

    1997-01-01

    The authors review the development of diffuse-interface models of hydrodynamics and their application to a wide variety of interfacial phenomena. The authors discuss the issues involved in formulating diffuse-interface models for single-component and binary fluids. Recent applications and computations using these models are discussed in each case. Further, the authors address issues including sharp-interface analyses that relate these models to the classical free-boundary problem, related computational approaches to describe interfacial phenomena, and related approaches describing fully-miscible fluids.

  7. Development of EUCAST disk diffusion method for susceptibility testing of the Bacteroides fragilis group isolates.

    PubMed

    Nagy, Elisabeth; Justesen, Ulrik Stenz; Eitel, Zsuzsa; Urbán, Edit

    2015-02-01

    With the emergence of antibiotic resistance among Bacteroides fragilis group isolates the need of susceptibility testing in routine laboratories is increasing. The aims of the present study were to evaluate the disk diffusion method for susceptibility testing in case of different clinical isolates of Bacteroides spp by comparing zone diameter results with MICs obtained earlier during an Europe-wide antibiotic susceptibility surveillance, and to propose zone diameter breakpoints, which correlate for the EUCAST MIC breakpoints. We tested 381 clinical isolates of the B. fragilis group to amoxicillin/clavulanic acid, cefoxitin, clindamycin, imipenem, metronidazole, moxifloxacin, piperacillin/tazobactam, tigecycline by agar dilution method previously. The inhibition zones of the same antibiotics including meropenem disc were determined by the disc diffusion on Brucella blood agar supplemented with haemin and vitamin K1. Plates were incubated at 37 °C in an anaerobic atmosphere for 24 h. The zone diameters were read at 100% inhibition. In case of discrepant results MICs were determined by gradient test and compared with the inhibition zones on the same plate. We found a good agreement between the inhibition zone diameters and the MICs for imipenem, metronidazole, moxifloxacin and tigecyclin. The inhibition zone diameters of meropenem also separated clearly the isolates, which can be considered wild-type isolates. In case of amoxicillin/clavulanic acid and piperacillin/tazobactam intermediate and susceptible isolates according to the MIC determination, overlap during the zone diameter determination. Isolates with an inhibition zone <23 mm for amoxicillin/clavulanic acid and <25 mm for piperacillin/tazobactam should be retested by a MIC determination method. The 10 ?g clindamycin disc clearly separated the resistant and the susceptible population of B. fragilis group strains. In the case of cefoxitin only resistant population could be separated with an inhibition zone <17 mm, intermediate and susceptible isolates overlap. In conclusion, we suggest that disk diffusion can be an option for susceptibility testing of B. fragilis group isolates for most relevant antibiotics in routine laboratories. PMID:25464140

  8. Comparing in vitro activity of tigecycline by using the disk diffusion test, the manual microdilution method, and the VITEK 2 automated system.

    PubMed

    Leal Castro, A L; Buitrago Gutierrez, G; Ovalle, V; Cortes, J A; Alvarez, C A

    2010-01-01

    Tigecycline is a broad spectrum antibiotic having activity against multiresistant isolates. In vitro susceptibility testing is difficult to perform with the use of traditional microbiological techniques. The aim of this study was to evaluate the disk diffusion test with three different Mueller-Hinton agar brands, and the Vitek 2 automated system in comparison with the standard broth microdilution method against 200 gram-negative isolates (Escherichia coil, Klebsiella pneumoniae, Enterobacter cloacae, Serratia marcescens and Acinetobacter baumannii). Among Enterobacteriaceae, the Becton Dickinson agar had the lowest rate of minor (32.5%) and major errors (3.8%). No very major errors were found. For A. baumanni, the rate of minor and major errors was lower. A high rate of agreement (94%) was found between the broth microdilution method and the Vitek 2 system. Our results show that there are important differences between agars used for the disk diffusion test, and that Vitek 2 is a valid tool for susceptibility testing in clinical laboratories. PMID:21180392

  9. Lattice mean-field method for stationary polymer diffusion

    NASA Astrophysics Data System (ADS)

    Scheinhardt-Engels, S. M.; Leermakers, F. A.; Fleer, G. J.

    2003-07-01

    We present a method to study mean-field stationary diffusion (MFSD) in polymer systems. When gradients in chemical potentials vanish, our method reduces to the Scheutjens-Fleer self-consistent field (SF-SCF) method for inhomogeneous polymer systems in equilibrium. To illustrate the concept of our MFSD method, we studied stationary diffusion between two different bulk mixtures, containing, for simplicity, noninteracting homopolymers. Four alternatives for the diffusion equation are implemented. These alternatives are based on two different theories for polymer diffusion (the slow- and fast-mode theories) and on two different ways to evaluate the driving forces for diffusion, one of which is in the spirit of the SF-SCF method. The diffusion profiles are primarily determined by the diffusion theory and they are less sensitive to the evaluation of the driving forces. The numerical stationary state results are in excellent agreement with analytical results, in spite of a minor inconsistency at the system boundaries in the numerical method. Our extension of the equilibrium SF method might be useful for the study of fluxes, steady state profiles and chain conformations in membranes (e.g., during drug delivery), and for many other systems for which simulation techniques are too time consuming.

  10. A Method for Identifying Diffusive Trajectories with Stochastic Models

    NASA Astrophysics Data System (ADS)

    O'Malley, D.; Vesselinov, V. V.; Cushman, J. H.

    2014-09-01

    Single particle tracking is a tool that is being increasingly used to study diffusive or dispersive processes in many branches of natural science. Often the ability to collect these trajectories experimentally or produce them numerically outpaces the ability to understand them theoretically. On the other hand many stochastic models have been developed and continue to be developed capable of capturing complex diffusive behavior such as heavy tails, long-range correlations, nonstationarity, and combinations of these things. We describe a computational method for connecting particle trajectory data with stochastic models of diffusion. Several tests are performed to demonstrate the efficacy of the method, and the method is applied to polymer diffusion, RNA diffusion in E. coli, and RAFOS dispersion in the Gulf of Mexico.

  11. Conventional Agar-Based Culture Method, and Nucleic Acid Amplification Test (NAAT) of the cppB Gene for Detection of Neisseria gonorrhea in Pregnant Women Endocervical Swab Specimens

    PubMed Central

    Hassanzadeh, Parvin; Mardaneh, Jalal; Motamedifar, Mohammad

    2013-01-01

    Background Neisseria gonorrhea is the etiological agent of the sexually transmitted disease (STD) gonorrhea, and primarily infects the mucous membranes of the urethra, endocervix, pharynx or rectum of females which may result in substantial morbidity. N. gonorrhea also causes disseminated infection, with complications that may result in ectopic pregnancy, tubal infertility, chronic pelvic pain or maternal transmission of gonorrhea, and also increases susceptibility to HIV. Objectives In the present investigation, we used conventional agar-based culture method, and nucleic acid amplification of CCPB gene for detection of Neisseria gonorrhea in endocervical swabs samples collected from pregnant women studied Patients and Methods Endocervical swabs specimens for this study were obtained from 1100 pregnant women who presented to Shiraz (Iran) Hospitals from 2009 to 2011. In the present investigation we used conventional agar-based culture method, and nucleic acid amplification test (NAAT) of CCPB gene for detection of Neisseria gonorrhea in endocervical swabs samples collected from pregnant women studied. From each pregnant woman two endocervical swabs were taken: one swab placed in tubes containing phosphate buffered saline for Polymerase Chain Reaction, and the other to inoculate on culture media. Results Among 1100 endocervical swabs examined, 13 (1.18%) samples had positive results by polymerase chain reaction (PCR) on Neisseria gonorrhea CCPB gene. All endocervical swabs culture had negative results for Neisseria gonorrhea. 84 (7%) of the women had vaginal discharge, in whom PCR on endocervical swabs of these individuals had negative findings. Conclusions Nucleic acid amplification tests (NAATs) are very appropriate in detection of infected individuals. Detection techniques such as NAATs are independent of bacterial viability, and have a potential to limit false negative samples, therefore, in our country, the application of different laboratory diagnosis methods including NAATs with culture as gold standard for determination antimicrobial susceptibility is essential. PMID:23983999

  12. Comparison between Disk Diffusion and Microdilution Methods for Determining Susceptibility of Clinical Fungal Isolates to Caspofungin?

    PubMed Central

    Milici, Maria Eleonora; Maida, Carmelo Massimo; Spreghini, Elisabetta; Ravazzolo, Barbara; Oliveri, Salvatore; Scalise, Giorgio; Barchiesi, Francesco

    2007-01-01

    We compared the caspofungin (CAS) susceptibility testing results generated by the disk diffusion (DD) assay with the results of the Clinical and Laboratory Standards Institute (CLSI) broth microdilution (BD) reference method for 106 yeast isolates. The isolates represented 11 different fungal species, including Candida albicans (n = 50), C. parapsilosis (n = 10), C. glabrata (n = 10), C. tropicalis (n = 10), C. guillermondii (n = 6), C. rugosa (n = 5), C. krusei (n = 5), C. kefyr (n = 2), C. pelliculosa (n = 2), Saccharomyces cerevisiae (n = 3), and Geotrichum candidum (n = 3). The DD assay was performed in supplemented Mueller-Hinton agar with CAS, which was tested at concentrations of 2, 10, and 25 ?g per disk. MICs and inhibition zone diameters were evaluated at 24 and 48 h. In general, the results obtained by the DD assay correlated well with those obtained by the BD method. In particular, a significant correlation between methods was observed when CAS was used at concentration of 2 ?g/disk at a reading time of either 24 or 48 h. PMID:17728477

  13. Simplified measurement of soil pH using an agar-contact technique

    Microsoft Academic Search

    Jan W. M. Pijnenborg; T. A. Lie; A. J. B. Zehnder

    1990-01-01

    A method for the indirect measurement of soil-pH is described. This method allows the spatial arrangement of soil and rhizosphere to be conserved. The soil is brought into contact with a layer of agar, containing bromocresol purple. A nylon gauze is placed between soil and agar. For quantitative pH measurements, a micro-electrode is inserted into the agar after three hours

  14. The method for detecting diffusion ring diameter in Hemagglutinin measuring

    NASA Astrophysics Data System (ADS)

    Jing, Wenbo; Liu, Xue; Duan, Jin; Wang, Xiao-man

    2014-11-01

    The diffuser ring diameter measurement is the most critical in hemagglutinin Measuring. The traditional methods, such as a vernier caliper or high-definition scanned images are subjective and low for the measurement data reliability. Propose high-resolution diffusion ring image for drop-resolution processing, adaptive Canny operator and local detection method to extract complete and clear diffusion ring boundaries, and finally make use of polynomial interpolation algorithm to make diffusion ring outer boundary pixel coordinates achieve sub-pixel accuracy and the least-squares fitting circle algorithm to calculate the precise center of the circle and the diameter of the diffuser ring. Experimental results show that the method detection time is only 63.61ms, which is a faster speed; diffuser ring diameter estimation error can achieve 0.55 pixel, high stability in experimental data. This method is adapted to the various types of influenza vaccine hemagglutinin content measurements, and has important value in the influenza vaccine quality detection.

  15. Residual Agar Determination in Bacterial Spores by Electrospray Ionization Mass Spectrometry

    SciTech Connect

    Wahl, Karen L.; Colburn, Heather A.; Wunschel, David S.; Petersen, Catherine E.; Jarman, Kristin H.; Valentine, Nancy B.

    2010-02-15

    Presented here is an analytical method to detect residual agar from a bacterial spore sample as an indication of culturing on an agar plate. This method is based on the resolubilization of agar polysaccharide from a bacterial spore sample, enzymatic digestion, followed by electrospray ionization tandem mass spectrometry (ESI-MSn) analysis for detection of a specific agar fragment ion. A range of Bacillus species and strains were selected to demonstrate the effectiveness of this approach. The characteristic agar fragment ion was detected in the spores grown on agar that were washed from 1 to 5 times, irradiated or non-irradiated and not in the spores grown in broth. A sample containing approximately 108 spores is currently needed for confident detection of residual agar from culture on agar plates in the presence of bacterial spores with a limit of detection of approximately 1 ppm agar spiked into a broth-grown spore sample. The results of a proficiency test with 42 blinded samples are presented demonstrating the utility of this method with no false positives and only 3 false negatives for samples that were below the detection level of the method as documented.

  16. Leapfrog/Finite Element Method for Fractional Diffusion Equation

    PubMed Central

    Zhao, Zhengang; Zheng, Yunying

    2014-01-01

    We analyze a fully discrete leapfrog/Galerkin finite element method for the numerical solution of the space fractional order (fractional for simplicity) diffusion equation. The generalized fractional derivative spaces are defined in a bounded interval. And some related properties are further discussed for the following finite element analysis. Then the fractional diffusion equation is discretized in space by the finite element method and in time by the explicit leapfrog scheme. For the resulting fully discrete, conditionally stable scheme, we prove an L 2-error bound of finite element accuracy and of second order in time. Numerical examples are included to confirm our theoretical analysis. PMID:24955431

  17. Generalized method calculating the effective diffusion coefficient in periodic channels

    NASA Astrophysics Data System (ADS)

    Kalinay, Pavol

    2015-01-01

    The method calculating the effective diffusion coefficient in an arbitrary periodic two-dimensional channel, presented in our previous paper [P. Kalinay, J. Chem. Phys. 141, 144101 (2014)], is generalized to 3D channels of cylindrical symmetry, as well as to 2D or 3D channels with particles driven by a constant longitudinal external driving force. The next possible extensions are also indicated. The former calculation was based on calculus in the complex plane, suitable for the stationary diffusion in 2D domains. The method is reformulated here using standard tools of functional analysis, enabling the generalization.

  18. TEST METHODS FOR ESCHERICHIA COLI IN DRINKING WATER - EC MEDIUM WITH MUG TUBE PROCEDURE NUTRIENT AGAR WITH MUG MEMBRANE FILTER PROCEDURE

    EPA Science Inventory

    Two analytical methods for measuring the bacteriological quality of drinking water are described. hey are approved for determining compliance of public water systems with the National Primary Drinking Water Regulations. he presence of Escherichia coli in drinking water is an indi...

  19. The whole-block method and water diffusion in olivine

    NASA Astrophysics Data System (ADS)

    Ferriss, E.; Plank, T. A.; Walker, D.

    2013-12-01

    Accurate knowledge of the diffusion rates and mechanisms of water (hydrogen) in geologic materials is critical for geologic applications such as understanding the deep earth water cycle and determining ascent rates of pre-eruptive magmas. However, diffusion rates and mechanisms are often poorly known. Obtaining robust diffusion profile data for water with transmission FTIR traditionally requires cutting the sample after an experiment to isolate the central slice. Here we develop a method for interpreting diffusion profile data in three dimensions without cutting the sample. This 'whole-block' method is nondestructive, which simplifies the analytical procedure and allows multiple experiments on the same sample (e.g., a time series or reversal). Whole-block data represent concentration values that are integrated through the entire sample in the direction parallel to the infrared beam ray path during the measurement, and they are determined by taking the average value of a non-path-integrated 3 dimensional model (e.g., based on error functions or infinite sums in a rectangular parallelepiped) down the ray path for a given position. The whole-block method was tested by comparing whole-block profiles with profiles cut from the center of an oriented diopside sample after a dehydration experiment [1]. Water profiles were measured in the cut slice by both SIMS and FTIR. The results of the two methods are in good agreement both with each other and with diffusion profiles calculated based on the results of the whole-block method. Interpreting whole block measurements without taking into account the integration effects through the crystal can lead to errors in calculated diffusivities and inferred mechanisms. We have used numerical simulations to demonstrate as much as a half an order of magnitude error (typically indicating diffusivities that are too fast) if whole-block data are interpreted using non-path integrated diffusion models. The largest errors are in short and/or fast directions, in which diffusion profiles are well developed. Whole block data also inevitably involve central values that are contaminated by edge concentrations integrated in the signal. This integration effect results in a plateau in the whole-block data that may complicate the interpretation of the whole-block data. For example, previous experimental work on water diffusion in olivine has identified a central plateau using whole block measurements, and this plateau is interpreted to result from a transitional state between two diffusion mechanisms [2]. However, a whole-block model also produces a reasonable fit to this data using the observed initial concentration of zero and a single-step diffusion mechanism. Thus, whole block effects need to be taken into account for the accurate determination of diffusivities and mechanisms. [1] Ferriss et al 2012 AGU; [2] Demouchy&Mackwell 2006 Phys Chem Mineral 33(5).

  20. Recovery of Sublethally Injured Bacteria Using Selective Agar Overlays.

    ERIC Educational Resources Information Center

    McKillip, John L.

    2001-01-01

    This experiment subjects bacteria in a food sample and an environmental sample to conditions of sublethal stress in order to assess the effectiveness of the agar overlay method to recover sublethally injured cells compared to direct plating onto the appropriate selective medium. (SAH)

  1. The Flux-integral Method for Multidimensional Convection and Diffusion

    NASA Technical Reports Server (NTRS)

    Leonard, B. P.; Macvean, M. K.; Lock, A. P.

    1994-01-01

    The flux-integral method is a procedure for constructing an explicit, single-step, forward-in-time, conservative, control volume update of the unsteady, multidimensional convection-diffusion equation. The convective plus diffusive flux at each face of a control-volume cell is estimated by integrating the transported variable and its face-normal derivative over the volume swept out by the convecting velocity field. This yields a unique description of the fluxes, whereas other conservative methods rely on nonunique, arbitrary pseudoflux-difference splitting procedures. The accuracy of the resulting scheme depends on the form of the subcell interpolation assumed, given cell-average data. Cellwise constant behavior results in a (very artificially diffusive) first-order convection scheme. Second-order convection-diffusion schemes correspond to cellwise linear (or bilinear) subcell interpolation. Cellwise quadratic subcell interpolants generate a highly accurate convection-diffusion scheme with excellent phase accuracy. Under constant-coefficient conditions, this is a uniformly third-order polynomial interpolation algorithm (UTOPIA).

  2. An adaptive SUPG method for evolutionary convection-diffusion equations

    E-print Network

    John, Volker

    An adaptive SUPG method for evolutionary convection-diffusion equations Javier de Frutos a,1 and coarsening. The main idea consists in considering the SUPG solution of the evolutionary problem as the SUPG] will be applied, which has proved to be robust in the SUPG norm. The effectivity of this error estimator

  3. Methods for diffusive relaxation in the Pn equation

    SciTech Connect

    Hauck, Cory D [Los Alamos National Laboratory; Mcclarren, Ryan G [Los Alamos National Laboratory; Lowrie, Robert B [Los Alamos National Laboratory

    2008-01-01

    We present recent progress in the development of two substantially different approaches for simulating the so-called of P{sub N} equations. These are linear hyperbolic systems of PDEs that are used to model particle transport in a material medium, that in highly collisional regimes, are accurately approximated by a simple diffusion equation. This limit is based on a balance between function values and gradients of certain variables in the P{sub N} system. Conventional reconstruction methods based on upwinding approximate such gradients with an error that is dependent on the size of the computational mesh. Thus in order to capture the diffusion limit, a given mesh must resolve the dynamics of the continuum equation at the level of the mean-free-path, which tends to zero in the diffusion limit. The two methods analyzed here produce accurate solutions in both collisional and non-collisional regimes; in particular, they do not require resolution of the mean-free-path in order to properly capture the diffusion limit. The first method is a straight-forward application of the discrete Galerkin (DG) methodology, which uses additional variables in each computational cell to capture the balance between function values and gradients, which are computed locally. The second method uses a temporal splitting of the fast and slow dynamics in the P{sub N} system to derive so-called regularized equations for which the diffusion limit is built-in. We focus specifically on the P{sub N} equations for one-dimensional, slab geometries. Preliminary results for several benchmark problems are presented which highlight the advantages and disadvantages of each method. Further improvements and extensions are also discussed.

  4. Method of making gas diffusion layers for electrochemical cells

    DOEpatents

    Frisk, Joseph William (Oakdale, MN); Boand, Wayne Meredith (Lino Lakes, MN); Larson, James Michael (Saint Paul, MN)

    2002-01-01

    A method is provided for making a gas diffusion layer for an electrochemical cell comprising the steps of: a) combining carbon particles and one or more surfactants in a typically aqueous vehicle to make a preliminary composition, typically by high shear mixing; b) adding one or more highly fluorinated polymers to said preliminary composition by low shear mixing to make a coating composition; and c) applying the coating composition to an electrically conductive porous substrate, typically by a low shear coating method.

  5. Thermal diffusivity of nonflat plates using the flash method

    SciTech Connect

    Salazar, Agustin; Fuente, Raquel; Apinaniz, Estibaliz; Mendioroz, Arantza [Departamento de Fisica Aplicada I, Escuela Tecnica Superior de Ingenieria, Universidad del Pais Vasco, Alameda Urquijo s/n, 48013 Bilbao (Spain)

    2011-01-15

    The flash method is the standard technique to measure the thermal diffusivity of solid samples. It consists of heating the front surface of an opaque sample by a brief light pulse and detecting the temperature evolution at its rear surface. The thermal diffusivity is obtained by measuring the time corresponding to the half maximum of the temperature rise, which only depends on the sample thickness and thermal diffusivity through a simple formula. Up to now, the flash method has been restricted to flat samples. In this work, we extend the flash method to measure the thermal diffusivity of nonflat samples. In particular, we focus on plates with cylindrical and spherical shapes. The theoretical model indicates that the same expression for flat samples can also be applied to cylindrical and spherical plates, except for extremely curved samples. Accordingly, a curvature limit for the application of the expression for flat samples is established. Flash measurements on lead foils of cylindrical shape confirm the validity of the model.

  6. Some basic mathematical methods of diffusion theory. [emphasis on atmospheric applications

    NASA Technical Reports Server (NTRS)

    Giere, A. C.

    1977-01-01

    An introductory treatment of the fundamentals of diffusion theory is presented, starting with molecular diffusion and leading up to the statistical methods of turbulent diffusion. A multilayer diffusion model, designed to permit concentration and dosage calculations downwind of toxic clouds from rocket vehicles, is described. The concepts and equations of diffusion are developed on an elementary level, with emphasis on atmospheric applications.

  7. Split operator method for fluorescence diffuse optical tomography using anisotropic diffusion regularisation with prior anatomical information

    PubMed Central

    Correia, Teresa; Aguirre, Juan; Sisniega, Alejandro; Chamorro-Servent, Judit; Abascal, Juan; Vaquero, Juan J.; Desco, Manuel; Kolehmainen, Ville; Arridge, Simon

    2011-01-01

    Fluorescence diffuse optical tomography (fDOT) is an imaging modality that provides images of the fluorochrome distribution within the object of study. The image reconstruction problem is ill-posed and highly underdetermined and, therefore, regularisation techniques need to be used. In this paper we use a nonlinear anisotropic diffusion regularisation term that incorporates anatomical prior information. We introduce a split operator method that reduces the nonlinear inverse problem to two simpler problems, allowing fast and efficient solution of the fDOT problem. We tested our method using simulated, phantom and ex-vivo mouse data, and found that it provides reconstructions with better spatial localisation and size of fluorochrome inclusions than using the standard Tikhonov penalty term. PMID:22091447

  8. Comparison of Etest, disk diffusion, and broth macrodilution for in vitro susceptibility testing of Rhodococcus equi.

    PubMed

    Berghaus, Londa J; Giguère, Steeve; Guldbech, Kristen; Warner, Eleanor; Ugorji, Ukachi; Berghaus, Roy D

    2015-01-01

    MICs of erythromycin, clarithromycin, azithromycin, rifampin, gentamicin, and doxycycline against 101 isolates of Rhodococcus equi were determined by broth macrodilution, disk diffusion, and Etest. Categorical agreement ranged between 85.1 and 100%. Overall, the agreement between Etest and disk diffusion was better than the agreement between broth macrodilution and the agar-based methods. PMID:25378571

  9. Some Experiments With Agar-Grown Seedlings

    ERIC Educational Resources Information Center

    Freeland, P. W.

    1973-01-01

    Two percent agar gel is reported as a better medium for germination and growth studies. Students can be encouraged to undertake many simple experiments and make precise observations by using this medium. (PS)

  10. A diffusion accelerated solution method for the nonlinear characteristic scheme

    SciTech Connect

    Wareing, T.A.; Walters, W.F.; Morel, J.E.

    1995-02-01

    Recently the nonlinear characteristic scheme for spatially discretizing the discrete-ordinate equations was introduced. This scheme is accurate for both optically thin and optically thick spatial meshes and produces strictly positive angular and scalar fluxes. The nonlinear characteristic discrete-ordinate equations can be solved using the source iteration method; however, it is well known that the this method converges prohibitively slowly for optically thick problems with scattering ratios at or near unity. In this paper we describe a diffusion accelerated solution method for solving the nonlinear characteristic equations in slab geometry.

  11. Benchmarking with high-order nodal diffusion methods

    SciTech Connect

    Tomasevic, D.; Larsen, E.W. (Univ. of Michigan, Ann Arbor, MI (United States))

    1993-01-01

    Significant progress in the solution of multidimensional neutron diffusion problems was made in the late 1970s with the introduction of nodal methods. Modern nodal reactor analysis codes provide significant improvements in both accuracy and computing speed over earlier codes based on fine-mesh finite difference methods. In the past, the performance of advanced nodal methods was determined by comparisons with fine-mesh finite difference codes. More recently, the excellent spatial convergence of nodal methods has permitted their use in establishing reference solutions for some important bench-mark problems. The recent development of the self-consistent high-order nodal diffusion method and its subsequent variational formulation has permitted the calculation of reference solutions with one node per assembly mesh size. In this paper, we compare results for four selected benchmark problems to those obtained by high-order response matrix methods and by two well-known state-of-the-art nodal methods (the [open quotes]analytical[close quotes] and [open quotes]nodal expansion[close quotes] methods).

  12. Support Operators Method for the Diffusion Equation in Multiple Materials

    SciTech Connect

    Winters, Andrew R. [Los Alamos National Laboratory; Shashkov, Mikhail J. [Los Alamos National Laboratory

    2012-08-14

    A second-order finite difference scheme for the solution of the diffusion equation on non-uniform meshes is implemented. The method allows the heat conductivity to be discontinuous. The algorithm is formulated on a one dimensional mesh and is derived using the support operators method. A key component of the derivation is that the discrete analog of the flux operator is constructed to be the negative adjoint of the discrete divergence, in an inner product that is a discrete analog of the continuum inner product. The resultant discrete operators in the fully discretized diffusion equation are symmetric and positive definite. The algorithm is generalized to operate on meshes with cells which have mixed material properties. A mechanism to recover intermediate temperature values in mixed cells using a limited linear reconstruction is introduced. The implementation of the algorithm is verified and the linear reconstruction mechanism is compared to previous results for obtaining new material temperatures.

  13. Diffusely reflecting paints including polytetrafluoroethylene and method of manufacture

    NASA Technical Reports Server (NTRS)

    Schutt, J. B.; Shai, M. C. (inventors)

    1985-01-01

    The invention pertains to a high diffuse, reflective paint comprising an alcohol soluble binder, polytetrafluoroethylene (TFE) and an alcohol for coating a substrate and forming an optical reference with a superior Lambertian characteristic. A method for making the paint by first mixing the biner and alcohol, and thereafter by mixing in outgassed TFE is described. A wetting agent may be employed to aid the mixing process.

  14. Wavelets method for the time fractional diffusion-wave equation

    NASA Astrophysics Data System (ADS)

    Heydari, M. H.; Hooshmandasl, M. R.; Maalek Ghaini, F. M.; Cattani, C.

    2015-01-01

    In this paper, an efficient and accurate computational method based on the Legendre wavelets (LWs) is proposed for solving the time fractional diffusion-wave equation (FDWE). To this end, a new fractional operational matrix (FOM) of integration for the LWs is derived. The LWs and their FOM of integration are used to transform the problem under consideration into a linear system of algebraic equations, which can be simply solved to achieve the solution of the problem. The proposed method is very convenient for solving such problems, since the initial and boundary conditions are taken into account automatically.

  15. Physical-mechanical properties of agar/?-carrageenan blend film and derived clay nanocomposite film.

    PubMed

    Rhim, Jong-Whan

    2012-12-01

    Binary blend films with different mixing ratio of agar and ?-carrageenan were prepared using a solution casting method with and without nanoclay and the effect of their composition on the mechanical, water vapor barrier, and water resistance properties was tested. The tensile strength (TS) of the ?-carrageenan film was greater than that of agar film. The water vapor permeability (WVP) of the agar film was lower than that of ?-carrageenan film, the swelling ratio (SR) and water solubility (WS) of ?-carrageenan film were higher than those of agar film. Each property of the binary blend films varied proportionately depending on the mixing ratio of each component. The XRD result indicated that the nanocomposite with agar/?-carrageenan/clay (Cloisite(®) Na(+)) was intercalated. Consequently, the mechanical strength, water vapor barrier properties, and water contact angle (CA) were significantly (P < 0.05) improved through nanocomposite formation. PMID:23170836

  16. Physicochemical and morphological properties of plasticized poly(vinyl alcohol)-agar biodegradable films.

    PubMed

    Madera-Santana, T J; Freile-Pelegrín, Y; Azamar-Barrios, J A

    2014-08-01

    The effects of the addition of glycerol (GLY) on the physicochemical and morphological properties of poly(vinyl alcohol) (PVA)-agar films were reported. PVA-agar films were prepared by solution cast method, and the addition of GLY in PVA-agar films altered the optical properties, resulting in a decrease in opacity values and in the color difference (?E) of the films. Structural characterization using Fourier transformation infrared (FTIR) spectroscopy and X-ray diffraction (XRD) indicated that the presence of GLY altered the intensity of the bands (from 1200 to 800cm(-1)) and crystallinity. The characterization of the thermal properties indicated that an increase in the agar content produces a decrease in the melting temperature and augments the heat of fusion. Similar tendencies were observed in plasticized films, but at different magnification. The formulation that demonstrated the lowest mechanical properties contained 25wt.% agar, whereas the formulation that contained 75wt.% agar demonstrated a significant improvement. The water vapor transmission rate (WVTR) and surface morphology analysis demonstrated that the structure of PVA-agar films is reorganized upon GLY addition. The physicochemical properties of PVA-agar films using GLY as a plasticizer provide information for the application of this formulation as packaging material for specific food applications. PMID:24875313

  17. DOUBLE WELL POTENTIAL AS DIFFUSIVE FUNCTION FOR PDE-BASED SCALAR IMAGE RESTORATION METHOD

    E-print Network

    Histace, Aymeric

    DOUBLE WELL POTENTIAL AS DIFFUSIVE FUNCTION FOR PDE-BASED SCALAR IMAGE RESTORATION METHOD A michel.menard@univ-lr.fr Keywords: Image Diffusion, Double well potential, Directional diffusion integrating a double-well potential as diffusive function. It is shown that this particular potential leads

  18. Membrane-assisted culture of fungal mycelium on agar plates for RNA extraction and pharmacological analyses.

    PubMed

    Lange, Mario; Müller, Carolin; Peiter, Edgar

    2014-05-15

    Fungal mycelium grown in liquid culture is easy to harvest for RNA extraction and gene expression analyses, but liquid cultures often develop rather heterogeneously. In contrast, growth of fungal mycelium on agar plates is highly reproducible. However, this biological material cannot be harvested easily for downstream analyses. This article describes a PVDF (polyvinylidene difluoride) membrane-assisted agar plate culture method that enables the harvest of mycelium grown on agar plates. This culture method leads to a strongly reduced variation in gene expression between biological replicates and requires less growth space as compared with liquid cultures. PMID:24607793

  19. Three-dimensional characterization of bacterial microcolonies on solid agar-based culture media.

    PubMed

    Drazek, Laurent; Tournoud, Maud; Derepas, Frédéric; Guicherd, Maryse; Mahé, Pierre; Pinston, Frédéric; Veyrieras, Jean-Baptiste; Chatellier, Sonia

    2015-02-01

    For the last century, in vitro diagnostic process in microbiology has mainly relied on the growth of bacteria on the surface of a solid agar medium. Nevertheless, few studies focused in the past on the dynamics of microcolonies growth on agar surface before 8 to 10h of incubation. In this article, chromatic confocal microscopy has been applied to characterize the early development of a bacterial colony. This technology relies on a differential focusing depth of the white light. It allows one to fully measure the tridimensional shape of microcolonies more quickly than classical confocal microscopy but with the same spatial resolution. Placing the device in an incubator, the method was able to individually track colonies growing on an agar plate, and to follow the evolution of their surface or volume. Using an appropriate statistical modeling framework, for a given microorganism, the doubling time has been estimated for each individual colony, as well as its variability between colonies, both within and between agar plates. A proof of concept led on four bacterial strains of four distinct species demonstrated the feasibility and the interest of the approach. It showed in particular that doubling times derived from early tri-dimensional measurements on microcolonies differed from classical measurements in micro-dilutions based on optical diffusion. Such a precise characterization of the tri-dimensional shape of microcolonies in their late-lag to early-exponential phase could be beneficial in terms of in vitro diagnostics. Indeed, real-time monitoring of the biomass available in a colony could allow to run well established microbial identification workflows like, for instance, MALDI-TOF mass-spectrometry, as soon as a sufficient quantity of material is available, thereby reducing the time needed to provide a diagnostic. Moreover, as done for pre-identification of macro-colonies, morphological indicators such as three-dimensional growth profiles derived from microcolonies could be used to perform a first pre-identification step, but in a shorten time. PMID:25533218

  20. Diffuse optical methods for assessing breast cancer chemotherapy

    NASA Astrophysics Data System (ADS)

    Tromberg, Bruce J.

    2014-03-01

    In his talk, "Diffuse Optical Methods for Assessing Breast Cancer Chemotherapy," SPIE Fellow Bruce Tromberg (Beckman Laser Institute and Medical Clinic) describes a method combining frequency domain photon migration, essentially a method of tracking photon motion in tissue, with a NIR spectroscopy technique using 850nm LEDs. The result is a scatter corrected absorption spectra. The technique takes advantage of elevated blood and water levels and decreased lipid levels in the presence of tumors to provide a more accurate mapping of the breast, allowing more effective treatment. Tromberg's team recently completed their first full mapping of the breast and have taken the instrument from a standalone unit to a portable one suitable for travel. In addition to providing feedback to enhance breast cancer treatment, Tromberg expects that this technique will be applicable in treating other forms of cancer as well.

  1. On matrix diffusion: formulations, solution methods and qualitative effects

    NASA Astrophysics Data System (ADS)

    Carrera, Jesús; Sánchez-Vila, Xavier; Benet, Inmaculada; Medina, Agustín; Galarza, Germán; Guimerà, Jordi

    Matrix diffusion has become widely recognized as an important transport mechanism. Unfortunately, accounting for matrix diffusion complicates solute-transport simulations. This problem has led to simplified formulations, partly motivated by the solution method. As a result, some confusion has been generated about how to properly pose the problem. One of the objectives of this work is to find some unity among existing formulations and solution methods. In doing so, some asymptotic properties of matrix diffusion are derived. Specifically, early-time behavior (short tests) depends only on ?m2RmDm / Lm2, whereas late-time behavior (long tracer tests) depends only on ?mRm, and not on matrix diffusion coefficient or block size and shape. The latter is always true for mean arrival time. These properties help in: (a) analyzing the qualitative behavior of matrix diffusion; (b) explaining one paradox of solute transport through fractured rocks (the apparent dependence of porosity on travel time); (c) discriminating between matrix diffusion and other problems (such as kinetic sorption or heterogeneity); and (d) describing identifiability problems and ways to overcome them. RésuméLa diffusion matricielle est un phénomène reconnu maintenant comme un mécanisme de transport important. Malheureusement, la prise en compte de la diffusion matricielle complique la simulation du transport de soluté. Ce problème a conduit à des formulations simplifiées, en partie à cause de la méthode de résolution. Il s'en est suivi une certaine confusion sur la façon de poser correctement le problème. L'un des objectifs de ce travail est de trouver une certaine unité parmi les formulations et les méthodes de résolution. C'est ainsi que certaines propriétés asymptotiques de la diffusion matricielle ont été dérivées. En particulier, le comportement à l'origine (expériences de traçage courtes) dépend uniquement du terme ?m2RmDm / Lm2, alors que le comportement à long terme (traçages de longue durée) ne dépend que de ?mRm, et non pas du coefficient de diffusion matricielle ou de la forme et de la taille des blocs. Ceci est toujours vrai pour le temps moyen d'arrivée. Ces propriétés permettent: (a) d'analyser le comportement de la diffusion matricielle; (b) d'expliquer un paradoxe du transport de soluté dans les roches fracturées (la dépendance apparente entre la porosité et le temps de transit); (c) de faire la distinction entre la diffusion matricielle et d'autres problèmes, tels que la sorption cinétique ou l'hétérogénéité et (d) de décrire les problèmes d'identification et les façons de les résoudre. Resumen La difusión en la matriz está reconocida en la actualidad como un importante mecanismo de transporte de solutos. Desgraciadamente, tener en cuenta este proceso complica las simulaciones de transporte. Esto ha llevado a una serie de formulaciones simplificadas, motivadas en parte por el propio método de solución. Como resultado, se ha producido cierta confusión respecto a cuál es la manera adecuada de formular el problema. Uno de los objetivos de este trabajo es encontrar una cierta unidad entre las formulaciones existentes y los métodos de solución, lo que conduce a algunas propiedades asintóticas de la difusión en la matriz; específicamente, se comprueba que el comportamiento para tiempos cortos depende únicamente del parámetro ?m2RmDm / Lm2, mientras que el de tiempos largos depende sólo de ?mRm, y no del coeficiente de difusión en la matriz o del tamaño o forma del bloque. Esto último también es cierto, en todos los casos, respecto al tiempo medio de llegada (definido como el valor esperado de la distribución de tiempos de llegada). Estas propiedades son útiles para: (a) analizar el comportamiento cualitativo de la difusión en la matriz; (b) explicar una de las paradojas del transporte de solutos en medios fracturados, la aparente dependencia entre porosidad y tiempo de llegada; (c) discriminar entre difusión en la matriz y otros problemas, como las reacciones con cinética

  2. Electro-osmosis in gel -Application to Agar-Agar Fabien Cherblanc, Jer^ome Boscus, Jean-Claude Benet

    E-print Network

    Paris-Sud XI, Université de

    Electro-osmosis in gel - Application to Agar-Agar Fabien Cherblanc, J´er^ome Boscus, Jean-Claude B-engineering as a reference material, Agar-Agar gel is the focus of an experimental investigation concerning the electro-osmosis from liquid phase transport phenomena that take place in porous media (osmosis, electro-osmosis

  3. Diffusion

    NSDL National Science Digital Library

    2012-07-19

    Diffusion is the net movement of particles from areas of high concentration (number of particles per unit area) to low concentration. In this activity, students use a molecular dynamics model to view the behavior of diffusion in gases and liquids.

  4. Extrapolation techniques applied to matrix methods in neutron diffusion problems

    NASA Technical Reports Server (NTRS)

    Mccready, Robert R

    1956-01-01

    A general matrix method is developed for the solution of characteristic-value problems of the type arising in many physical applications. The scheme employed is essentially that of Gauss and Seidel with appropriate modifications needed to make it applicable to characteristic-value problems. An iterative procedure produces a sequence of estimates to the answer; and extrapolation techniques, based upon previous behavior of iterants, are utilized in speeding convergence. Theoretically sound limits are placed on the magnitude of the extrapolation that may be tolerated. This matrix method is applied to the problem of finding criticality and neutron fluxes in a nuclear reactor with control rods. The two-dimensional finite-difference approximation to the two-group neutron fluxes in a nuclear reactor with control rods. The two-dimensional finite-difference approximation to the two-group neutron-diffusion equations is treated. Results for this example are indicated.

  5. Domain decomposition multigrid methods for nonlinear reaction-diffusion problems

    NASA Astrophysics Data System (ADS)

    Arrarás, A.; Gaspar, F. J.; Portero, L.; Rodrigo, C.

    2015-03-01

    In this work, we propose efficient discretizations for nonlinear evolutionary reaction-diffusion problems on general two-dimensional domains. The spatial domain is discretized through an unstructured coarse triangulation, which is subsequently refined via regular triangular grids. Following the method of lines approach, we first consider a finite element spatial discretization, and then use a linearly implicit splitting time integrator related to a suitable decomposition of the triangulation nodes. Such a procedure provides a linear system per internal stage. The equations corresponding to those nodes lying strictly inside the elements of the coarse triangulation can be decoupled and solved in parallel using geometric multigrid techniques. The method is unconditionally stable and computationally efficient, since it avoids the need for Schwarz-type iteration procedures. In addition, it is formulated for triangular elements, thus yielding much flexibility in the discretization of complex geometries. To illustrate its practical utility, the algorithm is shown to reproduce the pattern-forming dynamics of the Schnakenberg model.

  6. Modelling of transient heat conduction with diffuse interface methods

    NASA Astrophysics Data System (ADS)

    Ettrich, J.; Choudhury, A.; Tschukin, O.; Schoof, E.; August, A.; Nestler, B.

    2014-12-01

    We present a survey on different numerical interpolation schemes used for two-phase transient heat conduction problems in the context of interface capturing phase-field methods. Examples are general transport problems in the context of diffuse interface methods with a non-equal heat conductivity in normal and tangential directions to the interface. We extend the tonsorial approach recently published by Nicoli M et al (2011 Phys. Rev. E 84 1–6) to the general three-dimensional (3D) transient evolution equations. Validations for one-dimensional, two-dimensional and 3D transient test cases are provided, and the results are in good agreement with analytical and numerical reference solutions.

  7. Direct disk diffusion test using European Clinical Antimicrobial Susceptibility Testing breakpoints provides reliable results compared with the standard method

    PubMed Central

    Stokkou, Sofia; Geginat, Gernot; Schlüter, Dirk

    2015-01-01

    Sepsis represents a life-threatening infection requiring the immediate start of antibacterial treatment to reduce morbidity. Thus, laboratories use direct antimicrobial susceptibility testing (AST) to rapidly generate preliminary results from positive blood cultures. As the direct AST has not yet been published to be evaluated with EUCAST breakpoints, the purpose of the study was to investigate the reliability of the direct agar diffusion test to correctly produce AST results from positive monobacterial blood cultures compared with the VITEK2-based definitive AST, when current EUCAST breakpoints were used. A total of 428 isolates from unselected monobacterial routine blood cultures and 110 challenge strains were included. Direct agar diffusion-based and standard VITEK2-based AST of 2803 bacterium–drug combinations yielded a total clinical category agreement of 95.47% with 1.28% very major errors and 3.42% combined major and minor errors. On the species level, very major errors were observed in the species–drug combinations Enterococcus spp.–high-level gentamicin (10.87%) and Staphylococcus spp.–rifampicin (5%), only. No very major errors occurred with Enterobacteriaceae and Pseudomonas aeruginosa. In most species–drug combinations, the direct agar diffusion test using EUCAST breakpoints precisely predicted the result of the definitive antibiotic susceptibility test and, thus, it can be used to optimize empiric antibiotic therapy until definitive results are available.

  8. Direct disk diffusion test using European Clinical Antimicrobial Susceptibility Testing breakpoints provides reliable results compared with the standard method.

    PubMed

    Stokkou, Sofia; Geginat, Gernot; Schlüter, Dirk; Hinz, Rebecca

    2015-03-01

    Sepsis represents a life-threatening infection requiring the immediate start of antibacterial treatment to reduce morbidity. Thus, laboratories use direct antimicrobial susceptibility testing (AST) to rapidly generate preliminary results from positive blood cultures. As the direct AST has not yet been published to be evaluated with EUCAST breakpoints, the purpose of the study was to investigate the reliability of the direct agar diffusion test to correctly produce AST results from positive monobacterial blood cultures compared with the VITEK2-based definitive AST, when current EUCAST breakpoints were used. A total of 428 isolates from unselected monobacterial routine blood cultures and 110 challenge strains were included. Direct agar diffusion-based and standard VITEK2-based AST of 2803 bacterium-drug combinations yielded a total clinical category agreement of 95.47% with 1.28% very major errors and 3.42% combined major and minor errors. On the species level, very major errors were observed in the species-drug combinations Enterococcus spp.-high-level gentamicin (10.87%) and Staphylococcus spp.-rifampicin (5%), only. No very major errors occurred with Enterobacteriaceae and Pseudomonas aeruginosa. In most species-drug combinations, the direct agar diffusion test using EUCAST breakpoints precisely predicted the result of the definitive antibiotic susceptibility test and, thus, it can be used to optimize empiric antibiotic therapy until definitive results are available. PMID:25883798

  9. The radial diffusion method 2. A Semianalytical model for the determination of effective diffusion coefficients, porosity, and adsorption

    NASA Astrophysics Data System (ADS)

    Novakowski, K. S.; van der Kamp, G.

    A model for interpreting diffusional transport in porous geological materials is developed. The model is based on a laboratory method described in a companion paper [van der Kamp et al., this issue] by which radial diffusion from or into a cylindrical reservoir in a core-sized sample is measured. The model accounts for radial diffusion, mass balance in the reservoir, linear adsorption, decay or transformation, and periodic abstraction of samples. The model is derived using the Laplace transform method for both finite and semi-infinite domains. For conditions where solute concentrations equilibrate (i.e., in finite diameter samples), a simple expression is derived that can be used to interpret the results for effective porosity and a retardation factor. It is demonstrated that the method can provide independent measures of the effective diffusion coefficient, adsorption, and effective porosity when the results are interpreted using the model. Several real and hypothetical diffusion experiments are presented to illustrate the use of the model.

  10. Chemical Methods of Control

    NSDL National Science Digital Library

    Fran Slowiczek, Ed.D.

    2009-01-01

    In this lab, learners evaluate the relative effectiveness of various chemical substances (i.e. garlic powder, bathroom cleaner, mouthwash, etc.) as antimicrobial agents. Learners use the agar diffusion method to determine "zones of inhibition." This lesson guide includes background information, questions for learners, and additional activity ideas.

  11. Improving diffuse optical tomography imaging with adaptive regularization method

    NASA Astrophysics Data System (ADS)

    Niu, Haijing; Guo, Ping; Ji, Lijun; Jiang, Tianzi

    2007-12-01

    Diffuse optical tomography (DOT) is to reconstruct the images of internal optical parameters distribution from boundary measurements. Due to the amount of available boundary measurements is less than the number of unknown optical parameters to be recovered, this inverse problem usually shows the ill-posed characteristics. This will result in the problem of low reconstruction image quality. In this paper, an adaptive regularization method based on the objective function values is proposed, which reduces the ill-posed characteristics in the inverse problem by selecting an appropriate regularization value at teach iteration. Results from computer simulations indicated that using this regularization technique, DOT imaging quality is improved effectively. Furthermore, using the regularization technique, the sensitivity to noise of the reconstructed images can be decreased greatly.

  12. Preparation and characterization of dysprosium-neodymium modified magnetic fluid coated by agar

    Microsoft Academic Search

    Yuan Xing-hai; Liu Ru; Deng Yan-jun

    2009-01-01

    The experiment used agar as a coating agent to manufacture dysprosium-neodymium modified water-based magnetic fluid coated by agar with the method of chemical co-precipitation when the two rare-earth element dysprosium and neodymium were precipitated with Fe3+ and Fe2+ together, which has high stability and a strong magnetic field. After the experimental research on all aspects of factors influencing the magnetic

  13. Low density, microcellular, dopable, agar/gelatin foams for pulsed power experiments

    SciTech Connect

    McNamara, W.F. [Orion International Technologies, Inc., Albuquerque, NM (United States); Aubert, J.H. [Sandia National Lab., Albuquerque, NM (United States)

    1997-04-01

    Low-density, microcellular foams prepared from the natural polymers agar and gelatin have been developed for pulsed-power physics experiments. Numerous experiments were supported with foams having densities at or below 10 mg/cm{sup 3}. For some of the experiments, the agar/gelatin foam was uniformly doped with metallic elements using soluble salts. Depending on the method of preparation, cell sizes were typically below 10 microns and for one process were below 1.0 micron.

  14. A Critical Study of Agglomerated Multigrid Methods for Diffusion

    NASA Technical Reports Server (NTRS)

    Nishikawa, Hiroaki; Diskin, Boris; Thomas, James L.

    2011-01-01

    Agglomerated multigrid techniques used in unstructured-grid methods are studied critically for a model problem representative of laminar diffusion in the incompressible limit. The studied target-grid discretizations and discretizations used on agglomerated grids are typical of current node-centered formulations. Agglomerated multigrid convergence rates are presented using a range of two- and three-dimensional randomly perturbed unstructured grids for simple geometries with isotropic and stretched grids. Two agglomeration techniques are used within an overall topology-preserving agglomeration framework. The results show that multigrid with an inconsistent coarse-grid scheme using only the edge terms (also referred to in the literature as a thin-layer formulation) provides considerable speedup over single-grid methods but its convergence deteriorates on finer grids. Multigrid with a Galerkin coarse-grid discretization using piecewise-constant prolongation and a heuristic correction factor is slower and also grid-dependent. In contrast, grid-independent convergence rates are demonstrated for multigrid with consistent coarse-grid discretizations. Convergence rates of multigrid cycles are verified with quantitative analysis methods in which parts of the two-grid cycle are replaced by their idealized counterparts.

  15. A Critical Study of Agglomerated Multigrid Methods for Diffusion

    NASA Technical Reports Server (NTRS)

    Thomas, James L.; Nishikawa, Hiroaki; Diskin, Boris

    2009-01-01

    Agglomerated multigrid techniques used in unstructured-grid methods are studied critically for a model problem representative of laminar diffusion in the incompressible limit. The studied target-grid discretizations and discretizations used on agglomerated grids are typical of current node-centered formulations. Agglomerated multigrid convergence rates are presented using a range of two- and three-dimensional randomly perturbed unstructured grids for simple geometries with isotropic and highly stretched grids. Two agglomeration techniques are used within an overall topology-preserving agglomeration framework. The results show that multigrid with an inconsistent coarse-grid scheme using only the edge terms (also referred to in the literature as a thin-layer formulation) provides considerable speedup over single-grid methods but its convergence deteriorates on finer grids. Multigrid with a Galerkin coarse-grid discretization using piecewise-constant prolongation and a heuristic correction factor is slower and also grid-dependent. In contrast, grid-independent convergence rates are demonstrated for multigrid with consistent coarse-grid discretizations. Actual cycle results are verified using quantitative analysis methods in which parts of the cycle are replaced by their idealized counterparts.

  16. Salt-starch xylose lysine deoxycholate agar

    Microsoft Academic Search

    Fredy P. Roland

    1977-01-01

    Salt dependent gram-negative bacilli responsible for gastroenteritis and tissue infections are often not recovered because proper media for isolation are not used. A salt-starch XLD agar with 1.5% NaCl and 0.5% starch medium has been found to permit the isolation of pathogenic Enterobacteriaceae, non-Enterobacteriaceae gram-negative bacilli, and salt-dependent gram-negative bacilli, among which isVibrio parahemolyticus. As far as the Enterobacteriaceae are

  17. A Genetic Algorithm Method for Multi-spot Diffuse Infrared Wireless Communications

    E-print Network

    Haddadi, Hamed

    A Genetic Algorithm Method for Multi-spot Diffuse Infrared Wireless Communications M Nikkar SNR in multi-spot diffuse infrared communication systems is proposed. The technique aims to adjust on the SNR that can be achieved by spot-diffuse system such as LSMS[1] in a mobile scenario. In practice

  18. The measurement of grain boundary diffusion by the method of autoradiography

    Microsoft Academic Search

    T. J. Renouf

    1970-01-01

    The method of autoradiography is used in the quantitative measurement of grain boundary diffusion. The autoradiographic image is examined using the Joyce-Loebl isodensitracer to produce an accurate two-dimensional density map of the grain boundary region sufficient in detail to allow a more extensive analysis of grain boundary diffusion. Tracer diffusion of the very high, medium and very low energy isotopes

  19. Method for manufacturing nuclear radiation detector with deep diffused junction

    Microsoft Academic Search

    Hall

    1977-01-01

    Germanium radiation detectors are manufactured by diffusing lithium into high purity p-type germanium. The diffusion is most readily accomplished from a lithium-lead-bismuth alloy at approximately 430°C and is monitored by a quartz half cell containing a standard composition of this alloy. Detectors having n-type cores may be constructed by converting high purity p-type germanium to n-type by a lithium diffusion

  20. A novel method for effective diffusion coefficient measurement in gas diffusion media of polymer electrolyte fuel cells

    NASA Astrophysics Data System (ADS)

    Yang, Linlin; Sun, Hai; Fu, Xudong; Wang, Suli; Jiang, Luhua; Sun, Gongquan

    2014-07-01

    A novel method for measuring effective diffusion coefficient of porous materials is developed. The oxygen concentration gradient is established by an air-breathing proton exchange membrane fuel cell (PEMFC). The porous sample is set in a sample holder located in the cathode plate of the PEMFC. At a given oxygen flux, the effective diffusion coefficients are related to the difference of oxygen concentration across the samples, which can be correlated with the differences of the output voltage of the PEMFC with and without inserting the sample in the cathode plate. Compared to the conventional electrical conductivity method, this method is more reliable for measuring non-wetting samples.

  1. 21 CFR 866.4600 - Ouchterlony agar plate.

    Code of Federal Regulations, 2010 CFR

    2010-04-01

    ...ouchterlony agar plate for clinical use is a device containing an agar gel used to examine antigen-antibody reactions. In immunodiffusion, antibodies and antigens migrate toward each other through gel which originally contained neither of...

  2. Method of evaluating thermal diffusivity near lossy boundaries as an alternative to the Parker method

    NASA Astrophysics Data System (ADS)

    Ringermacher, Harry I.

    2013-04-01

    We describe an analysis of a flash thermographic method to measure thermal diffusivity that is particularly insensitive to heat loss mechanisms near thermal boundaries. This approach is an alternative to the "Parker method" which requires that a plate-like region subject to a uniform energy flux must reach a maximum constant temperature in order to obtain an accurate measurement of thermal diffusivity at the half-temperature point in time. The present approach relies on evaluating another unique point, the inflection point, of the same back-side thermal response curve as Parker's or, from the front side, using a contrast versus time curve in the sample region of interest. This inflection point occurs so early in the response history that little heat loss, for example, near heat-sink boundaries or surface convection, is expressed. Since the method is insensitive to the achieved temperature, it is also insensitive to surface emissivity variations.

  3. The effect of mixing conditions on the material properties of an agar gel—microstructural and macrostructural considerations

    Microsoft Academic Search

    K. A. Ross; L. J. Pyrak-Nolte; O. H. Campanella

    2006-01-01

    The effect of mixing on the properties of agar gels was investigated with consideration being given to both macrostructural and microstructural characteristics of the gel through rheological techniques that include conventional and ultrasound based methods and Differential Scanning Calorimetry.Agar gels of 1 and 3% concentrations were prepared. The gels were subjected to three different mixing conditions: no mix, slow mix

  4. Polymeric hydrogen diffusion barrier, high-pressure storage tank so equipped, method of fabricating a storage tank and method of preventing hydrogen diffusion

    DOEpatents

    Lessing, Paul A.

    2004-09-07

    An electrochemically active hydrogen diffusion barrier which comprises an anode layer, a cathode layer, and an intermediate electrolyte layer, which is conductive to protons and substantially impermeable to hydrogen. A catalytic metal present in or adjacent to the anode layer catalyzes an electrochemical reaction that converts any hydrogen that diffuses through the electrolyte layer to protons and electrons. The protons and electrons are transported to the cathode layer and reacted to form hydrogen. The hydrogen diffusion barrier is applied to a polymeric substrate used in a storage tank to store hydrogen under high pressure. A storage tank equipped with the electrochemically active hydrogen diffusion barrier, a method of fabricating the storage tank, and a method of preventing hydrogen from diffusing out of a storage tank are also disclosed.

  5. AEROSOL SIZE MEASUREMENT BY ELECTRICAL MOBILITY AND DIFFUSION ANALYSIS - A COMPARISON OF METHODS

    EPA Science Inventory

    The principle of the electrical aerosol analyzer method is reviewed and the diffusion battery method is described in detail. An appendix explains the basis of the calculations used. The diffusion battery method is complicated by counting losses of very small particles, inherent t...

  6. Continuous degradation of maltose: improvement in stability and catalytic properties of maltase (?-glucosidase) through immobilization using agar-agar gel as a support.

    PubMed

    Nawaz, Muhammad Asif; Karim, Asad; Aman, Afsheen; Marchetti, Roberta; Qader, Shah Ali Ul; Molinaro, Antonio

    2015-04-01

    Maltose degrading enzyme was immobilized within agar-agar support via entrapment method due to its industrial utilization. The maximum immobilization efficiency (82.77 %) was achieved using 4.0 % agar-agar keeping the diameter of bead up to 3.0 mm. The matrix entrapment showed maximum catalytic activity at pH 7.0 and temperature 65 °C. Substrate saturation kinetics showed that the K m of immobilized enzyme increased from 1.717 to 2.117 mM ml(-1) where as Vmax decreased from 8,411 to 7,450 U ml(-1 )min(-1) as compared to free enzyme. The immobilization significantly increased the stability of maltase against various temperatures and immobilized maltase retain 100 % of its original activity after 2 h at 50 °C, whereas the free maltase only showed 60 % residual activity under same condition. The reusability of entrapped maltase showed activity up to 12 cycles and retained 50 % of activity even after 5th cycle. Storage stability of agar entrapped maltase retain 73 % of its initial activity even after 2 months when stored at 30 °C while free enzyme showed only 37 % activity at same storage conditions. PMID:25326060

  7. Comparative Study of Responses to Neomycins B and C by Microbiological and Gas-Liquid Chromatographic Assay Methods

    PubMed Central

    Tsuji, Kiyoshi; Robertson, John H.; Baas, Ruth; McInnis, D. J.

    1969-01-01

    The relative responses of neomycins B and C have been determined by a microbiological agar-diffusion method, a turbidimetric method, and by a recently developed gas-liquid-chromatographic (GLC) method capable of separating the neomycin isomers. The ratios of response of neomycin C to neomycin B by the individual methods were as follows: agar-diffusion method, 1:3; turbidimetric method, 1:2.5; and GLC method, 1:1. When neomycin C is assumed to have 35% biological activity of neomycin B, the calculated drug contents of neomycin sulfate powders obtained by the GLC method correlated well with values obtained by the microbiological agar-diffusion assay method. PMID:4907002

  8. LINEARLY IMPLICIT IMEX RUNGE-KUTTA METHODS FOR A CLASS OF DEGENERATE CONVECTION-DIFFUSION PROBLEMS

    E-print Network

    Bürger, Raimund

    LINEARLY IMPLICIT IMEX RUNGE-KUTTA METHODS FOR A CLASS OF DEGENERATE CONVECTION-DIFFUSION PROBLEMS of polydisperse sedimentation and multi-class traffic flow. Implicit- explicit (IMEX) Runge-Kutta (RK) methods an explicit treatment of the diffusive term. These schemes usually combine an explicit Runge-Kutta scheme

  9. A discontinuous residual-free bubble method for advection-diffusion problems

    E-print Network

    Sangalli, Giancarlo

    -diffusion, finite element method, stabilization, SUPG, residual-free bub- bles, multiscale. AMS Subject in the eight- ies [12,18,19]. Their Streamline-Upwind Petrov-Galerkin (SUPG) method adds diffusion only;consistency of the variational formulation. The SUPG technique performs better than the naive artificial

  10. An Analysis of the Minimal Dissipation Local Discontinuous Galerkin Method for Convection-Diffusion Problems

    Microsoft Academic Search

    Bernardo Cockburn; Bo Dong

    2007-01-01

    We analyze the so-called the minimal dissipation local discontin- uous Galerkin method for convection-diffusion or diffusion problems. The dis- tinctive feature of this method is that the stabilization parameters associated with the numerical trace of the flux are identically equal to zero in the interior of the domain; this is why its dissipation is said to be minimal. We show

  11. Some Extensions Of The Local Discontinuous Galerkin Method For Convection-Diffusion Equations In Multidimensions

    Microsoft Academic Search

    Bernardo Cockburn; Clint Dawson

    1999-01-01

    The local discontinuous Galerkin method has been developed recently by Cockburn and Shu for convection-dominated convection-diffusion equations. In this paper, we extend the method to multidimensional equations with non-periodic boundary conditions, and with a positive semi-definite diffusion coecient which may depend on space and time. Stability and a priori error estimates are derived.

  12. COMPARISON OF THE RECOVERIES OF ESCHERICHIA COLI AND TOTAL COLIFORMS FROM DRINKING WATER BY THE MI AGAR METHOD AND THE U.S. ENVIRONMENTAL PROTECTION AGENCY-APPROVED MEMBRANE FILTER METHOD

    EPA Science Inventory

    Drinking water regulations under the Final Coliform Rule require that total coliform-positive drinking water samples be examined for the presence of Escherichia coli or fecal coliforms. The current U.S. Environmental Protection Agency-approved membrane filter (MF) method for E. c...

  13. Diffusion

    NSDL National Science Digital Library

    Christopher Thomas (None; )

    2006-11-09

    Diffusion is the movement of particles from an area of high concentration to an area of low concentration. The molecules move until equilibrium is reached. If a perfume is sprayed on one side of the room, the perfume molecules will eventually spread out all over the room until there are equal concentrations of the molecules throughout the space.

  14. A comparison of blood agar supplemented with NAD with plain blood agar and chocolated blood agar in the isolation of Streptococcus pneumoniae and Haemophilus influenzae from sputum

    Microsoft Academic Search

    K. J. NYE; D. FALLON; B. GEE; S. MESSER; R. E. WARREN; N. ANDREWS

    1999-01-01

    Streptococcus pneumoniae grows well and generally exhibits typical morphology on Columbia blood agar, whereas Haemophilus influenzae requires a more complex medium to meet its growth requirements - usually chocolated blood agar - on which S. pneumoniae is less easily recognisable. Therefore, a single medium that produces typical morphology of S. pneumoniae and facilitates the growth of H. influenzae would have

  15. Chronopotentiometric method for the assessment of ionophore diffusion coefficients in solvent polymeric membranes

    Microsoft Academic Search

    Sándor Bodor; Justin M. Zook; Ern? Lindner; Klára Tóth; Róbert E. Gyurcsányi

    2009-01-01

    A chronopotentiometric method is proposed for the determination of the diffusion coefficients of free ionophores in solvent\\u000a polymeric membranes. For the pH sensitive chromoionophore ETH 5294, the method was shown to give diffusion coefficients that\\u000a correlate well with those assessed by both optical and chronoamperometric methods. The limit of applicability of the chronoamperometric\\u000a and chronopotentiometric methods in terms of membrane

  16. The Local Discontinuous Galerkin Method for Time-Dependent Convection-Diffusion Systems

    Microsoft Academic Search

    Bernardo Cockburn; Chi-Wang Shu

    1998-01-01

    this paper, we study the Local Discontinuous Galerkin methods fornonlinear, time-dependent convection-diffusion systems. These methods are an extensionof the Runge-Kutta Discontinuous Galerkin methods for purely hyperbolicsystems to convection-diffusion systems and share with those methods their highparallelizability, their high-order formal accuracy, and their easy handling of complicatedgeometries, for convection dominated problems. It is proven that for scalarequations, the Local...

  17. A Multiresolution Method for Parameter Estimation of Diffusion Processes

    PubMed Central

    Kou, S. C.; Olding, Benjamin P.; Lysy, Martin; Liu, Jun S.

    2014-01-01

    Diffusion process models are widely used in science, engineering and finance. Most diffusion processes are described by stochastic differential equations in continuous time. In practice, however, data is typically only observed at discrete time points. Except for a few very special cases, no analytic form exists for the likelihood of such discretely observed data. For this reason, parametric inference is often achieved by using discrete-time approximations, with accuracy controlled through the introduction of missing data. We present a new multiresolution Bayesian framework to address the inference difficulty. The methodology relies on the use of multiple approximations and extrapolation, and is significantly faster and more accurate than known strategies based on Gibbs sampling. We apply the multiresolution approach to three data-driven inference problems – one in biophysics and two in finance – one of which features a multivariate diffusion model with an entirely unobserved component. PMID:25328259

  18. Evaluation of Agar-Based Medium with Sheep Sera for Testing of Drug Susceptibility of Mycobacterium tuberculosis to Isoniazid, Rifampin, Ethambutol, and Streptomycin

    PubMed Central

    Uzun, Meltem; Bozdogan, Bulent

    2013-01-01

    The performance of sheep sera instead of sheep blood in agar-based media was investigated for susceptibility testing of Mycobacterium tuberculosis against primary drugs. The levels of agreement between agar-based medium supplemented with sheep sera and the proportion method on Middlebrook 7H11 agar as the reference method for determining susceptibility to isoniazid (INH), rifampin (RIF), ethambutol (EMB), and streptomycin (STR) were 98.4, 98.4, 95.3, and 100%, respectively. PMID:24131699

  19. Multilevel methods for transport equations in diffusive regimes

    NASA Technical Reports Server (NTRS)

    Manteuffel, Thomas A.; Ressel, Klaus

    1993-01-01

    We consider the numerical solution of the single-group, steady state, isotropic transport equation. An analysis by means of the moment equations shows that a discrete ordinate S(sub N) discretization in direction (angle) with a least squares finite element discretization in space does not behave properly in the diffusion limit. A scaling of the S(sub N) equations is introduced so that the least squares discretization has the correct diffusion limit. For the resulting discrete system a full multigrid algorithm was developed.

  20. Diffusion

    NSDL National Science Digital Library

    Since the advent of the internet, a number of artists and related organizations have become interested in utilizing the web to promulgate new forms of artistic creation and their subsequent dissemination. Supported by the Arts Council of England, these Diffusion eBooks are essentially pdf files that readers can download, print out and make into booklets. As the site suggests, "the Diffusion format challenges conventions of interactivity-blending the physical and the virtual and breaking the dominance of mouse and screen as the primary forms of human computer interaction...the format's aim is to take the reader away from the screen and computer and engage them in the process of production." There are a number of creative booklets available here for visitors, complete with instruction on how to assemble them for the desired effect. For anyone with even a remote interest in the possibilities afforded by this rather curious new form of expression, this website is worth a look.

  1. Navier-Stokes, Gross-Pitaevskii and Generalized Diffusion Equations using Stochastic Variational Method

    E-print Network

    T. Koide; T. Kodama

    2011-08-24

    The stochastic variational method is applied to particle systems and continuum mediums. As the brief review of this method, we first discuss the application to particle Lagrangians and derive a diffusion-type equation and the Schr\\"{o}dinger equation with the minimum gauge coupling. We further extend the application of the stochastic variational method to Lagrangians of continuum mediums and show that the Navier-Stokes, Gross-Pitaevskii and generalized diffusion equations are derived. The correction term for the Navier-Stokes equation is also obtained in this method. We discuss the meaning of this correction by comparing with the diffusion equation.

  2. Atomic diffusion theory challenging the Cahn-Hilliard method

    NASA Astrophysics Data System (ADS)

    Nastar, M.

    2014-10-01

    Our development of the self-consistent mean-field (SCMF) kinetic theory for nonuniform alloys leads to the statement that kinetic correlations induced by the vacancy diffusion mechanism have a dramatic effect on nanoscale diffusion phenomena, leading to nonlinear features of the interdiffusion coefficients. Lattice rate equations of alloys including nonuniform gradients of chemical potential are derived within the Bragg-Williams statistical approximation and the third shell kinetic approximation of the SCMF theory. General driving forces including deviations of the free energy from a local equilibrium thermodynamic formulation are introduced. These deviations are related to the variation of vacancy motion due to the spatial variation of the alloy composition. During the characteristic time of atomic diffusion, multiple exchanges of the vacancy with the same atoms may happen, inducing atomic kinetic correlations that depend as well on the spatial variation of the alloy composition. As long as the diffusion driving forces are uniform, the rate equations are shown to obey in this form the Onsager formalism of thermodynamics of irreversible processes (TIP) and the TIP-based Cahn-Hilliard diffusion equation. If now the chemical potential gradients are not uniform, the continuous limit of the present SCMF kinetic equations does not coincide with the Cahn-Hilliard (CH) equation. In particular, the composition gradient and higher derivative terms depending on kinetic parameters add to the CH thermodynamic-based composition gradient term. Indeed, a diffusion equation written as a mobility multiplied by a thermodynamic formulation of the driving forces is shown to be inadequate. In the reciprocal space, the thermodynamic driving force has to be multiplied by a nonlinear function of the wave vector accounting for the variation of kinetic correlations with composition inhomogeneities. Analytical expressions of the effective interdiffusion coefficient are given for two limit behaviors of the vacancy, the latter treated as either a conservative species (fixed concentration) or a nonconservative species (time-dependent equilibrium concentration). Relying on the same vacancy diffusion model, we perform kinetic Monte Carlo simulations starting from a sinusoidal composition modulation in binary model alloys, with no interaction or nearest-neighbor interactions leading to clustering or ordering tendencies, along the [100] crystallographic direction of a body centered cubic (bcc) lattice. The resulting temporal variation of the modulation amplitude is compared to the corresponding SCMF equations. Qualitative and satisfying quantitative agreements systematically strengthen our theoretical conclusions. The model alloys are shown to be representative enough of some real alloys, so that one may expect these new heterogeneous correlation effects to be non-negligible in these alloys.

  3. AgarTrap-mediated genetic transformation using intact gemmae/gemmalings of the liverwort Marchantia polymorpha L.

    PubMed

    Tsuboyama-Tanaka, Shoko; Kodama, Yutaka

    2015-03-01

    The dioecious liverwort, Marchantia polymorpha L., is an emerging model plant. Various molecular biological techniques have been optimized for M. polymorpha for the past several years, and recently we reported a simplified Agrobacterium-mediated transformation method using sporelings (immature thalli from spores) of M. polymorpha. This method, termed AgarTrap (Agar-utilized Transformation with Pouring Solutions), completed by exchanging appropriate solutions on a single Petri dish to produce a sufficient number of independent transgenic sporelings. However, because spores are produced by crosses between males and females, the genetic backgrounds of resulting transgenic sporelings are not uniform. To easily produce transgenic liverworts with a uniform genetic background using AgarTrap, we developed an AgarTrap-mediated transformation method using intact gemmae/gemmalings produced by asexual reproduction. Using AgarTrap with male and female gemmae/gemmalings produced a sufficient number of independent transgenic gemmalings with uniform genetic backgrounds. The optimized transformation efficiencies were approximately 30 and 50 % in males and females, respectively. As with AgarTrap using sporelings, AgarTrap using intact gemmae/gemmalings will be useful in promoting studies of the molecular biology of M. polymorpha. PMID:25663453

  4. Characterization of bionanocomposite films prepared with agar and paper-mulberry pulp nanocellulose.

    PubMed

    Reddy, Jeevan Prasad; Rhim, Jong-Whan

    2014-09-22

    Crystallized nanocellulose (CNC) was separated from paper-mulberry (Broussonetia kazinoki Siebold) bast pulp by sulfuric acid hydrolysis method and they were blended with agar to prepare bionanocomposite films. The effect of CNC content (1, 3, 5 and 10 wt% based on agar) on the mechanical, water vapor permeability (WVP), and thermal properties of the nanocomposites were studied. Changes of the cellulose fibers in structure, morphology, crystallinity, and thermal properties of the films were evaluated using FT-IR, TEM, SEM, XRD, and TGA analysis methods. The CNC was composed of fibrous and spherical or elliptic granules of nano-cellulose with sizes of 50-60 nm. Properties of agar film such as mechanical and water vapor barrier properties were improved significantly (p<0.05) by blending with the CNC. The tensile modulus and tensile strength of agar film increased by 40% and 25%, respectively, in the composite film with 5 wt% of CNC, and the WVP of agar film decreased by 25% after formation of nanocomposite with 3 wt% of CNC. The CNC obtained from the paper-mulberry bast pulp can be used as a reinforcing agent for the preparation of bio-nanocomposites, and they have a high potential for the development of completely biodegradable food packaging materials. PMID:24906782

  5. Production of microbial medium from defatted brebra (Milletia ferruginea) seed flour to substitute commercial peptone agar

    PubMed Central

    Andualem, Berhanu; Gessesse, Amare

    2013-01-01

    Objective To investigate and optimize microbial media that substitute peptone agar using brebra seed defatted flour. Methods 'Defatted process, inoculums preparation, evaluation of bacterial growth, preparation of cooked and hydrolyzed media and growth turbidity of tested bacteria were determined. Results Two percent defatted flour was found to be suitable concentration for the growth of pathogenic bacteria: Escherichia coli (ATCC 25922) (E. coli), Pseudomonas aeruginosa (ATCC 27853), Salmonella (NCTC 8385) and Shigella flexneri (ATCC 12022) (S. flexneri), while 3% defatted flour was suitable for Staphylococcus aureus (ATCC 25923) (S. aureus). E. coli (93±1) and S. flexneri (524±1) colony count were significantly (P?0.05) greater in defatted flour without supplement than in supplemented medium. E. coli [(3.72×109±2) CFU/mL], S. aureus [(7.4×109±2) CFU/mL], S. flexneri [(4.03×109±2) CFU/mL] and Salmonella [(2.37×109±1) CFU/mL] in non-hydrolyzed sample were statistically (P?0.05) greater than hydrolyzed one and commercial peptone agar. Colony count of Salmonella [(4.55×109±3) CFU/mL], S. flexneri [(5.40×109±3) CFU/mL] and Lyesria moncytogenes (ATCC 19116) [(5.4×109±3) CFU/mL] on raw defatted flour agar was significantly (P?0.05) greater than cooked defatted flour and commercial peptone agar. Biomass of E. coli, S. aureus, Salmonella and Enterococcus faecalis in non-hydrolyzed defatted flour is highly increased over hydrolyzed defatted flour and commercial peptone broth. Conclusions The defatted flour agar was found to be better microbial media or comparable with peptone agar. The substances in it can serve as sources of carbon, nitrogen, vitamins and minerals that are essential to support the growth of microorganisms without any supplements. Currently, all supplements of peptone agar are very expensive in the market. PMID:24075344

  6. A fully implicit method for 3D quasi-steady state magnetic advection-diffusion.

    SciTech Connect

    Siefert, Christopher; Robinson, Allen Conrad

    2009-09-01

    We describe the implementation of a prototype fully implicit method for solving three-dimensional quasi-steady state magnetic advection-diffusion problems. This method allows us to solve the magnetic advection diffusion equations in an Eulerian frame with a fixed, user-prescribed velocity field. We have verified the correctness of method and implementation on two standard verification problems, the Solberg-White magnetic shear problem and the Perry-Jones-White rotating cylinder problem.

  7. Diffusion NMR methods applied to xenon gas for materials study

    NASA Technical Reports Server (NTRS)

    Mair, R. W.; Rosen, M. S.; Wang, R.; Cory, D. G.; Walsworth, R. L.

    2002-01-01

    We report initial NMR studies of (i) xenon gas diffusion in model heterogeneous porous media and (ii) continuous flow laser-polarized xenon gas. Both areas utilize the pulsed gradient spin-echo (PGSE) techniques in the gas phase, with the aim of obtaining more sophisticated information than just translational self-diffusion coefficients--a brief overview of this area is provided in the Introduction. The heterogeneous or multiple-length scale model porous media consisted of random packs of mixed glass beads of two different sizes. We focus on observing the approach of the time-dependent gas diffusion coefficient, D(t) (an indicator of mean squared displacement), to the long-time asymptote, with the aim of understanding the long-length scale structural information that may be derived from a heterogeneous porous system. We find that D(t) of imbibed xenon gas at short diffusion times is similar for the mixed bead pack and a pack of the smaller sized beads alone, hence reflecting the pore surface area to volume ratio of the smaller bead sample. The approach of D(t) to the long-time limit follows that of a pack of the larger sized beads alone, although the limiting D(t) for the mixed bead pack is lower, reflecting the lower porosity of the sample compared to that of a pack of mono-sized glass beads. The Pade approximation is used to interpolate D(t) data between the short- and long-time limits. Initial studies of continuous flow laser-polarized xenon gas demonstrate velocity-sensitive imaging of much higher flows than can generally be obtained with liquids (20-200 mm s-1). Gas velocity imaging is, however, found to be limited to a resolution of about 1 mm s-1 owing to the high diffusivity of gases compared with liquids. We also present the first gas-phase NMR scattering, or diffusive-diffraction, data, namely flow-enhanced structural features in the echo attenuation data from laser-polarized xenon flowing through a 2 mm glass bead pack. c2002 John Wiley & Sons, Ltd.

  8. On the Choice of Parameters in Stabilization Methods for ConvectionDiffusion Equations

    E-print Network

    John, Volker

    ­diffusion equations is the streamline upwind/Petrov­Galerkin(SUPG) method. Unfortunately, in the convection­dominated regime, the SUPG solution often con- tains spurious oscillations along sharp layers. A possible remedy is to introduce an additional artificial diffusion term in the SUPG discretization. We call such ap- proaches

  9. A Stabilized Finite Element Method for AdvectionDiffusion Equations on Surfaces

    E-print Network

    method, transport equations, advection­diffusion equation, SUPG stabilization AMS Subject Classifications is sufficiently fine. The paper introduces a stabilized finite element formulation based on the SUPG technique, advection-diffusion equation, SUPG stabilization AMS subject classifications. 58J32, 65N12, 65N30, 76D45, 76

  10. ANALYSIS OF A FINITE VOLUME METHOD FOR A CROSS-DIFFUSION MODEL IN POPULATION DYNAMICS

    E-print Network

    Paris-Sud XI, Université de

    of interest for various applications, namely the discrete Sobolev embedding inequali- ties with general a convergent finite volume method for a reaction-diffusion system with cross-diffusion. First, we sketch and presentation of the problem. The interaction between species has been widely studied with reaction

  11. A Review of Diffusion Tensor Magnetic Resonance Imaging Computational Methods and Software Tools

    PubMed Central

    Hasan, Khader M.; Walimuni, Indika S.; Abid, Humaira; Hahn, Klaus R.

    2010-01-01

    In this work we provide an up-to-date short review of computational magnetic resonance imaging (MRI) and software tools that are widely used to process and analyze diffusion-weighted MRI data. A review of different methods used to acquire, model and analyze diffusion-weighted imaging data (DWI) is first provided with focus on diffusion tensor imaging (DTI). The major preprocessing, processing and post-processing procedures applied to DTI data are discussed. A list of freely available software packages to analyze diffusion MRI data is also provided. PMID:21087766

  12. 21 CFR 866.4600 - Ouchterlony agar plate.

    Code of Federal Regulations, 2013 CFR

    2013-04-01

    ...AND DRUG ADMINISTRATION, DEPARTMENT OF HEALTH AND HUMAN SERVICES (CONTINUED) MEDICAL DEVICES IMMUNOLOGY AND MICROBIOLOGY DEVICES Immunology Laboratory Equipment and Reagents § 866.4600 Ouchterlony agar plate. (a)...

  13. Gaseous contaminant dosimeter with diffusion device therefor and method

    SciTech Connect

    Kring, E.V.

    1980-06-17

    A personal dosimeter for measuring the average concentration of a gaseous contaminant over a given period of time is provided. The dosimeter comprises a sealed pouch having a reaction chamber, which contains a gas-collecting medium, and at least one compartment. Each compartment can be separately sealed and can contain a different reagent, the seals being individually breakable such that the reagents can be separately released into the reaction chamber. Into the pouch is sealed a gas diffusion device which consists of a formation of parallel, potted, hollow fibers or filaments. The diffusion device is oriented such that one end of the fibers is open to the atmosphere and the other end communicates with the interior of the reaction chamber.

  14. A Local Incident Flux Response Expansion Transport Method for Coupling to the Diffusion Method in Cylindrical Geometry

    SciTech Connect

    Dingkang Zhang; Farzad Rahnema; Abderrafi M. Ougouag

    2013-09-01

    A local incident flux response expansion transport method is developed to generate transport solutions for coupling to diffusion theory codes regardless of their solution method (e.g., fine mesh, nodal, response based, finite element, etc.) for reactor core calculations in both two-dimensional (2-D) and three-dimensional (3-D) cylindrical geometries. In this approach, a Monte Carlo method is first used to precompute the local transport solution (i.e., response function library) for each unique transport coarse node, in which diffusion theory is not valid due to strong transport effects. The response function library is then used to iteratively determine the albedo coefficients on the diffusion-transport interfaces, which are then used as the coupling parameters within the diffusion code. This interface coupling technique allows a seamless integration of the transport and diffusion methods. The new method retains the detailed heterogeneity of the transport nodes and naturally constructs any local solution within them by a simple superposition of local responses to all incoming fluxes from the contiguous coarse nodes. A new technique is also developed for coupling to fine-mesh diffusion methods/codes. The local transport method/module is tested in 2-D and 3-D pebble-bed reactor benchmark problems consisting of an inner reflector, an annular fuel region, and a controlled outer reflector. It is found that the results predicted by the transport module agree very well with the reference fluxes calculated directly by MCNP in both benchmark problems.

  15. Role of the solvent-diffusion-rate modifier in a new emulsion solvent diffusion method for preparation of ketoprofen microspheres.

    PubMed

    Kawashima, Y; Iwamoto, T; Niwa, T; Takeuchi, H; Hino, T

    1993-01-01

    A new emulsion solvent diffusion method to prepare the microspheres of ketoprofen with an acrylic polymer was developed by utilizing sugar esters as solvent diffusion modifiers. The microspheres were produced via transient o/w emulsion droplets of the polymer, which was formed by the interaction of drug and water-miscible organic solvent, e.g. ethanol. The solvent consisting in oil droplets diffused into the outer aqueous medium. In the droplets, ethanol interacted with ketoprofen via hydrogen bonding between -OH group of ethanol and both -COOH and = CO groups of ketoprofen. These hydrogen bonds made ethanol solution strongly hydrophobic. The sugar ester added in the ethanol could inhibit such intermolecular interaction between ethanol and the = CO group of ketoprofen. Modulation in the binding force of ketoprofen-ethanol by the sugar ester contributed to achieving a desirable initial ethanol diffusion rate from the oil droplets for the formation of ketoprofen microspheres with high yield (> 85 per cent) and drug entrapment ratio (> 90 per cent). PMID:8377091

  16. Diffusion zone formation in aluminized MAR-247 from Bi-velocity Phase Field Method

    NASA Astrophysics Data System (ADS)

    Wierzba, Bartek; Tkacz-?miech, Katarzyna

    2013-03-01

    The Bi-velocity Phase Field Method (BPFM), which allows a quantitative description of diffusion mass transport in multi-phase materials, is presented and applied to simulate formation of a diffusion zone in aluminized MAR-247. The method links the bi-velocity Darken approach with the phase-field model in which the diffusion zone is quantitatively characterized by phase volume fractions. Accordingly, composition dependent diffusivities in a two-phase region are defined. The present method allows calculation of element-distribution profiles and volume fractions of the phases across a diffusion couple. Hence, a diffusion path can be determined for three component systems and, besides, the average stress field and entropy production during diffusion can be calculated. An example of the application of BPFM in the modeling of high-temperature reactive diffusion in an AlCrNi ternary system is presented. The simulated results are compared with experimental data obtained in aluminization of MAR-247 by the chemical vapor deposition process.

  17. Efficacy of capsicum oleoresin nanocapsules formulation by the modified emulsion-diffusion method.

    PubMed

    Surassmo, Suvimol; Min, Sang-Gi; Bejrapha, Piyawan; Choi, Mi-Jung

    2011-01-01

    In this study, we investigated the effect of high pressure homogenizer on the physico-chemical properties of capsicum oleoresin loaded nanoemulsion (NE) or nanocapsules (NCs) based on the emulsion-diffusion method. According to the application stage of high pressure process at principle emulsion-diffusion method, NCs was prepared by conventional-emulsion-diffusion method (CED), modified-emulsion-microfluidization-diffusion method (MEMD) and modified-emulsion-diffusion-microfluidization method (MEDM). The nanocapsules of MEMD showed homogeneous and the smallest particle size as compared with CED. In addition, MEMD presented the surface tension at the value 36.5 mN/m. The encapsulated capsicum oleoresin was generated the bright color and suppressed the dark red color. Furthermore, MEMD gave the high encapsulation efficiency of capsicum oleoresin around 95% and showed the slow release rate. On the other hand, MEDM presented the non-homogeneous and agglomerate of the particle, low percentage of encapsulation efficiency and the high initial release rate when compared with CED and MEMD methods. According these results, it was supposed that the microfluidization was interesting technique to ameliorate the physical properties and efficiency of NCs. However, it was depending on the appropriate combination of microfluidization based on the emulsion-diffusion method. PMID:21446515

  18. A comparison of the point kinetics equations with the QUANDRY analytic nodal diffusion method

    E-print Network

    Velasquez, Arthur

    1993-01-01

    The point kinetics equations were incorporated into QUANDRY, a nuclear reactor analysis computer program which uses the analytic nodal method to solve the neutron diffusion equation. Both the point kinetics equations, solved using the IMSL MATH...

  19. Investigation into the properties and application of the Diffusion Monte Carlo method

    E-print Network

    Orieka, Ogheneovie (Ogheneovie O.)

    2014-01-01

    This paper shall be a discussion of the properties of the Diffusion Monte Carlo (DMC) method and its applications. The discussion shall cover the basic theory behind the algorithm and the class of problems it is designed ...

  20. Homotopy analysis method for solving linear and nonlinear fractional diffusion-wave equation

    NASA Astrophysics Data System (ADS)

    Jafari, H.; Seifi, S.

    2009-05-01

    In this paper, we adopt the homotopy analysis method (HAM) to obtain solutions of linear and nonlinear fractional diffusion and wave equation. The fractional derivative is described in the Caputo sense. Some illustrative examples are presented.

  1. Homotopy analysis method for solving linear and nonlinear fractional diffusion-wave equation

    Microsoft Academic Search

    H. Jafari; S. Seifi

    2009-01-01

    In this paper, we adopt the homotopy analysis method (HAM) to obtain solutions of linear and nonlinear fractional diffusion and wave equation. The fractional derivative is described in the Caputo sense. Some illustrative examples are presented.

  2. Multilaboratory comparison of anaerobe susceptibility results using 3 different agar media.

    PubMed

    Roe, D E; Finegold, S M; Citron, D M; Goldstein, E J C; Wexler, H M; Rosenblatt, J E; Cox, M E; Jenkins, S G; Hecht, D W

    2002-09-01

    A 5-laboratory study was performed that used the National Committee for Clinical Laboratory Standards (NCCLS) reference agar dilution method with 3 media formulations to determine whether the use of different media would affect minimum inhibitory concentration (MIC) results. Wilkins-Chalgren, Brucella-based blood agar (BRU), and Wilkins-Chalgren agar plus blood (WCB) and 6 antibiotics (clindamycin, cefoxitin, ceftizoxime, piperacillin, metronidazole, and trovafloxacin) were evaluated with 58 isolates. The MIC values were compared, and a significant correlation of >0.80 was demonstrated for all media and each antibiotic/organism group. The cumulative rate of errors for all antibiotics was 0.1%. These data indicate that a change in the NCCLS reference medium for testing of anaerobic bacteria susceptibility to either BRU or WCB will not affect the MIC results for the antibiotics and organisms evaluated. PMID:12173107

  3. Characteristic Tailored Finite Point Method for Convection-Dominated Convection-Diffusion-Reaction Problems

    Microsoft Academic Search

    Yintzer Shih; R. Bruce Kellogg; Yoyo Chang

    2011-01-01

    In this paper, we propose a characteristic tailored finite point method (CTFPM) for solving the convection-diffusion-reaction\\u000a equation with variable coefficients. We develop an algorithm to construct a streamline-aligned grid for the CTFPM. Our numerical\\u000a tests show for small diffusion coefficient the CTFPM solution resolves the internal and boundary layers regardless the mesh\\u000a size, and depicts that CTFPM method with a

  4. Fabrication and characterization of oxygen - diffused titanium using spectroscopy method.

    PubMed

    Lubas, M; Sitarz, M; Jasinski, J J; Jelen, P; Klita, L; Podsiad, P; Jasinski, J

    2014-12-10

    A thin native oxide film that forms on the titanium surface makes contact with the bone tissue has been considered to be of great importance to successful osseointegration. The study investigated oxygen-diffused grade 2 titanium obtained by introducing oxygen into the titanium crystal lattice using thermal treatment in fluidized bed performed at 610°C and 640°C in 6, 8, 12h. The thermal treatment at different temperatures and different times led to the formation of a TiO2 rutile film on the titanium surface and a concentration gradient of oxygen into titanium (XRD/GID analyses and GDOS results). Moreover Raman spectroscopy results showed that the TiO2 film on the surface titanium was composed of two oxides (TiO2), i.e. anatase and rutile, for the analyzed variants of heat treatment. The aim of the present study was to establish the optimum conditions for obtaining oxygen-diffused TiO2 film. The results obtained in the study demonstrated that the use of a fluidized bed for titanium oxidation processes allows for obtaining uniform oxide layers with good adhesion to the substrate, thus improving the titanium surface to suit biomedical applications. PMID:25008161

  5. Evaluation of the direct and diffusion methods for the determination of fluoride content in table salt

    PubMed Central

    Martínez-Mier, E. Angeles; Soto-Rojas, Armando E.; Buckley, Christine M.; Margineda, Jorge; Zero, Domenick T.

    2010-01-01

    Objective The aim of this study was to assess methods currently used for analyzing fluoridated salt in order to identify the most useful method for this type of analysis. Basic research design Seventy-five fluoridated salt samples were obtained. Samples were analyzed for fluoride content, with and without pretreatment, using direct and diffusion methods. Element analysis was also conducted in selected samples. Fluoride was added to ultra pure NaCl and non-fluoridated commercial salt samples and Ca and Mg were added to fluoride samples in order to assess fluoride recoveries using modifications to the methods. Results Larger amounts of fluoride were found and recovered using diffusion than direct methods (96%–100% for diffusion vs. 67%–90% for direct). Statistically significant differences were obtained between direct and diffusion methods using different ion strength adjusters. Pretreatment methods reduced the amount of recovered fluoride. Determination of fluoride content was influenced both by the presence of NaCl and other ions in the salt. Conclusion Direct and diffusion techniques for analysis of fluoridated salt are suitable methods for fluoride analysis. The choice of method should depend on the purpose of the analysis. PMID:20088217

  6. Root Development and Aerenchyma Formation in Two Wheat Cultivars and One Triticale Cultivar Grown in Stagnant Agar and Aerated Nutrient Solution

    Microsoft Academic Search

    ELIZABETH L. J. WATKIN; CAMPBELL J THOMSON; HANK GREENWAY

    1998-01-01

    Stagnant nutrient solution containing 0.1% agar and with an extremely low oxygen level (‘stagnant agar solution’) was used to simulate the gaseous composition and slow gas diffusion of waterlogged soils. Comparisons were made between the growth of two wheat cultivars(Triticum aestivum,cvs. Gamenya and Kite) and one triticale cultivar(Triticosecale,cv. Muir) grown in stagnant relative to aerated solution. For all genotypes tested,

  7. Determination of thermal diffusivity of opaque materials using the photothermal mirror method

    NASA Astrophysics Data System (ADS)

    Marcano, Aristides; Gwanmesia, Gabriel; King, Mark; Caballero, Daniel

    2014-12-01

    A pump-probe photothermal mirror (PTM) method has been developed to determine the thermal diffusivity of opaque solid samples. The method involves the detection of the distortion of a probe beam whose reflection profile is affected by the photoelastic deformation of a polished material surface induced by the absorption of a focused pump field. We have measured the time dependence of the PTM signal of Ti, Al, Cu, Sn, Ag, and Ni samples. We show theoretically and experimentally that the time derivative of the signal in the first microseconds is proportional to the square root of the thermal diffusivity coefficient. The method affords a simple calibration and efficient interpretation of experimental data for a sensitive determination of the thermal diffusivity coefficient for materials. We demonstrate the applicability of the technique by measuring the thermal diffusivities of wadsleyite (?-Mg2SiO4) and diopside (MgCaSi2O6), two important minerals relevant to geophysical studies.

  8. Development of hyperspectral imaging technique for salmonella enteritidis and typhimurium on agar plates

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Salmonella is a common cause of foodborne disease resulting from the consumption of contaminated food products. Although a direct plating method is widely used for presumptive positive screening of pathogenic Salmonella colonies on agar plates, it is labor-intensive, time-consuming and also prone to...

  9. Eigenfunction methods in magnetospheric radial-diffusion theory

    NASA Technical Reports Server (NTRS)

    Schulz, Michael

    1986-01-01

    Complete sets of orthonormal basis functions constructed according to a generalization of the quantum-mechanical WKB approximation can be used to generate a nearly-diagonal matrix representation of the radial-transport operator for ring-current ions in the presence of radial diffusion and charge exchange. The resulting eigenfunctions (constructed by weighting the basis functions in proportion to the respective components of the eigenvectors of the matrix representation) and eigenvalues provide a spatial and temporal description of the evolving phase-space density during and following a magnetospheric disturbance (e.g., a magnetic storm). A linear superposition of the basis functions can also be used to eliminate any discrepancy between the steady-state solution of the transport equation and the appropriate WKB approximation of this steady-state solution.

  10. A MINIMUM-RESIDUAL FINITE ELEMENT METHOD FOR THE CONVECTION-DIFFUSION EQUATION

    E-print Network

    Evans, John A.

    -Galerkin (SUPG) method [4]. The method can be in- terpreted as adding a sufficient amount of artificial viscosity-diffusion" norm [5]. SUPG is also an example of a residual-based stabilization, where the stabilization mechanism) functions are allowed to differ. Specifically, the SUPG method can be interpreted as a modification

  11. Approximate analytical solutions of reaction–diffusion equations with exponential source term: Homotopy perturbation method (HPM)

    Microsoft Academic Search

    S. O. Ajadi; M. Zuilino

    2011-01-01

    In this letter, the solutions of some nonlinear differential equations have been obtained by means of the homotopy perturbation method (HPM). Applications of the homotopy method to some nonlinear reaction–diffusion equations with exponential source term show rapid convergence of the sequence constructed by this method to the exact solutions.

  12. ANALYSIS OF A MULTISCALE DISCONTINUOUS GALERKIN METHOD FOR CONVECTION-DIFFUSION PROBLEMS

    E-print Network

    Buffa, Annalisa

    ANALYSIS OF A MULTISCALE DISCONTINUOUS GALERKIN METHOD FOR CONVECTION-DIFFUSION PROBLEMS A. BUFFA, T.J.R. HUGHES, AND G. SANGALLI Abstract. We study a multiscale discontinuous Galerkin method introduced in [16] that reduces the com- putational complexity of the discontinuous Galerkin method

  13. Evaluation of Bio-Rad MRSASelect Agar for Detection of Methicillin-Resistant Staphylococcus aureus Directly from Blood Cultures?

    PubMed Central

    Riedel, Stefan; Dam, Lisa; Stamper, Paul D.; Shah, Syed A. R.; Carroll, Karen C.

    2010-01-01

    MRSASelect agar (Bio-Rad, Redmond, WA) was evaluated for its performance in detecting MRSA directly from positive blood cultures containing Gram-positive cocci in clusters. Agar plates were evaluated for the presence of pink colonies at 18 to 24 h. Results were compared to organism identification by using standard laboratory methods. Confirming coagulase on pink isolates, the sensitivity and specificity were both 99%. PMID:20392926

  14. Diffusion-synthetic acceleration methods for the discrete-ordinates equations

    SciTech Connect

    Larsen, E.W.

    1983-01-01

    The diffusion-synthetic acceleration (DSA) method is an iterative procedure for obtaining numerical solutions of discrete-ordinates problems. The DSA method is operationally more complicated than the standard source-iteration (SI) method, but if encoded properly it converges much more rapidly, especially for problems with diffusion-like regions. In this article we describe the basic ideas beind the DSA method and give a (roughly chronological) review of its long development. We conclude with a discussion which covers additional topics, including some remaining open problems and the status of current efforts aimed at solving these problems.

  15. Method of applying a cerium diffusion coating to a metallic alloy

    DOEpatents

    Jablonski, Paul D. (Salem, OR); Alman, David E. (Benton, OR)

    2009-06-30

    A method of applying a cerium diffusion coating to a preferred nickel base alloy substrate has been discovered. A cerium oxide paste containing a halide activator is applied to the polished substrate and then dried. The workpiece is heated in a non-oxidizing atmosphere to diffuse cerium into the substrate. After cooling, any remaining cerium oxide is removed. The resulting cerium diffusion coating on the nickel base substrate demonstrates improved resistance to oxidation. Cerium coated alloys are particularly useful as components in a solid oxide fuel cell (SOFC).

  16. A new method of optimal design for a two-dimensional diffuser by using dynamic programming

    NASA Technical Reports Server (NTRS)

    Gu, Chuangang; Zhang, Moujin; Chen, XI; Miao, Yongmiao

    1991-01-01

    A new method for predicting the optimal velocity distribution on the wall of a two dimensional diffuser is presented. The method uses dynamic programming to solve the optimal control problem with inequality constraints of state variables. The physical model of optimization is designed to prevent the separation of the boundary layer while approaching the maximum pressure ratio in a diffuser of a specified length. The computational results are in fair agreement with the experimental ones. Optimal velocity distribution on a diffuser wall is said to occur when the flow decelerates quickly at first and then smoothly, while the flow is near separation, but always protected from it. The optimal velocity distribution can be used to design the contour of the diffuser.

  17. A hybrid transport-diffusion Monte Carlo method for frequency-dependent radiative-transfer simulations

    SciTech Connect

    Densmore, Jeffery D., E-mail: jdd@lanl.gov [Computational Physics and Methods Group, Los Alamos National Laboratory, P.O. Box 1663, MS D409, Los Alamos, NM 87545 (United States); Thompson, Kelly G., E-mail: kgt@lanl.gov [Computational Physics and Methods Group, Los Alamos National Laboratory, P.O. Box 1663, MS D409, Los Alamos, NM 87545 (United States); Urbatsch, Todd J., E-mail: tmonster@lanl.gov [Computational Physics and Methods Group, Los Alamos National Laboratory, P.O. Box 1663, MS D409, Los Alamos, NM 87545 (United States)

    2012-08-15

    Discrete Diffusion Monte Carlo (DDMC) is a technique for increasing the efficiency of Implicit Monte Carlo radiative-transfer simulations in optically thick media. In DDMC, particles take discrete steps between spatial cells according to a discretized diffusion equation. Each discrete step replaces many smaller Monte Carlo steps, thus improving the efficiency of the simulation. In this paper, we present an extension of DDMC for frequency-dependent radiative transfer. We base our new DDMC method on a frequency-integrated diffusion equation for frequencies below a specified threshold, as optical thickness is typically a decreasing function of frequency. Above this threshold we employ standard Monte Carlo, which results in a hybrid transport-diffusion scheme. With a set of frequency-dependent test problems, we confirm the accuracy and increased efficiency of our new DDMC method.

  18. First-Order Hyperbolic System Method for Time-Dependent Advection-Diffusion Problems

    NASA Technical Reports Server (NTRS)

    Mazaheri, Alireza; Nishikawa, Hiroaki

    2014-01-01

    A time-dependent extension of the first-order hyperbolic system method for advection-diffusion problems is introduced. Diffusive/viscous terms are written and discretized as a hyperbolic system, which recovers the original equation in the steady state. The resulting scheme offers advantages over traditional schemes: a dramatic simplification in the discretization, high-order accuracy in the solution gradients, and orders-of-magnitude convergence acceleration. The hyperbolic advection-diffusion system is discretized by the second-order upwind residual-distribution scheme in a unified manner, and the system of implicit-residual-equations is solved by Newton's method over every physical time step. The numerical results are presented for linear and nonlinear advection-diffusion problems, demonstrating solutions and gradients produced to the same order of accuracy, with rapid convergence over each physical time step, typically less than five Newton iterations.

  19. Antimicrobial potentials of Mentha longifolia by disc diffusion method.

    PubMed

    Bakht, Jehan; Shaheen, Salma; Shafi, Mohammad

    2014-07-01

    This study was conducted for the assessment of the antimicrobial activities of different solvents extracted samples from the aerial parts of Mentha longifolia against ten microbial species through the disc diffusion assay using two different concentrations of 1 and 2 mg disc1. All extracts from Mentha longifolia showed different ranges of antimicrobial activities. Butanol and ethyl acetate fractions showed inhibitory activities against all microbial species. Methanol fraction showed inhibitory effects against all the tested microbial species except Salmonella typhi. Salmonella typhi was also not controlled by methanol, petroleum ether and dichloromethane extracted samples. The most susceptible gram positive bacteria was Bacillus atropheus and Bacillus subtilis and were inhibited by all extracts and Staphylococus aureus was least susceptible among gram positive bacteria. Klebsiella pneumoniae was the most susceptible gram negative bacterium and Salmonella typhi was highly resistant among the gram negative bacteria. Erwinia carotovora and Agrobacterium tumefaciene were susceptible to all fractions. All fractions showed antifungal activities against Candida albicans except water extracted samples. PMID:25015464

  20. Comparison of ChromID Agar and Clostridium difficile Selective Agar for Effective Isolation of C. difficile from Stool Specimens

    PubMed Central

    Lee, Eun Joo

    2014-01-01

    Background ChromID Clostridium difficile agar (IDCd; bioMérieux SA, France) is a recently developed chromogenic medium for rapid and specific isolation of C. difficile. We compared the performance of IDCd with that of Clostridium difficile Selective Agar (CDSA). Methods A total of 530 fresh stool specimens were collected from patients with clinical signs compatible with C. difficile infection, and cultures for C. difficile were performed on IDCd and CDSA. C. difficile colonies were identified by spore staining, odor, use of an ANI identification test kit (bioMérieux SA), and multiplex PCR for tcdA, tcdB, and tpi. Results The concordance rate between IDCd and CDSA was 90.6% (480/530). The positivity rates on IDCd on days 1 and 2 (55.6% and 85.0%, respectively) were significantly higher than those on CDSA (19.4% and 75.6%, respectively) (P<0.001 for day 1 and P=0.02 for day 2), but the detection rates on IDCd and CDSA on day 3 were not different (89.4% vs. 82.8%, P=0.0914). On day 3, the recovery rates for non-C. difficile isolates on IDCd and CDSA were 30.2% (160/530) and 22.1% (117/530), respectively (P=0.0075). Clostridium spp. other than C. difficile were the most prevalent non-C. difficile isolates on both media. Conclusions The culture positivity rates on IDCd and CDSA were not different on day 3 but IDCd may allow for rapid and sensitive detection of C. difficile within 2 days of cultivation. PMID:24422190

  1. Diffusion in Homicide: Exploring a General Method for Detecting Spatial Diffusion Processes

    Microsoft Academic Search

    Jacqueline Cohen; George Tita

    1999-01-01

    This article proposes a new method for examining dynamic changes in thespatial distribution of a phenomenon. Recently introduced exploratoryspatial data analysis (ESDA) techniques provide social scientists with anew set of tools for distinguishing between random and nonrandom spatialpatterns of events (Anselin, 1998). Existing ESDA measures, however, arestatic and do not permit comparisons of distributions of events in the samespace but

  2. Method of fluxless brazing and diffusion bonding of aluminum containing components

    NASA Technical Reports Server (NTRS)

    Featherston, A. B.; Okelly, K. P. (inventors)

    1976-01-01

    A method of diffusion bonding and fluxless brazing of aluminum containing components is reported. The aluminum surfaces are freed of any aluminum oxide coating and are coated with a polymeric sealer which can be thermally removed leaving essentially no residue. The polymeric sealer is being removed in a substantially oxygen free environment, and the aluminum components are then being brazed or diffusion bonded without the use of a flux to remove oxide coating.

  3. Combined relaxation and displacement experiment: a fast method to acquire T 2, diffusion and velocity maps

    Microsoft Academic Search

    Bertram Manz

    2004-01-01

    A fast method for quantitative imaging of T2 and displacement (flow and diffusion) is presented. The pulse sequence combines multi-PGSE NMR with multi-echo acquisition and compensates for flow effects in the read gradient and diffusion during multi-echo trains. The impact of the gradient pulses in a multi-echo train on the signal phase and amplitude is discussed. It is shown that

  4. A Two-Fluid Method for Ambipolar Diffusion

    E-print Network

    David A. Tilley; Dinshaw S. Balsara

    2008-06-24

    We present a semi-implicit method for isothermal two-fluid ion-neutral ambipolar drift that is second-order accurate in space and time. The method has been implemented in the RIEMANN code for astrophysical fluid dynamics. We present four test problems that show the method works and correctly tracks the propagation of MHD waves and the structure of two-fluid C-shocks. The accurate propagation of MHD waves in the two-fluid approximation is shown to be a stringent test of the algorithm. We demonstrate that highly accurate methods are required in order to properly capture the MHD wave behaviour in the presence of ion-neutral friction.

  5. Advanced computational methods for nodal diffusion, Monte Carlo, and S(sub N) problems

    NASA Astrophysics Data System (ADS)

    Martin, W. R.

    1993-01-01

    This document describes progress on five efforts for improving effectiveness of computational methods for particle diffusion and transport problems in nuclear engineering: (1) Multigrid methods for obtaining rapidly converging solutions of nodal diffusion problems. An alternative line relaxation scheme is being implemented into a nodal diffusion code. Simplified P2 has been implemented into this code. (2) Local Exponential Transform method for variance reduction in Monte Carlo neutron transport calculations. This work yielded predictions for both 1-D and 2-D x-y geometry better than conventional Monte Carlo with splitting and Russian Roulette. (3) Asymptotic Diffusion Synthetic Acceleration methods for obtaining accurate, rapidly converging solutions of multidimensional SN problems. New transport differencing schemes have been obtained that allow solution by the conjugate gradient method, and the convergence of this approach is rapid. (4) Quasidiffusion (QD) methods for obtaining accurate, rapidly converging solutions of multidimensional SN Problems on irregular spatial grids. A symmetrized QD method has been developed in a form that results in a system of two self-adjoint equations that are readily discretized and efficiently solved. (5) Response history method for speeding up the Monte Carlo calculation of electron transport problems. This method was implemented into the MCNP Monte Carlo code. In addition, we have developed and implemented a parallel time-dependent Monte Carlo code on two massively parallel processors.

  6. Advanced computational methods for nodal diffusion, Monte Carlo, and S[sub N] problems

    SciTech Connect

    Martin, W.R.

    1993-01-01

    This document describes progress on five efforts for improving effectiveness of computational methods for particle diffusion and transport problems in nuclear engineering: (1) Multigrid methods for obtaining rapidly converging solutions of nodal diffusion problems. A alternative line relaxation scheme is being implemented into a nodal diffusion code. Simplified P2 has been implemented into this code. (2) Local Exponential Transform method for variance reduction in Monte Carlo neutron transport calculations. This work yielded predictions for both 1-D and 2-D x-y geometry better than conventional Monte Carlo with splitting and Russian Roulette. (3) Asymptotic Diffusion Synthetic Acceleration methods for obtaining accurate, rapidly converging solutions of multidimensional SN problems. New transport differencing schemes have been obtained that allow solution by the conjugate gradient method, and the convergence of this approach is rapid. (4) Quasidiffusion (QD) methods for obtaining accurate, rapidly converging solutions of multidimensional SN Problems on irregular spatial grids. A symmetrized QD method has been developed in a form that results in a system of two self-adjoint equations that are readily discretized and efficiently solved. (5) Response history method for speeding up the Monte Carlo calculation of electron transport problems. This method was implemented into the MCNP Monte Carlo code. In addition, we have developed and implemented a parallel time-dependent Monte Carlo code on two massively parallel processors.

  7. A Novel Chromogenic Ester Agar Medium for Detection of Salmonellae

    Microsoft Academic Search

    VENITIA M. COOKE; R. J. MILES; R. G. PRICE; A. C. RICHARDSON

    1999-01-01

    A novel agar medium, chromogenic Salmonella esterase (CSE) agar, for the differentiation of salmonellae is described. The agar contains peptones and nutrient extracts together with the following (grams per liter unless otherwise specified): 4-(2-(4-octanoyloxy-3,5-dimethoxyphenyl)-vinyl)-quinolinium-1-(propan-3-yl carboxylic acid) bromide (SLPA-octanoate; bromide form), 0.3223; lactose, 14.65; trisodium citrate dihydrate, 0.5; Tween 20, 3.0; ethyl 4-dimethylaminobenzoate, 0.035% (wt\\/vol), novobiocin, 70 mg liter 21 .

  8. Accelerated molecular dynamics and equation-free methods for simulating diffusion in solids.

    SciTech Connect

    Deng, Jie; Zimmerman, Jonathan A.; Thompson, Aidan Patrick; Brown, William Michael (Oak Ridge National Laboratories, Oak Ridge, TN); Plimpton, Steven James; Zhou, Xiao Wang; Wagner, Gregory John; Erickson, Lindsay Crowl

    2011-09-01

    Many of the most important and hardest-to-solve problems related to the synthesis, performance, and aging of materials involve diffusion through the material or along surfaces and interfaces. These diffusion processes are driven by motions at the atomic scale, but traditional atomistic simulation methods such as molecular dynamics are limited to very short timescales on the order of the atomic vibration period (less than a picosecond), while macroscale diffusion takes place over timescales many orders of magnitude larger. We have completed an LDRD project with the goal of developing and implementing new simulation tools to overcome this timescale problem. In particular, we have focused on two main classes of methods: accelerated molecular dynamics methods that seek to extend the timescale attainable in atomistic simulations, and so-called 'equation-free' methods that combine a fine scale atomistic description of a system with a slower, coarse scale description in order to project the system forward over long times.

  9. A method of online quantitative interpretation of diffuse reflection profiles of biological tissues

    NASA Astrophysics Data System (ADS)

    Lisenko, S. A.; Kugeiko, M. M.

    2013-02-01

    We have developed a method of combined interpretation of spectral and spatial characteristics of diffuse reflection of biological tissues, which makes it possible to determine biophysical parameters of the tissue with a high accuracy in real time under conditions of their general variability. Using the Monte Carlo method, we have modeled a statistical ensemble of profiles of diffuse reflection coefficients of skin, which corresponds to a wave variation of its biophysical parameters. On its basis, we have estimated the retrieval accuracy of biophysical parameters using the developed method and investigated the stability of the method to errors of optical measurements. We have showed that it is possible to determine online the concentrations of melanin, hemoglobin, bilirubin, oxygen saturation of blood, and structural parameters of skin from measurements of its diffuse reflection in the spectral range 450-800 nm at three distances between the radiation source and detector.

  10. A fractional step [theta]-method for convection-diffusion problems

    NASA Astrophysics Data System (ADS)

    Chrispell, J. C.; Ervin, V. J.; Jenkins, E. W.

    2007-09-01

    In this article, we analyze the fractional step [theta]-method for the time-dependent convection-diffusion equation. In our implementation, we completely separate the convection operator from the diffusion operator, and stabilize the convective problem using a Streamline Upwinded Petrov-Galerkin (SUPG) method. We establish a priori error estimates and show that the optimal value of [theta] yields a scheme that is second-order in time. Numerical computations are presented which demonstrate the method and support the theoretical results.

  11. A new method for cancer detection based on diffusion reflection measurements of targeted gold nanorods

    PubMed Central

    Ankri, Rinat; Peretz, Vital; Motiei, Menachem; Popovtzer, Rachela; Fixler, Dror

    2012-01-01

    This paper presents a new method for cancer detection based on diffusion reflection measurements. This method enables discrimination between cancerous and noncancerous tissues due to the intense light absorption of gold nanorods (GNRs), which are selectively targeted to squamous cell carcinoma head and neck cancer cells. Presented in this paper are tissue-like phantom and in vivo results that demonstrate the high sensitivity of diffusion reflection measurements to the absorption differences between the GNR-targeted cancerous tissue and normal, noncancerous tissue. This noninvasive and nonionizing optical detection method provides a highly sensitive, simple, and inexpensive tool for cancer detection. PMID:22334777

  12. A First-Passage Kinetic Monte Carlo method for reaction–drift–diffusion processes

    SciTech Connect

    Mauro, Ava J., E-mail: avamauro@bu.edu [Department of Mathematics and Statistics, Boston University, 111 Cummington Mall, Boston, MA 02215 (United States); Sigurdsson, Jon Karl; Shrake, Justin [Department of Mathematics, University of California, Santa Barbara (United States)] [Department of Mathematics, University of California, Santa Barbara (United States); Atzberger, Paul J., E-mail: atzberg@math.ucsb.edu [6712 South Hall, Department of Mathematics, University of California, Santa Barbara, CA 93106 (United States); Isaacson, Samuel A., E-mail: isaacson@math.bu.edu [Department of Mathematics and Statistics, Boston University, 111 Cummington Mall, Boston, MA 02215 (United States)

    2014-02-15

    Stochastic reaction–diffusion models are now a popular tool for studying physical systems in which both the explicit diffusion of molecules and noise in the chemical reaction process play important roles. The Smoluchowski diffusion-limited reaction model (SDLR) is one of several that have been used to study biological systems. Exact realizations of the underlying stochastic processes described by the SDLR model can be generated by the recently proposed First-Passage Kinetic Monte Carlo (FPKMC) method. This exactness relies on sampling analytical solutions to one and two-body diffusion equations in simplified protective domains. In this work we extend the FPKMC to allow for drift arising from fixed, background potentials. As the corresponding Fokker–Planck equations that describe the motion of each molecule can no longer be solved analytically, we develop a hybrid method that discretizes the protective domains. The discretization is chosen so that the drift–diffusion of each molecule within its protective domain is approximated by a continuous-time random walk on a lattice. New lattices are defined dynamically as the protective domains are updated, hence we will refer to our method as Dynamic Lattice FPKMC or DL-FPKMC. We focus primarily on the one-dimensional case in this manuscript, and demonstrate the numerical convergence and accuracy of our method in this case for both smooth and discontinuous potentials. We also present applications of our method, which illustrate the impact of drift on reaction kinetics.

  13. A First-Passage Kinetic Monte Carlo method for reaction-drift-diffusion processes

    NASA Astrophysics Data System (ADS)

    Mauro, Ava J.; Sigurdsson, Jon Karl; Shrake, Justin; Atzberger, Paul J.; Isaacson, Samuel A.

    2014-02-01

    Stochastic reaction-diffusion models are now a popular tool for studying physical systems in which both the explicit diffusion of molecules and noise in the chemical reaction process play important roles. The Smoluchowski diffusion-limited reaction model (SDLR) is one of several that have been used to study biological systems. Exact realizations of the underlying stochastic processes described by the SDLR model can be generated by the recently proposed First-Passage Kinetic Monte Carlo (FPKMC) method. This exactness relies on sampling analytical solutions to one and two-body diffusion equations in simplified protective domains. In this work we extend the FPKMC to allow for drift arising from fixed, background potentials. As the corresponding Fokker-Planck equations that describe the motion of each molecule can no longer be solved analytically, we develop a hybrid method that discretizes the protective domains. The discretization is chosen so that the drift-diffusion of each molecule within its protective domain is approximated by a continuous-time random walk on a lattice. New lattices are defined dynamically as the protective domains are updated, hence we will refer to our method as Dynamic Lattice FPKMC or DL-FPKMC. We focus primarily on the one-dimensional case in this manuscript, and demonstrate the numerical convergence and accuracy of our method in this case for both smooth and discontinuous potentials. We also present applications of our method, which illustrate the impact of drift on reaction kinetics.

  14. The Local Discontinuous Galerkin Method for Time-Dependent Convection-Diffusion Systems

    NASA Technical Reports Server (NTRS)

    Cockburn, Bernardo; Shu, Chi-Wang

    1997-01-01

    In this paper, we study the Local Discontinuous Galerkin methods for nonlinear, time-dependent convection-diffusion systems. These methods are an extension of the Runge-Kutta Discontinuous Galerkin methods for purely hyperbolic systems to convection-diffusion systems and share with those methods their high parallelizability, their high-order formal accuracy, and their easy handling of complicated geometries, for convection dominated problems. It is proven that for scalar equations, the Local Discontinuous Galerkin methods are L(sup 2)-stable in the nonlinear case. Moreover, in the linear case, it is shown that if polynomials of degree k are used, the methods are k-th order accurate for general triangulations; although this order of convergence is suboptimal, it is sharp for the LDG methods. Preliminary numerical examples displaying the performance of the method are shown.

  15. Method of hepatitis diagnostics of changes in human skin diffuse reflectivity

    Microsoft Academic Search

    M. L. Kirsh; A. M. Sokol; V. S. Lomanets; O. R. Gayka

    1999-01-01

    The results on the study of influence of bilirubinum concentration in a human blood on the spectrum of a diffuse reflectivity of his skin are represented. On this basis, the method for hepatitis diagnostics has been developed, and the laboratory device implementing this method has been designed. Bibtex entry for this abstract Preferred format for this abstract (see Preferences) Find

  16. Assessing Methods and Data for Pore-Size Distribution of PEMFC Gas-Diffusion Media

    Microsoft Academic Search

    Michael J. Marti?nez; Sirivatch Shimpalee; J. W. Van Zee; A. V. Sakars

    2009-01-01

    Data for hydrophilic and hydrophobic pore-size distributions are presented for two gas-diffusion media GDM commonly used in proton exchange membrane fuel cells PEMFCs. The data were obtained using two measurement methods, intrusion porosimetry and the method of standard porosimetry MSP. The use of multiple working fluids to access hydrophilic and hydrophobic pores is discussed as well as limitations associated with

  17. A comparative study of methods for computing the diffuse radiation viewfactors for complex structures

    NASA Technical Reports Server (NTRS)

    Emery, A. F.; Johansson, O.; Lobo, M.; Abrous, A.

    1988-01-01

    Several different numerical methods for calculating diffuse radiation viewfactors are described. Each is applied to a range of surface configurations, from almost completely unobstructed to a dense set of intersecting surfaces. The speed, accuracy and unique characteristics are discussed in order to define optimal methods for different surface geometries.

  18. Stability of the SUPG Finite Element Method for Transient Advection-Diffusion Problems

    E-print Network

    Bochev, Pavel

    Stability of the SUPG Finite Element Method for Transient Advection-Diffusion Problems Pavel B coupled with SUPG discretization in space leads to addi- tional terms that provide consistency and improve of the SUPG method. While consistent with a straightforward finite element stability analysis, this contention

  19. Method of hepatitis diagnostics of changes in human skin diffuse reflectivity

    NASA Astrophysics Data System (ADS)

    Kirsh, M. L.; Sokol, A. M.; Lomanets, V. S.; Gayka, O. R.

    1999-11-01

    The results on the study of influence of bilirubinum concentration in a human blood on the spectrum of a diffuse reflectivity of his skin are represented. On this basis, the method for hepatitis diagnostics has been developed, and the laboratory device implementing this method has been designed.

  20. A Method for Particle Size Amplification by Water Condensation in a Laminar, Thermally Diffusive Flow

    Microsoft Academic Search

    Susanne V. Hering; Mark R. Stolzenburg

    2005-01-01

    A new method is presented for the enlargement of particle size through condensation of water vapor in a laminar, thermally diffusive flow. The method involves the introduction of an air flow at temperature Ti into a wet-walled tube at a temperature Tw > Ti. This approach yields higher supersaturation values than either mixing or cold-walled condensers when operating between the

  1. Stability Analysis of ALE-Methods for Advection-Diffusion Problems A. Weddemann*

    E-print Network

    Bielefeld, Universität

    Stability Analysis of ALE-Methods for Advection-Diffusion Problems A. Weddemann* and V. Thümmler@physik.uni-bielefeld.de Abstract: ALE-methods are frequently used to solve systems of partial differential equations (PDEs implementation of the ALE-equations via a weak formulation with the predefined ALE-mode of COMSOL Multiphysics

  2. A discontinuous hp finite element method for convection—diffusion problems

    Microsoft Academic Search

    Carlos Erik Baumann; J. Tinsley Oden

    1999-01-01

    This paper presents a new method which exhibits the best features of both finite volume and finite element techniques. Special attention is given to the issues of conservation, flexible accuracy, and stability. The method is elementwise conservative, the order of polynomial approximation can be adjusted element by element, and the stability is not based on the introduction of artificial diffusion,

  3. Comparison of some finite element methods for solving the diffusion-convection-reaction equation

    Microsoft Academic Search

    Ramon Codina

    1998-01-01

    In this paper we describe several finite element methods for solving the diffusion-convection-reaction equation. None of them is new, although the presentation is non-standard in an effort to emphasize the similarities and differences between them. In particular, it is shown that the classical SUPG method is very similar to an explicit version of the Characteristic-Galerkin method, whereas the Taylor-Galerkin method

  4. The Diffusion of Evaluation Methods among Public Relations Practitioners.

    ERIC Educational Resources Information Center

    Dozier, David M.

    A study explored the relationships between public relations practitioners' organizational roles and the type of evaluation methods they used on the job. Based on factor analysis of role data obtained from an earlier study, four organizational roles were defined and ranked: communication manager, media relations specialist, communication liaison,…

  5. Method for site characterization of anisotropic diffuse illumination of photovoltaic systems

    NASA Astrophysics Data System (ADS)

    Russo, Juan M.; Zhang, Deming; Vorndran, Shelby; Gordon, Michael; Castillo, Jose; Brooks, Adria; Lonij, Vincent; Cronin, Alex; Kostuk, Raymond

    2012-10-01

    In this paper a method to characterize the anisotropy of diffuse illumination incident on photovoltaic systems is presented. PV systems are designed based on standard conditions in which only consider direct and isotropic diffuse illumination. Anisotropic illumination can cause the PV system output to step outside of the design specifications. A baffled multi-detector sensor system is described having a discrete set of azimuthal and declination angle combinations in order to constantly sample the irradiance and the incidence angle of the diffuse illumination in all zenith directions. The sensor was deployed in the Tucson Electric Power Solar Test Yard alongside with commercially available PV systems that are independently monitored. Constant and transient sources of anisotropic diffuse illumination, such as surface reflection and cloud edge effects respectively, are measured and modeled with ray tracing software. Results of the method are described for characterizing diffuse illumination at the TEP Solar Test Yard. Understanding the anisotropic diffuse illumination can potentially allow to more accurately predict PV system or to optimize energy harvesting of systems with non-standard mounting conditions as well as building integrated photovoltaic applications.

  6. Nanoscale simulation of shale transport properties using the lattice Boltzmann method: permeability and diffusivity

    E-print Network

    Chen, Li; Kang, Qinjun; Yao, Jun; Tao, Wenquan

    2014-01-01

    Porous structures of shales are reconstructed based on scanning electron microscopy (SEM) images of shale samples from Sichuan Basin, China. Characterization analyzes of the nanoscale reconstructed shales are performed, including porosity, pore size distribution, specific surface area and pore connectivity. The multiple-relaxation-time (MRT) lattice Boltzmann method (LBM) fluid flow model and single-relaxation-time (SRT) LBM diffusion model are adopted to simulate the fluid flow and Knudsen diffusion process within the reconstructed shales, respectively. Tortuosity, intrinsic permeability and effective Knudsen diffusivity are numerically predicted. The tortuosity is much higher than that commonly employed in Bruggeman equation. Correction of the intrinsic permeability by taking into consideration the contribution of Knudsen diffusion, which leads to the apparent permeability, is performed. The correction factor under different Knudsen number and pressure are estimated and compared with existing corrections re...

  7. Kinetic Monte Carlo Method to Model Diffusion Controlled Phase Transformations in the Solid State

    NASA Astrophysics Data System (ADS)

    Martin, Georges; Soisson, Frédéric

    The classical theories of diffusion-controlled transformations in the solid state (precipitate-nucleation, -growth, -coarsening, order-disorder transformation, domain growth) imply several kinetic coefficients: diffusion coefficients (for the solute to cluster into nuclei, or to move from smaller to larger precipitates…), transfer coefficients (for the solute to cross the interface in the case of interface-reaction controlled kinetics) and ordering kinetic coefficients. If we restrict to coherent phase transformations, i.e., transformations, which occur keeping the underlying lattice the same, all such events (diffusion, transfer, ordering) are nothing but jumps of atoms from site to site on the lattice. Recent progresses have made it possible to model, by various techniques, diffusion controlled phase transformations, in the solid state, starting from the jumps of atoms on the lattice. The purpose of the present chapter is to introduce one of the techniques, the Kinetic Monte Carlo method (KMC).

  8. Automated counting of bacterial colony forming units on agar plates.

    PubMed

    Brugger, Silvio D; Baumberger, Christian; Jost, Marcel; Jenni, Werner; Brugger, Urs; Mühlemann, Kathrin

    2012-01-01

    Manual counting of bacterial colony forming units (CFUs) on agar plates is laborious and error-prone. We therefore implemented a colony counting system with a novel segmentation algorithm to discriminate bacterial colonies from blood and other agar plates.A colony counter hardware was designed and a novel segmentation algorithm was written in MATLAB. In brief, pre-processing with Top-Hat-filtering to obtain a uniform background was followed by the segmentation step, during which the colony images were extracted from the blood agar and individual colonies were separated. A Bayes classifier was then applied to count the final number of bacterial colonies as some of the colonies could still be concatenated to form larger groups. To assess accuracy and performance of the colony counter, we tested automated colony counting of different agar plates with known CFU numbers of S. pneumoniae, P. aeruginosa and M. catarrhalis and showed excellent performance. PMID:22448267

  9. 21 CFR 866.4600 - Ouchterlony agar plate.

    Code of Federal Regulations, 2011 CFR

    2011-04-01

    ... FOOD AND DRUG ADMINISTRATION, DEPARTMENT OF HEALTH AND HUMAN SERVICES (CONTINUED) MEDICAL DEVICES IMMUNOLOGY AND MICROBIOLOGY DEVICES Immunology Laboratory Equipment and Reagents § 866.4600 Ouchterlony agar plate. (a)...

  10. 21 CFR 866.4600 - Ouchterlony agar plate.

    Code of Federal Regulations, 2014 CFR

    2014-04-01

    ... FOOD AND DRUG ADMINISTRATION, DEPARTMENT OF HEALTH AND HUMAN SERVICES (CONTINUED) MEDICAL DEVICES IMMUNOLOGY AND MICROBIOLOGY DEVICES Immunology Laboratory Equipment and Reagents § 866.4600 Ouchterlony agar plate. (a)...

  11. 21 CFR 866.4600 - Ouchterlony agar plate.

    Code of Federal Regulations, 2012 CFR

    2012-04-01

    ... FOOD AND DRUG ADMINISTRATION, DEPARTMENT OF HEALTH AND HUMAN SERVICES (CONTINUED) MEDICAL DEVICES IMMUNOLOGY AND MICROBIOLOGY DEVICES Immunology Laboratory Equipment and Reagents § 866.4600 Ouchterlony agar plate. (a)...

  12. The numerical and experimental study of photon diffusion inside biological tissue using boundary integral method

    NASA Astrophysics Data System (ADS)

    Ansari, Mohammad Ali; Alikhani, Saeid; Mohajerani, Ezeddin; Massudi, Reza

    2012-03-01

    In this study, the diffusion of photons in turbid media, like biological tissue has been studied. Due to scattering and absorption of photons in such media, the study of photon propagation in biological tissue is complicated. The several numerical methods have been presented to simulate the behavior of diffused photons. Recently, Boundary Integral Method (BIM) has been offered to simulate photon migration inside biological tissues. This method has advantage, e.g. lower computational time in compared with other numerical methods. In this study, the accuracy and precision of BIM compares with another numerical method like Monte Carlo technique and finite difference method, and also the calculated results obtained by BIM and Monte Carlo method evaluate with measured results. Furthermore, the effects of scattering and absorption coefficient of tissue on the measured signal are studied.

  13. Washington State University: Defects and Diffusion studied by Hyperfine Methods

    NSDL National Science Digital Library

    The Hyperfine Interactions Laboratory at Washington State University addresses its research of "how solids are affected by mechanical, thermal, chemical, or irradiation treatment" with atom-scale resolution. Students and researchers can discover their nuclear hyperfine interactions methods. To learn about the Laboratory's research, users can find detailed descriptions, pictures, publications, meeting abstracts, and more. The website features undergraduate, graduate, postdocs, and visiting scientist research opportunities. Users can also find out about the International Conference on Hyperfine Interactions held in August 2004.

  14. An instrument for small-animal imaging using time-resolved diffuse and fluorescence optical methods

    NASA Astrophysics Data System (ADS)

    Montcel, Bruno; Poulet, Patrick

    2006-12-01

    We describe time-resolved optical methods that use diffuse near-infrared photons to image the optical properties of tissues and their inner fluorescent probe distribution. The assembled scanner uses picosecond laser diodes at 4 wavelengths, an 8-anode photo-multiplier tube and time-correlated single photon counting. Optical absorption and reduced scattering images as well as fluorescence emission images are computed from temporal profiles of diffuse photons. This method should improve the spatial resolution and the quantification of fluorescence signals. We used the diffusion approximation of the radiation transport equation and the finite element method to solve the forward problem. The inverse problem is solved with an optimization algorithm such as ART or conjugate gradient. The scanner and its performances are presented, together with absorption, scattering and fluorescent images obtained with it.

  15. [Evaluation of blood agar medium for the growth of mycobacteria].

    PubMed

    Coban, Ahmet Y?lmaz; Akgüne?, Alper; Durup?nar, Belma

    2011-10-01

    This study was aimed to evaluate the performance of blood agar for the growth of mycobacteria from clinical specimens sent to Mycobacteriology Laboratory of Samsun Chest Diseases Hospital. One hundred fifty six clinical specimens including 123 sputum, 28 bronchoalveolar lavage (BAL) and 5 pleural fluid specimens were inoculated in Löwenstein-Jensen (LJ), BACTEC MGIT 960 system (Becton Dickinson, USA) and blood agar following decontamination process. The specimens were also simultaneously examined for the presence of acid-fast bacilli (AFB). Thirty five mycobacteria strains (33 Mycobacterium tuberculosis and 2 atypical mycobacteria) grew in blood agar, 38 (36 M.tuberculosis and 2 atypical mycobacteria) in LJ media and 46 (44 M.tuberculosis and 2 atypical mycobacteria) in BACTEC MGIT 960 system. Among 29 AFB negative specimens, 20 revealed growth in both blood agar and LJ medium and 27 in MGIT system. AFB positive 20 samples yielded growth in 15 samples in blood agar, 18 in LJ medium and 19 in MGIT system. Among the total of 156 samples, contamination was observed in 15 (9.6%) samples in blood agar, 16 (10.2%) in LJ medium and 18 (11.5%) in MGIT system. Growth time was 5-35 days (mean 18 ± 7.4), 11-35 days (mean 19 ± 5.9) and 5-15 days (mean 10 ± 2.4) for blood agar, LJ medium and BACTEC MGIT 960 system, respectively. The three samples which revealed contamination in BACTEC MGIT 960 system, grew successfully in both blood agar and LJ medium without contamination. In one sample, growth was observed only in LJ medium but neither in blood agar nor BACTEC MGIT 960 system. However, in another sample, growth was observed only in blood agar while no growth was detected in LJ or BACTEC MGIT 960 system. Six samples yielded mycobacteria only in BACTEC MGIT 960 system. These results indicated that simultaneous use of one liquid and one solid medium to grow mycobacteria from the clinical samples seemed to be complementary. Blood agar was a promising choice since it was found to be as effective as LJ medium for the growth of mycobacteria, however, this issue needs to be further evaluated in a multicentre study with a larger specimen collection. PMID:22090292

  16. Hyperspectral image reconstruction using RGB color for foodborne pathogen detection on agar plates

    NASA Astrophysics Data System (ADS)

    Yoon, Seung-Chul; Shin, Tae-Sung; Park, Bosoon; Lawrence, Kurt C.; Heitschmidt, Gerald W.

    2014-03-01

    This paper reports the latest development of a color vision technique for detecting colonies of foodborne pathogens grown on agar plates with a hyperspectral image classification model that was developed using full hyperspectral data. The hyperspectral classification model depended on reflectance spectra measured in the visible and near-infrared spectral range from 400 and 1,000 nm (473 narrow spectral bands). Multivariate regression methods were used to estimate and predict hyperspectral data from RGB color values. The six representative non-O157 Shiga-toxin producing Eschetichia coli (STEC) serogroups (O26, O45, O103, O111, O121, and O145) were grown on Rainbow agar plates. A line-scan pushbroom hyperspectral image sensor was used to scan 36 agar plates grown with pure STEC colonies at each plate. The 36 hyperspectral images of the agar plates were divided in half to create training and test sets. The mean Rsquared value for hyperspectral image estimation was about 0.98 in the spectral range between 400 and 700 nm for linear, quadratic and cubic polynomial regression models and the detection accuracy of the hyperspectral image classification model with the principal component analysis and k-nearest neighbors for the test set was up to 92% (99% with the original hyperspectral images). Thus, the results of the study suggested that color-based detection may be viable as a multispectral imaging solution without much loss of prediction accuracy compared to hyperspectral imaging.

  17. An adaptive pseudo-spectral method for reaction diffusion problems

    NASA Technical Reports Server (NTRS)

    Bayliss, A.; Gottlieb, D.; Matkowsky, B. J.; Minkoff, M.

    1987-01-01

    The spectral interpolation error was considered for both the Chebyshev pseudo-spectral and Galerkin approximations. A family of functionals I sub r (u), with the property that the maximum norm of the error is bounded by I sub r (u)/J sub r, where r is an integer and J is the degree of the polynomial approximation, was developed. These functionals are used in the adaptive procedure whereby the problem is dynamically transformed to minimize I sub r (u). The number of collocation points is then chosen to maintain a prescribed error bound. The method is illustrated by various examples from combustion problems in one and two dimensions.

  18. Numerical methods and stochastic simulation algorithms for reaction-drift-diffusion systems

    NASA Astrophysics Data System (ADS)

    Mauro, Ava J.

    In recent years, there has been increased awareness that stochasticity in chemical reactions and diffusion of molecules can have significant effects on the outcomes of intracellular processes, particularly given the low copy numbers of many proteins and mRNAs present in a cell. For such molecular species, the number and locations of molecules can provide a more accurate and detailed description than local concentration. In addition to diffusion, drift in the movements of molecules can play a key role in the dynamics of intracellular processes, and can often be modeled as arising from potential fields. Examples of sources of drift include active transport, variations in chemical potential, material heterogeneities in the cytoplasm, and local interactions with subcellular structures. This dissertation presents a new numerical method for simulating the stochastically varying numbers and locations of molecular species undergoing chemical reactions and drift-diffusion. The method combines elements of the First-Passage Kinetic Monte Carlo (FPKMC) method for reaction--diffusion systems and the Wang--Peskin--Elston lattice discretization of the Fokker--Planck equation that describes drift-diffusion processes in which the drift arises from potential fields. In the FPKMC method, each molecule is enclosed within a "protective domain", either by itself or with a small number of other molecules. To sample when a molecule leaves its protective domain or a reaction occurs, the original FPKMC method relies on analytic solutions of one- and two-body diffusion equations within the protective domains, and therefore cannot be used in situations with non-constant drift. To allow for such drift in our new method (hereafter Dynamic Lattice FPKMC or DL-FPKMC), each molecule undergoes a continuous-time random walk on a lattice within its protective domain, and the lattices change adaptively over time. One of the most commonly used spatial models for stochastic reaction-diffusion systems is the Smoluchowski diffusion-limited reaction (SDLR) model. The DL-FPKMC method generates convergent realizations of an extension of the SDLR model that includes drift from potentials. We present detailed numerical results demonstrating the convergence and accuracy of our method for various types of potentials (smooth, discontinuous, and constant). We also present several illustrative applications of DL-FPKMC, including examples motivated by cell biology.

  19. Determination of diffusion coefficients in polypyrrole thin films using a current pulse relaxation method

    NASA Technical Reports Server (NTRS)

    Penner, Reginald M.; Vandyke, Leon S.; Martin, Charles R.

    1987-01-01

    The current pulse E sub oc relaxation method and its application to the determination of diffusion coefficients in electrochemically synthesized polypyrrole thin films is described. Diffusion coefficients for such films in Et4NBF4 and MeCN are determined for a series of submicron film thicknesses. Measurement of the double-layer capacitance, C sub dl, and the resistance, R sub u, of polypyrrole thin films as a function of potential obtained with the galvanostatic pulse method is reported. Measurements of the electrolyte concentration in reduced polypyrrole films are also presented to aid in the interpretation of the data.

  20. Comparison of the thermogravimetric analysis (TGA) and Franz cell methods to assess dermal diffusion of volatile chemicals

    Microsoft Academic Search

    Matias Rauma; Gunnar Johanson

    2009-01-01

    Recent work in our laboratory shows that it is possible to measure the minute weight changes of skin during exposure to chemical vapor using the thermogravimetric analysis (TGA) method. Further, the TGA weight curves can be analyzed with a two-compartment diffusion model, yielding two sets of diffusion and skin:air partition coefficients. In this study, the dermal diffusion of six chemical

  1. Thermal Diffusivity Measurement for Thermal Spray Coating Attached to Substrate Using Laser Flash Method

    NASA Astrophysics Data System (ADS)

    Akoshima, Megumi; Tanaka, Takashi; Endo, Satoshi; Baba, Tetsuya; Harada, Yoshio; Kojima, Yoshitaka; Kawasaki, Akira; Ono, Fumio

    2011-11-01

    Ceramic-based thermal barrier coatings are used as heat and wear shields of gas turbine blades. There is a strong need to evaluate the thermal conductivity of coating for thermal design and use. The thermal conductivity of a bulk material is obtained as the product of thermal diffusivity, specific heat capacity, and density above room temperature in many cases. Thermal diffusivity and thermal conductivity are unique for a given material because they are sensitive to the structure of the material. Therefore, it is important to measure them in each sample. However it is difficult to measure the thermal diffusivity and thermal conductivity of coatings because coatings are attached to substrates. In order to evaluate the thermal diffusivity of a coating attached to the substrate, we have examined the laser flash method with the multilayer model on the basis of the response function method. We carried out laser flash measurements in layered samples composed of a CoNiCrAlY bond coating and a 8YSZ top coating by thermal spraying on a Ni-based superalloy substrate. It was found that the procedure using laser flash method with the multilayer model is useful for the thermal diffusivity evaluation of a coating attached to a substrate.

  2. Analysis of variable coefficient advection—diffusion problems via complex variable reproducing kernel particle method

    NASA Astrophysics Data System (ADS)

    Weng, Yun-Jie; Cheng, Yu-Min

    2013-09-01

    The complex variable reproducing kernel particle method (CVRKPM) of solving two-dimensional variable coefficient advection—diffusion problems is presented in this paper. The advantage of the CVRKPM is that the shape function of a two-dimensional problem is formed with a one-dimensional basis function. The Galerkin weak form is employed to obtain the discretized system equation, and the penalty method is used to apply the essential boundary conditions. Then the corresponding formulae of the CVRKPM for two-dimensional variable coefficient advection—diffusion problems are obtained. Two numerical examples are given to show that the method in this paper has greater accuracy and computational efficiency than the conventional meshless method such as reproducing the kernel particle method (RKPM) and the elementfree Galerkin (EFG) method.

  3. A gradient random walk method for two-dimensional reaction-diffusion equations

    SciTech Connect

    Sherman, A. (National Inst. of Diabetes and Digestive and Kidney Diseases, Bethesda, MD (United States)); Mascagni, M. (National Inst. of Diabetes and Digestive and Kidney Diseases, Bethesda, MD (United States) Inst. for Defense Analyses, Bowie, MD (United States). Supercomputing Research Center)

    1994-11-01

    An extension to two space dimensions of the gradient random walk algorithm for reaction-diffusion equations is presented. This family of algorithms is related closely to the random vortex method of computational fluid dynamics. Although the computational cost is high, the method has the desirable features of being grid free and of automatically adapting to the solution by concentrating elements where the gradient is large. In addition, the method can be extended easily to more than two space dimensions. A key feature of the method is discretization in terms of the dependent, rather than independent, variable, giving it features in common with Lagrangian particle methods. The method is derived here and its application to some simple reaction-diffusion wave propagation problems is illustrated.

  4. Method of fabricating reflection-mode EUV diffusers

    DOEpatents

    Anderson, Erik; Naulleau, Patrick P.

    2005-03-01

    Techniques for fabricating well-controlled, random relief, engineered surfaces that serve as substrates for EUV optical devices are accomplished with grayscale exposure. The method of fabricating a multilevel EUV optical element includes: (a) providing a substrate; (b) depositing a layer of curable material on a surface of the substrate; (c) creating a relief profile in a layer of cured material from the layer of curable material wherein the relief profile comprises multiple levels of cured material that has a defined contour; and (d) depositing a multilayer reflection film over the relief profile wherein the film has an outer contour that substantially matches that of the relief profile. The curable material can comprise photoresist or a low dielectric constant material.

  5. Evaluation of the Disk Diffusion Method Compared to the Microdilution Method in Susceptibility Testing of Anidulafungin against Filamentous Fungi?

    PubMed Central

    Maida, Carmelo Massimo; Milici, Maria Eleonora; Trovato, Laura; Oliveri, Salvatore; Amodio, Emanuele; Spreghini, Elisabetta; Scalise, Giorgio; Barchiesi, Francesco

    2008-01-01

    Susceptibility testing of anidulafungin (AFG) against 32 mold isolates showed an excellent correlation between disk diffusion (DD) and broth microdilution methods. Based on our data, a 2-?g disk of AFG and a 24-h reading time might represent the best parameters for AFG DD testing against filamentous fungi. PMID:18923014

  6. Method of diffusive gradients in thin films (DGT) compared with other soil testing methods to predict uranium phytoavailability

    Microsoft Academic Search

    H. Vandenhove; K. Antunes; J. Wannijn; L. Duquène; M. Van Hees

    2007-01-01

    The measurement of diffusive gradients in thin films (DGT) has been proposed as a surrogate for metal uptake by plants. A small-scale experiment was performed to test the predictive capacity of the DGT method with respect to uranium availability and uptake by ryegrass. Correlation analyses were performed to compare the results obtained with the DGT device with more conventional bioavailability

  7. Numerical simulation of diffusion MRI signals using an adaptive time-stepping method.

    PubMed

    Li, Jing-Rebecca; Calhoun, Donna; Poupon, Cyril; Le Bihan, Denis

    2014-01-20

    The effect on the MRI signal of water diffusion in biological tissues in the presence of applied magnetic field gradient pulses can be modelled by a multiple compartment Bloch-Torrey partial differential equation. We present a method for the numerical solution of this equation by coupling a standard Cartesian spatial discretization with an adaptive time discretization. The time discretization is done using the explicit Runge-Kutta-Chebyshev method, which is more efficient than the forward Euler time discretization for diffusive-type problems. We use this approach to simulate the diffusion MRI signal from the extra-cylindrical compartment in a tissue model of the brain gray matter consisting of cylindrical and spherical cells and illustrate the effect of cell membrane permeability. PMID:24351275

  8. Stability and error analysis of nodal expansion method for convection-diffusion equation

    SciTech Connect

    Deng, Z. [Inst. of Nuclear and New Energy Technology, Tsinghua Univ., Beijing10084 (China); Rizwan-Uddin [Univ. of Illinois at Urbana-Champaign, 216 Talbot Lab., 104 S. Wright St., Urbana, IL 61801 (United States); Li, F.; Sun, Y. [Inst. of Nuclear and New Energy Technology, Tsinghua Univ., Beijing10084 (China)

    2012-07-01

    The development, and stability and error analyses of nodal expansion method (NEM) for one dimensional steady-state convection diffusion equation is presented. Following the traditional procedure to develop NEM, the discrete formulation of the convection-diffusion equation, which is similar to the standard finite difference scheme, is derived. The method of discrete perturbation analysis is applied to this discrete form to study the stability of the NEM. The scheme based on the NEM is found to be stable for local Peclet number less than 4.644. A maximum principle is proved for the NEM scheme, followed by an error analysis carried out by applying the Maximum principle together with a carefully constructed comparison function. The scheme for the convection diffusion equation is of second-order. Numerical experiments are carried and the results agree with the conclusions of the stability and error analyses. (authors)

  9. MRI Phantoms – Are There Alternatives to Agar?

    PubMed Central

    Hellerbach, Alexandra; Schuster, Verena; Jansen, Andreas; Sommer, Jens

    2013-01-01

    The suitability of different gelling agents as MRI phantoms was evaluated in terms of homogeneity, gel stability and reproducibility. Time and effort for preparation were also taken into account. The relaxation times of various gel compositions were estimated. Carbomer-980 and Carbopol-974P were determined to be promising novel phantom materials. These gelling agents are readily available, inexpensive and easy to handle given that thermal treatment is not required. Furthermore, the viscoelasticity of their polymer network is pH-dependent. With such characteristics, it was even possible to embed sensitive objects and retrieve them after testing. This was demonstrated with a fiber phantom for Diffusion Weighted MRI applications. Since Carbomer-980 and Carbopol-974P are non-hazardous, they are also suitable for multimodal setups (e.g., MRI as well as ultrasonic imaging). PMID:23940563

  10. MRI phantoms - are there alternatives to agar?

    PubMed

    Hellerbach, Alexandra; Schuster, Verena; Jansen, Andreas; Sommer, Jens

    2013-01-01

    The suitability of different gelling agents as MRI phantoms was evaluated in terms of homogeneity, gel stability and reproducibility. Time and effort for preparation were also taken into account. The relaxation times of various gel compositions were estimated. Carbomer-980 and Carbopol-974P were determined to be promising novel phantom materials. These gelling agents are readily available, inexpensive and easy to handle given that thermal treatment is not required. Furthermore, the viscoelasticity of their polymer network is pH-dependent. With such characteristics, it was even possible to embed sensitive objects and retrieve them after testing. This was demonstrated with a fiber phantom for Diffusion Weighted MRI applications. Since Carbomer-980 and Carbopol-974P are non-hazardous, they are also suitable for multimodal setups (e.g., MRI as well as ultrasonic imaging). PMID:23940563

  11. A method for estimating lateral diffusion coefficients in membranes from steady-state fluorescence quenching studies.

    PubMed Central

    Blackwell, M F; Gounaris, K; Zara, S J; Barber, J

    1987-01-01

    The Stern-Volmer theory, in which the quantum yield ratio (Io/I) depends linearly on the quencher concentration, will typically be inapplicable to fluorescence quenching in membranes. Numerical analysis shows that diffusion-controlled quenching results in a nonlinear concentration dependence for diffusion coefficients less than or of the order of 10(-6) cm2 s-1 and probe fluorescence lifetimes in the region of 10-100 ns. Lateral diffusion coefficients in membranes are typically overestimated an order of magnitude or more by the Stern-Volmer theory. An alternative empirical method is presented, which represents nonlinear concentration curves by a single parameter linear approximation determined by a least-squares analysis. The fitting parameter, P, depends on the interaction distance, the membrane thickness, the maximum extent of quenching and, in the case of biexponential probe fluorescence decay, the fluorescence kinetic parameters. P is presented in tabular form for a useful range of these parameters. The method is used to estimate diffusion coefficients for plastoquinone and plastoquinol from pyrene fluorescence quenching in soya bean phosphatidylcholine liposomes. It is found that the diffusion coefficients are nearly equal and in the region of 1.3-3.5 X 10(-7) cm2 s-1 for interaction radii of 1.5-0.5 nm, respectively. PMID:3593871

  12. Stability of the SUPG finite element method for transient advection–diffusion problems

    Microsoft Academic Search

    Pavel B. Bochev; Max D. Gunzburger; John N. Shadid

    2004-01-01

    Implicit time integration coupled with SUPG discretization in space leads to additional terms that provide consistency and improve the phase accuracy for convection dominated flows. Recently, it has been suggested that for small Courant numbers these terms may dominate the streamline diffusion term, ostensibly causing destabilization of the SUPG method. While consistent with a straightforward finite element stability analysis, this

  13. Liquid-phase thermal diffusion isotope separation apparatus and method having tapered column

    DOEpatents

    Rutherford, William M. (Dayton, OH)

    1988-05-24

    A thermal diffusion counterflow method and apparatus for separating isotopes in solution in which the solution is confined in a long, narrow, vertical slit which tapers from bottom to top. The variation in the width of the slit permits maintenance of a stable concentration distribution with relatively long columns, thus permitting isotopic separation superior to that obtainable in the prior art.

  14. Solution of the steady-state diffusion equation by the WKB method

    Microsoft Academic Search

    A. G. Khantadze; R. G. Gachechiladze; A. I. Gvelesiani; G. M. Khocholava; B. Ia. Chekhoshvili; N. N. Mebagishvili

    1975-01-01

    The Wentzel-Kramers-Brillouin method is used to obtain an approximate solution of the ionization balance equation for the night ionosphere taking into account ambipolar diffusion and recombination. A null approximation of the electron concentration distribution is obtained. The effect of different values for the ratio of atomic to molecular neutral gas component height scales is evident only for the height of

  15. DEVELOPMENT OF LOW-DIFFUSION FLUX-SPLITTING METHODS FOR DENSE GAS-SOLID FLOWS

    EPA Science Inventory

    The development of a class of low-diffusion upwinding methods for computing dense gas-solid flows is presented in this work. An artificial compressibility/low-Mach preconditioning strategy is developed for a hyperbolic two-phase flow equation system consisting of separate solids ...

  16. Evaluation of method of preparation of passive diffusion tubes for measurement of ambient nitrogen dioxide 

    E-print Network

    Hamilton, Richard P; Heal, Mathew R

    2004-01-01

    This study was carried out in response to suggestions that the measurement of NO2 by Palmes-type passive diffusion tubes (PDT) is affected by the method of preparation of the triethanolamine (TEA) absorbent coating on the grids. The following...

  17. Calculation of effective diffusion coefficient in even approximations of the surface pseudo source method

    SciTech Connect

    Kovalishin, A. A., E-mail: kaa@adis.vver.kiae.ru; Laletin, N. I. [Russian Research Centre Kurchatov Institute (Russian Federation)

    2011-12-15

    The preference of even approximations of the surface pseudo source method for calculation of the diffusion coefficient is substantiated. The homogenization limit for the G{sub 0} approximation in the case of the cell size tending to zero is analytically proved.

  18. An hp Analysis of the Local Discontinuous Galerkin Method for Diffusion Problems

    Microsoft Academic Search

    Ilaria Perugia; Dominik Schötzau

    2002-01-01

    We present an hp-error analysis of the local discontinuous Galerkin method for diffusion problems, considering unstructured meshes with hanging nodes and two- and three-dimensional domains. Our estimates are optimal in the meshsize h and slightly suboptimal in the polynomial approximation order p. Optimality in p is achieved for matching grids and polynomial boundary conditions.

  19. Standard test method for accelerated leach test for diffusive releases from solidified waste and a computer program to model diffusive, fractional leaching from cylindrical waste forms

    E-print Network

    American Society for Testing and Materials. Philadelphia

    2008-01-01

    1.1 This test method provides procedures for measuring the leach rates of elements from a solidified matrix material, determining if the releases are controlled by mass diffusion, computing values of diffusion constants based on models, and verifying projected long-term diffusive releases. This test method is applicable to any material that does not degrade or deform during the test. 1.1.1 If mass diffusion is the dominant step in the leaching mechanism, then the results of this test can be used to calculate diffusion coefficients using mathematical diffusion models. A computer program developed for that purpose is available as a companion to this test method (Note 1). 1.1.2 It should be verified that leaching is controlled by diffusion by a means other than analysis of the leach test solution data. Analysis of concentration profiles of species of interest near the surface of the solid waste form after the test is recommended for this purpose. 1.1.3 Potential effects of partitioning on the test results can...

  20. Analysis of Preconditioning and Relaxation Operators for the Discontinuous Galerkin Method Applied to Diffusion

    NASA Technical Reports Server (NTRS)

    Atkins, H. L.; Shu, Chi-Wang

    2001-01-01

    The explicit stability constraint of the discontinuous Galerkin method applied to the diffusion operator decreases dramatically as the order of the method is increased. Block Jacobi and block Gauss-Seidel preconditioner operators are examined for their effectiveness at accelerating convergence. A Fourier analysis for methods of order 2 through 6 reveals that both preconditioner operators bound the eigenvalues of the discrete spatial operator. Additionally, in one dimension, the eigenvalues are grouped into two or three regions that are invariant with order of the method. Local relaxation methods are constructed that rapidly damp high frequencies for arbitrarily large time step.

  1. Error diffusion method applied to design combined CSG-BSG element used in ICF driver

    NASA Astrophysics Data System (ADS)

    Zhang, Yixiao; Yao, Xin; Gao, Fuhua; Guo, Yongkang; Wang, Lei; Hou, Xi

    2006-08-01

    In the final optics assembly of Inertial Confinement Fusion (ICF) driver, Diffractive Optical Elements (DOEs) are applied to achieve some important functions, such as harmonic wave separation, beam sampling, beam smoothing and pulse compression etc. However, in order to optimize the system structure, decrease the energy loss and avoid the damage of laser induction or self-focusing effect, the number of elements used in the ICF system, especially in the final optics assembly, should be minimized. The multiple exposure method has been proposed, for this purpose, to fabricate BSG and CSG on one surface of a silica plate. But the multiple etch processes utilized in this method is complex and will introduce large alignment error. Error diffusion method that based on pulse-density modulation has been widely used in signal processing and computer generated hologram (CGH). In this paper, according to error diffusion method in CGH and partial coherent imaging theory, we present a new method to design coding mask of combine CSG-BSG element with error diffusion method. With the designed mask, only one exposure process is needed in fabricating combined element, which will greatly reduce the fabrication difficulty and avoid the alignment error introduced by multiple etch processes. We illustrate the designed coding mask for CSG-BSG element with this method and compare the intensity distribution of the spatial image in partial coherent imaging system with desired relief.

  2. COMPARISON OF THE COMPLETE FOURIER DIRECT MRI WITH EXISTING DIFFUSION WEIGHTED MRI METHODS

    PubMed Central

    Özcan, Alpay

    2011-01-01

    The Complete Fourier Direct (CFD) MRI method introduced in earlier work for modeling the diffusion weighted MRI signal is compared with the existing methods. The preservation of Hermitian symmetry in the diffusion weighted MRI signal without affecting its energy is the key point that differentiates CFD–MRI from the existing methods. By keeping the correct Fourier relationship intact, the joint distribution function is represented ‘as it is’, without any constraints, e.g. being symmetric. The necessity to model or assume models for spin motion and try to fit the model to the samples of the Fourier transform as in case of model matching methods is not required because the Discrete Fourier Transform applied to correctly processed signal in CFD–MRI gives more accurate results. PMID:21918715

  3. A high-order Padé ADI method for unsteady convection diffusion equations

    NASA Astrophysics Data System (ADS)

    You, Donghyun

    2006-05-01

    A high-order alternating direction implicit (ADI) method for computations of unsteady convection-diffusion equations is proposed. By using fourth-order Padé schemes for spatial derivatives, the present scheme is fourth-order accurate in space and second-order accurate in time. The solution procedure consists of a number of tridiagonal matrix operations which make the computation cost effective. The method is unconditionally stable, and shows higher accuracy and better phase and amplitude error characteristics than the standard second-order ADI method [D.W. Peaceman, H.H. Rachford Jr., The numerical solution of parabolic and elliptic differential equations, Journal of the Society of Industrial and Applied Mathematics 3 (1959) 28-41] and the fourth-order ADI scheme of Karaa and Zhang [High order ADI method for solving unsteady convection-diffusion problem, Journal of Computational Physics 198 (2004) 1-9].

  4. New chromogenic agar medium for the identification of Candida spp.

    PubMed

    Cooke, Venitia M; Miles, R J; Price, R G; Midgley, G; Khamri, W; Richardson, A C

    2002-07-01

    A new chromogenic agar medium (Candida diagnostic agar [CDA]) for differentiation of Candida spp. is described. This medium is based on Sabouraud dextrose agar (Oxoid CM41) and contains (per liter) 40.0 g of glucose, 10.0 g of mycological peptone, and 15.0 g of agar along with a novel chromogenic glucosaminidase substrate, ammonium 4-(2-[4-(2-acetamido-2-deoxy-beta-D-glucopyranosyloxy)-3-methoxyphenyl]-vinyl)-1-(propan-3-yl-oate)-quinolium bromide (0.32 g liter(-1)). The glucosaminidase substrate in CDA was hydrolyzed by Candida albicans and Candida dubliniensis, yielding white colonies with deep-red spots on a yellow transparent background after 24 to 48 h of incubation at 37 degrees C. Colonies of Candida tropicalis and Candida kefyr were uniformly pink, and colonies of other Candida spp., including Candida glabrata and Candida parapsilosis, were white. CDA was evaluated by using 115 test strains of Candida spp. and other clinically important yeasts and was compared with two commercially available chromogenic agars (Candida ID agar [bioMerieux] and CHROMagar Candida [CHROMagar Company Ltd.]). On all three agars, colonies of C. albicans were not distinguished from colonies of C. dubliniensis. However, for the group containing C. albicans plus C. dubliniensis, both the sensitivity and the specificity of detection when CDA was used were 100%, compared with values of 97.6 and 100%, respectively, with CHROMagar Candida and 100 and 96.8%, respectively, with Candida ID agar. In addition, for the group containing C. tropicalis plus C. kefyr, the sensitivity and specificity of detection when CDA was used were also 100%, compared with 72.7 and 98.1%, respectively, with CHROMagar Candida. Candida ID agar did not differentiate C. tropicalis and C. kefyr strains but did differentiate members of a broader group (C. tropicalis, C. kefyr, Candida lusitaniae plus Candida guilliermondii); the sensitivity and specificity of detection for members of this group were 94.7 and 93.8%, respectively. In addition to the increased sensitivity and/or specificity of Candida detection when CDA was used, differentiation of colony types on CDA (red spotted, pink, or no color) was unambiguous and did not require precise assessment of colony color. PMID:12089051

  5. Diffuse attenuation coefficient of downwelling irradiance: An evaluation of remote sensing methods

    Microsoft Academic Search

    Zhong-Ping Lee; Miroslaw Darecki; Kendall L. Carder; Curtiss O. Davis; Dariusz Stramski; W. Joseph Rhea

    2005-01-01

    The propagation of downwelling irradiance at wavelength ? from surface to a depth (z) in the ocean is governed by the diffuse attenuation coefficient, $\\\\bar{K}_{d}$(?). There are two standard methods for the derivation of $\\\\bar{K}_{d}$(?) in remote sensing, which both are based on empirical relationships involving the blue-to-green ratio of ocean color. Recently, a semianalytical method to derive $\\\\bar{K}_{d}$(?) from

  6. A velocity-pressure streamline diffusion finite element method for the incompressible Navier-Stokes equations

    Microsoft Academic Search

    Peter Hansbo; Anders Szepessy

    1990-01-01

    A streamline diffusion finite-element method is introduced for the time-dependent incompressible Navier-Stokes equations in a bounded domain in R squared and R cubed in the case of a flow with a high Reynolds number. An error estimate is proved and numerical results are given. The method is based on a mixed velocity-pressure formulation using the same finite-element discretization of space-time

  7. A semi-discrete finite element method for a class of time-fractional diffusion equations.

    PubMed

    Sun, HongGuang; Chen, Wen; Sze, K Y

    2013-05-13

    As fractional diffusion equations can describe the early breakthrough and the heavy-tail decay features observed in anomalous transport of contaminants in groundwater and porous soil, they have been commonly used in the related mathematical descriptions. These models usually involve long-time-range computation, which is a critical obstacle for their application; improvement of computational efficiency is of great significance. In this paper, a semi-discrete method is presented for solving a class of time-fractional diffusion equations that overcome the critical long-time-range computation problem. In the procedure, the spatial domain is discretized by the finite element method, which reduces the fractional diffusion equations to approximate fractional relaxation equations. As analytical solutions exist for the latter equations, the burden arising from long-time-range computation can effectively be minimized. To illustrate its efficiency and simplicity, four examples are presented. In addition, the method is used to solve the time-fractional advection-diffusion equation characterizing the bromide transport process in a fractured granite aquifer. The prediction closely agrees with the experimental data, and the heavy-tail decay of the anomalous transport process is well represented. PMID:23547234

  8. Quantitative comparison of reconstruction methods for intra-voxel fiber recovery from diffusion MRI.

    PubMed

    Daducci, Alessandro; Canales-Rodríguez, Erick Jorge; Descoteaux, Maxime; Garyfallidis, Eleftherios; Gur, Yaniv; Lin, Ying-Chia; Mani, Merry; Merlet, Sylvain; Paquette, Michael; Ramirez-Manzanares, Alonso; Reisert, Marco; Reis Rodrigues, Paulo; Sepehrband, Farshid; Caruyer, Emmanuel; Choupan, Jeiran; Deriche, Rachid; Jacob, Mathews; Menegaz, Gloria; Pr?kovska, Vesna; Rivera, Mariano; Wiaux, Yves; Thiran, Jean-Philippe

    2014-02-01

    Validation is arguably the bottleneck in the diffusion magnetic resonance imaging (MRI) community. This paper evaluates and compares 20 algorithms for recovering the local intra-voxel fiber structure from diffusion MRI data and is based on the results of the "HARDI reconstruction challenge" organized in the context of the "ISBI 2012" conference. Evaluated methods encompass a mixture of classical techniques well known in the literature such as diffusion tensor, Q-Ball and diffusion spectrum imaging, algorithms inspired by the recent theory of compressed sensing and also brand new approaches proposed for the first time at this contest. To quantitatively compare the methods under controlled conditions, two datasets with known ground-truth were synthetically generated and two main criteria were used to evaluate the quality of the reconstructions in every voxel: correct assessment of the number of fiber populations and angular accuracy in their orientation. This comparative study investigates the behavior of every algorithm with varying experimental conditions and highlights strengths and weaknesses of each approach. This information can be useful not only for enhancing current algorithms and develop the next generation of reconstruction methods, but also to assist physicians in the choice of the most adequate technique for their studies. PMID:24132007

  9. A semi-discrete finite element method for a class of time-fractional diffusion equations

    E-print Network

    HongGuang Sun; Wen Chen; K. Y. Sze

    2013-04-10

    As fractional diffusion equations can describe the early breakthrough and the heavy-tail decay features observed in anomalous transport of contaminants in groundwater and porous soil, they have been commonly employed in the related mathematical descriptions. These models usually involve long-time range computation, which is a critical obstacle for its application, improvement of the computational efficiency is of great significance. In this paper, a semi-analytical method is presented for solving a class of time-fractional diffusion equations which overcomes the critical long-time range computation problem of time fractional differential equations. In the procedure, the spatial domain is discretized by the finite element method which reduces the fractional diffusion equations into approximate fractional relaxation equations. As analytical solutions exist for the latter equations, the burden arising from long-time range computation can effectively be minimized. To illustrate its efficiency and simplicity, four examples are presented. In addition, the method is employed to solve the time-fractional advection-diffusion equation characterizing the bromide transport process in a fractured granite aquifer. The prediction closely agrees with the experimental data and the heavy-tail decay of anomalous transport process is well-represented.

  10. The interpretation and analysis of diffuse scattering using Monte Carlo simulation methods.

    PubMed

    Welberry, T R; Goossens, D J

    2008-01-01

    Studies of diffuse scattering had a prominent place in the first issue of Acta Crystallographica 60 years ago at a time when conventional crystallography (determination of the average structure from Bragg peaks) was in its infancy. Since that time, conventional crystallography has developed enormously while diffuse-scattering analysis has seemingly lagged well behind. The paper highlights some of the extra difficulties involved in the measurement, interpretation and analysis of diffuse scattering and plots the progress that has been made. With the advent of the latest X-ray and neutron sources, area detectors and the ever-increasing power of computers, most disorder problems are now tractable. Two recent contrasting examples are described which highlight what can be achieved by current methods. PMID:18156669

  11. A new method of measuring hydrogen diffusivity by hydrogen permeation technique. 2: Experimental studies

    SciTech Connect

    Zheng, Y.P.; Zhang, T.Y. [Hong Kong Univ. of Science and Technology, Kowloon (Hong Kong). Dept. of Mechanical Engineering

    1998-12-31

    In order to verify the results predicted by the model in Part 1 of this work, permeation experiments were conducted at room and high temperatures on fully-annealed-commercially-pure iron with two kinds of surface treatment, one group with plasma cleaning and presputtering and the other without it. The experimental results show that the diffusivity evaluated by the new model is independent of sample thickness and surface treatment, while the diffusivity evaluated by the time-lag model varies two orders of magnitude. The experimental results confirm that a fine surface treatment yields a low energy barrier for desorption. The energy barrier for either group is higher than the activation energy of diffusion. Consequently, the ratio of drift velocity through surface to that in bulk increases with increasing temperature and makes the time-lag method appropriate at elevated temperatures.

  12. Energetic Particle Transport with Stochastic Differential Equations: General Methods and the Extension to Anomalous Diffusion Regimes

    NASA Astrophysics Data System (ADS)

    Effenberger, F.

    2014-09-01

    Numerical solution methods for Stochastic Differential Equations (SDEs) have become an important tool to study charged particle transport, due to their simplicity and conformance with modern computer architecture. Their field of application ranges from the detailed calculation of solar energetic particle events to the cosmic ray transport in the outer heliosphere and in the Galaxy. At the heart of the applicability of SDEs to kinetic equations is the fundamental equivalence between the Fokker-Planck diffusion equation of parabolic type and an SDE involving a Wiener process to represent the stochastic Brownian motion of (pseudo-)particles. This equivalence has recently been extended to anomalous diffusion involving a Fokker-Planck equation of fractional order and generalized Lévy distributions. Numerical tests and applications of this approach to anomalous diffusion and future prospects of the SDE approach in the space physics context are outlined.

  13. Simulation of gaseous diffusion in partially saturated porous media under variable gravity with lattice Boltzmann methods

    NASA Technical Reports Server (NTRS)

    Chau, Jessica Furrer; Or, Dani; Sukop, Michael C.; Steinberg, S. L. (Principal Investigator)

    2005-01-01

    Liquid distributions in unsaturated porous media under different gravitational accelerations and corresponding macroscopic gaseous diffusion coefficients were investigated to enhance understanding of plant growth conditions in microgravity. We used a single-component, multiphase lattice Boltzmann code to simulate liquid configurations in two-dimensional porous media at varying water contents for different gravity conditions and measured gas diffusion through the media using a multicomponent lattice Boltzmann code. The relative diffusion coefficients (D rel) for simulations with and without gravity as functions of air-filled porosity were in good agreement with measured data and established models. We found significant differences in liquid configuration in porous media, leading to reductions in D rel of up to 25% under zero gravity. The study highlights potential applications of the lattice Boltzmann method for rapid and cost-effective evaluation of alternative plant growth media designs under variable gravity.

  14. Preparation and performance of cross-linked agar encapsulated activated charcoal (CAAC-III).

    PubMed

    Chen, Y M; Tang, X J; Xu, C X; Li, Z M

    1991-01-01

    A technique is described to encapsulate activated charcoal for hemoperfusion to be used in an artificial liver support. Spherical activated charcoal was coated with agar and shaped in organic solvent, as well as cross-linked by epichlorohydrin (40-50 degrees C). The product withstood autoclaving at 121 degrees C for 0.5 hours, and had a good adsorption ability for compounds with molecular weight ranging from 113-5200. The adsorption kinetic showed pore diffusion limitation to compounds of small molecular weight, and film diffusion limitation to compounds of large molecular weight. Microparticles of charcoal release were greatly reduced, and within the permissible range according to the requirements in the U.S. Pharmacopeia (1985). PMID:1941439

  15. An Advanced Integrated Diffusion/Transport Method for the Design, Analysis and Optimization of the Very-High-Temperature Reactors

    SciTech Connect

    Farzad Rahnema; Dingkang Zhang; Abderrafi Ougouag; Frederick Gleicher

    2011-04-04

    The main objective of this research is to develop an integrated diffusion/transport (IDT) method to substantially improve the accuracy of nodal diffusion methods for the design and analysis of Very High Temperature Reactors (VHTR). Because of the presence of control rods in the reflector regions in the Pebble Bed Reactor (PBR-VHTR), traditional nodal diffusion methods do not accurately model these regions, within which diffusion theory breaks down in the vicinity of high neutron absorption and steep flux gradients. The IDT method uses a local transport solver based on a new incident flux response expansion method in the controlled nodes. Diffusion theory is used in the rest of the core. This approach improves the accuracy of the core solution by generating transport solutions of controlled nodes while maintaining computational efficiency by using diffusion solutions in nodes where such a treatment is sufficient. The transport method is initially developed and coupled to the reformulated 3-D nodal diffusion model in the CYNOD code for PBR core design and fuel cycle analysis. This method is also extended to the prismatic VHTR. The new method accurately captures transport effects in highly heterogeneous regions with steep flux gradients. The calculations of these nodes with transport theory avoid errors associated with spatial homogenization commonly used in diffusion methods in reactor core simulators

  16. GPU-accelerated 3D neutron diffusion code based on finite difference method

    SciTech Connect

    Xu, Q.; Yu, G.; Wang, K. [Dept. of Engineering Physics, Tsinghua Univ. (China)

    2012-07-01

    Finite difference method, as a traditional numerical solution to neutron diffusion equation, although considered simpler and more precise than the coarse mesh nodal methods, has a bottle neck to be widely applied caused by the huge memory and unendurable computation time it requires. In recent years, the concept of General-Purpose computation on GPUs has provided us with a powerful computational engine for scientific research. In this study, a GPU-Accelerated multi-group 3D neutron diffusion code based on finite difference method was developed. First, a clean-sheet neutron diffusion code (3DFD-CPU) was written in C++ on the CPU architecture, and later ported to GPUs under NVIDIA's CUDA platform (3DFD-GPU). The IAEA 3D PWR benchmark problem was calculated in the numerical test, where three different codes, including the original CPU-based sequential code, the HYPRE (High Performance Pre-conditioners)-based diffusion code and CITATION, were used as counterpoints to test the efficiency and accuracy of the GPU-based program. The results demonstrate both high efficiency and adequate accuracy of the GPU implementation for neutron diffusion equation. A speedup factor of about 46 times was obtained, using NVIDIA's Geforce GTX470 GPU card against a 2.50 GHz Intel Quad Q9300 CPU processor. Compared with the HYPRE-based code performing in parallel on an 8-core tower server, the speedup of about 2 still could be observed. More encouragingly, without any mathematical acceleration technology, the GPU implementation ran about 5 times faster than CITATION which was speeded up by using the SOR method and Chebyshev extrapolation technique. (authors)

  17. Application of numerical methods for diffusion-based modeling of skin permeation.

    PubMed

    Frasch, H Frederick; Barbero, Ana M

    2013-02-01

    The application of numerical methods for mechanistic, diffusion-based modeling of skin permeation is reviewed. Methods considered here are finite difference, method of lines, finite element, finite volume, random walk, cellular automata, and smoothed particle hydrodynamics. First the methods are briefly explained with rudimentary mathematical underpinnings. Current state of the art numerical models are described, and then a chronological overview of published models is provided. Key findings and insights of reviewed models are highlighted. Model results support a primarily transcellular pathway with anisotropic lipid transport. Future endeavors would benefit from a fundamental analysis of drug/vehicle/skin interactions. PMID:22261307

  18. A Monte Carlo synthetic-acceleration method for solving the thermal radiation diffusion equation

    SciTech Connect

    Evans, Thomas M., E-mail: evanstm@ornl.gov [Oak Ridge National Laboratory, 1 Bethel Valley Rd., Oak Ridge, TN 37831 (United States); Mosher, Scott W., E-mail: moshersw@ornl.gov [Oak Ridge National Laboratory, 1 Bethel Valley Rd., Oak Ridge, TN 37831 (United States); Slattery, Stuart R., E-mail: sslattery@wisc.edu [University of Wisconsin–Madison, 1500 Engineering Dr., Madison, WI 53716 (United States); Hamilton, Steven P., E-mail: hamiltonsp@ornl.gov [Oak Ridge National Laboratory, 1 Bethel Valley Rd., Oak Ridge, TN 37831 (United States)

    2014-02-01

    We present a novel synthetic-acceleration-based Monte Carlo method for solving the equilibrium thermal radiation diffusion equation in three spatial dimensions. The algorithm performance is compared against traditional solution techniques using a Marshak benchmark problem and a more complex multiple material problem. Our results show that our Monte Carlo method is an effective solver for sparse matrix systems. For solutions converged to the same tolerance, it performs competitively with deterministic methods including preconditioned conjugate gradient and GMRES. We also discuss various aspects of preconditioning the method and its general applicability to broader classes of problems.

  19. GELRITE as an Agar Substitute in Bacteriological Media

    PubMed Central

    Shungu, Daniel; Valiant, Mary; Tutlane, Vicki; Weinberg, Ellen; Weissberger, Barbara; Koupal, Larry; Gadebusch, Hans; Stapley, Edward

    1983-01-01

    GELRITE gellan gum (formerly known as PS-60 and S-60) is a new naturally derived, highly purified polysaccharide which displays several interesting properties, including selfgelling. The suitability of GELRITE as an agar substitute was tested by evaluating the performance of several media selected from among those most commonly used in the isolation, identification, and enumeration of microorganisms in clinical laboratories. Fifty different bacterial species previously implicated in human infections served as test strains. On the basis of the various parameters considered, namely, colony characteristics, biochemical reactions, hemolytic patterns, and plating efficiency, media gelled by agar and by GELRITE compared quite favorably. Images PMID:16346398

  20. Charcoal-Yeast Extract Agar: Primary Isolation Mediumfor Legionella pneumophila

    Microsoft Academic Search

    JAMES C. FEELEY; ROBERT J. GIBSON; GEORGE W. GORMAN; NANCY C. LANGFORD; J. KAMILE RASHEED; DON C. MACKEL; WILLIAM B. BAINE

    1979-01-01

    Charcoal-yeast extract agar isa new bacteriological mediumthatsupports excellent growth oftheLegionella pneumophila. Itresults frommodifications madeinan existing L.pneumophila medium,F-Gagar.Yeastextract, instead of an acidhydrolysate ofcasein, servesastheprotein source.Beefextractives and starch are notadded. Activated charcoal (Norit A or Norit SG)isincluded at 0.20%(wt\\/vol). Comparison ofcharcoal-yeast extract andF-Gagars showedthat a greater numberofcolony-forming units ofL.pneumophila was recovered from astandardized tissue inoculum on charcoal-yeast extract agar(4.35 x 106colony- forning

  1. Preparation of Agar-Agar from the Red Seaweed Pterocladia capillacea off the Coast of Alexandria, Egypt

    PubMed Central

    Rao, A. V.; Bekheet, Inaam A.

    1976-01-01

    The effect of different treatments on the quality of agar produced from Pterocladia has been studied, and the conditions for the production of material of good quality have been standardized. In the modified process, sun-bleached seaweed was washed well in water, soaked for 24 h, and then ground to a pulp and rinsed again in water. The pulp was then extracted with water (weed-to-water ratio, 1:30) under pressure for 2 h after adjusting the pH to 6 by the addition of acetic acid. The agar gel, after freeze thawing, was bleached with NaClO before drying in a current of hot air. Pretreatment of the seaweed with alkali at 80°C for 2 h prior to extraction was found to improve the quality of agar to a very great extent. PMID:16345175

  2. Antimicrobial activity of highly stable silver nanoparticles embedded in agar-agar matrix as a thin film.

    PubMed

    Ghosh, S; Kaushik, R; Nagalakshmi, K; Hoti, S L; Menezes, G A; Harish, B N; Vasan, H N

    2010-10-13

    Highly stable silver nanoparticles (Ag NPs) in agar-agar (Ag/agar) as inorganic-organic hybrid were obtained as free-standing film by in situ reduction of silver nitrate by ethanol. The antimicrobial activity of Ag/agar film on Escherichia coli (E. coli), Staphylococcus aureus (S. aureus), and Candida albicans (C. albicans) was evaluated in a nutrient broth and also in saline solution. In particular, films were repeatedly tested for antimicrobial activity after recycling. UV-vis absorption and TEM studies were carried out on films at different stages and morphological studies on microbes were carried out by SEM. Results showed spherical Ag NPs of size 15-25 nm, having sharp surface plasmon resonance (SPR) band. The antimicrobial activity of Ag/agar film was found to be in the order, C. albicans>E. coli>S. aureus, and antimicrobial activity against C. albicans was almost maintained even after the third cycle. Whereas, in case of E. coli and S. aureus there was a sharp decline in antimicrobial activity after the second cycle. Agglomeration of Ag NPs in Ag/agar film on exposure to microbes was observed by TEM studies. Cytotoxic experiments carried out on HeLa cells showed a threshold Ag NPs concentration of 60 ?g/mL, much higher than the minimum inhibition concentration of Ag NPs (25.8 ?g/mL) for E. coli. The mechanical strength of the film determined by nanoindentation technique showed almost retention of the strength even after repeated cycle. PMID:20800222

  3. Two-Dimensional Space-Time Dependent Multi-group Diffusion Equation with SLOR Method

    NASA Astrophysics Data System (ADS)

    Yulianti, Y.; Su'ud, Z.; Waris, A.; Khotimah, S. N.

    2010-06-01

    The research of two-dimensional space-time diffusion equations with SLOR (Successive-Line Over Relaxation) has been done. SLOR method is chosen because this method is one of iterative methods that does not required to defined whole element matrix. The research is divided in two cases, homogeneous case and heterogeneous case. Homogeneous case has been inserted by step reactivity. Heterogeneous case has been inserted by step reactivity and ramp reactivity. In general, the results of simulations are agreement, even in some points there are differences.

  4. A study on the comparison of median filter regularization methods in diffusion tensor MRI.

    PubMed

    Kim, Sunghee; Kwon, Kiwoon; Park, Insung; Han, Bongsu; Kim, Dongyoun

    2007-01-01

    Diffusion Tensor Magnetic Resonance Imaging (DT-MRI) is a method which makes it possible to study non-invasively the architecture of axonal fibers in the central nervous system. Since eigenvectors obtained from DT-MRI usually contain noise, the calculated vector directions may be deviated from the real fiber orientation. Therefore, noise errors can be accumulated as fiber tract becomes longer in tractography of DT-MRI. We used three algorithms for computing matrix medians which are the Simple Median Method, the Gradient Descent Method, and the Successive Fermat Method, because matrix-valued median filters show excellent capabilities for structure-preserving denoising. The results of the Successive Fermat Method give better than those of the Simple Median Method and is faster and the performance is similar to those of the Gradient Descent Method. PMID:18002740

  5. Pollinia-borne chemicals that induce early postpollination effects in Dendrobium flowers move rapidly into agar blocks and include ACC and compounds with auxin activity.

    PubMed

    Promyou, Surassawadee; Ketsa, Saichol; van Doorn, Wouter G

    2014-11-15

    The early visible effects of pollination in orchids are likely due to pollinia-borne chemicals. In Dendrobium we tested whether such compounds were water soluble and would diffuse in solid-aqueous phase, and determined both 1-aminocyclopropane-1-carboxylic acid (ACC) concentrations and auxin activity. Following pollination, the flower peduncle showed epinastic movement, followed by yellowing of the flower lip, flower senescence and ovary growth. Placing pollinia on agar blocks for 3, 6, 9 or 12h, prior to transferring them to the stigma, increased the time to these early postpollination effects or prevented them. Placing agar blocks that had been used for contact with the pollinia on the stigma also induced the early postpollination effects. The concentrations of ACC, the direct precursor of ethylene, in pollinia was lower the longer the pollinia had been in contact with the agar blocks, whilst the ACC content in the agar blocks increased with the period of contact. The auxin activity of the agar blocks also increased with the time of contact with pollinia. It is concluded that chemicals in the pollinia are responsible for the early visible postpollination effects, and that these (a) rapidly diffuse in aqueous media, and (b) comprise at least ACC and compounds with auxin activity. The idea is discussed that ACC plus auxin is adequate for the production of the early postpollination effects. PMID:25240156

  6. Non-invasive measurements of tissue hemodynamics with hybrid diffuse optical methods

    NASA Astrophysics Data System (ADS)

    Durduran, Turgut

    Diffuse optical techniques were used to measure hemodynamics of tissues non-invasively. Spectroscopy and tomography of the brain, muscle and implanted tumors were carried out in animal models and humans. Two qualitatively different methods, diffuse optical tomography and diffuse correlation tomography, were hybridized permitting simultaneous measurement of total hemoglobin concentration, blood oxygen saturation and blood flow. This combination of information was processed further to derive estimates of oxygen metabolism (e.g. CMRO 2) in tissue. The diffuse correlation measurements of blood flow were demonstrated in human tissues, for the first time, demonstrating continous, non-invasive imaging of oxygen metabolism in large tissue volumes several centimeters below the tissue surface. The bulk of these investigations focussed on cerebral hemodynamics. Extensive validation of this methodology was carried out in in vivo rat brain models. Three dimensional images of deep tissue hemodynamics in middle cerebral artery occlusion and cortical spreading depression (CSD) were obtained. CSD hemodynamics were found to depend strongly on partial pressure of carbon dioxide. The technique was then adapted for measurement of human brain. All optical spectroscopic measurements of CMRO2 during functional activation were obtained through intact human skull non-invasively. Finally, a high spatio-temporal resolution measurement of cerebral blood flow due to somatosensory cortex activation following electrical forepaw stimulation in rats was carried out with laser speckle flowmetry. New analysis methods were introduced for laser speckle flowmetry. In other organs, deep tissue hemodynamics were measured on human calf muscle during exercise and cuff-ischemia and were shown to have some clinical utility for peripheral vascular disease. In mice tumor models, the measured hemodynamics were shown to be predictive of photodynamic therapy efficacy, again suggesting promise of clinical utility. In total, the research has pioneered the development of diffuse optical measurements of blood flow, oxygenation and oxygen metabolism in a large range of research and clinical applications.

  7. Recent work in shape-based methods for diffusive inverse problems

    NASA Astrophysics Data System (ADS)

    Boverman, Gregory; Khames ben Hadj Miled, Mohamed; Miller, Eric L.

    2003-04-01

    We consider geometric inversion methods designed to directly determine information concerning the size, shape, location, and perhaps number of anomalies in a region of interest [E. L. Miller, M. E. Kilmer, and C. M. Rappaport, IEEE Trans. Geosci. Remote Sens. 38, 1682 (2000); O. Dorn, E. L. Miller, and C. Rappaport, Inverse Probl. 16, 1119 (2000)] for diffusive inverse problems arising in medical imaging and environmental remediation. First, a parametric approach to the problem is derived and validated using a diffuse optical tomography sensing example. A second technique to identify boundaries of an unknown number of objects is based on the idea of curve evolution. This approach mathematically "shrink wraps" a deformable surface in 3D or curve in 2D to the boundary of one or more objects. We demonstrate the utility of this method using an electrical resistance tomography sensing example in three dimensions.

  8. A New FRAP/FRAPa Method for Three-Dimensional Diffusion Measurements Based on Multiphoton Excitation Microscopy

    PubMed Central

    Mazza, Davide; Braeckmans, Kevin; Cella, Francesca; Testa, Ilaria; Vercauteren, Dries; Demeester, Jo; De Smedt, Stefaan S.; Diaspro, Alberto

    2008-01-01

    We present a new convenient method for quantitative three-dimensionally resolved diffusion measurements based on the photobleaching (FRAP) or photoactivation (FRAPa) of a disk-shaped area by the scanning laser beam of a multiphoton microscope. Contrary to previously reported spot-photobleaching protocols, this method has the advantage of full scalability of the size of the photobleached area and thus the range of diffusion coefficients, which can be measured conveniently. The method is compatible with low as well as high numerical aperture objective lenses, allowing us to perform quantitative diffusion measurements in three-dimensional extended samples as well as in very small volumes, such as cell nuclei. Furthermore, by photobleaching/photoactivating a large area, diffusion along the optical axis can be measured separately, which is convenient when studying anisotropic diffusion. First, we show the rigorous mathematical derivation of the model, leading to a closed-form formula describing the fluorescence recovery/redistribution phase. Next, the ability of the multiphoton FRAP method to correctly measure absolute diffusion coefficients is tested thoroughly on many test solutions of FITC-dextrans covering a wide range of diffusion coefficients. The same is done for the FRAPa method on a series of photoactivatable green fluorescent protein solutions with different viscosities. Finally, we apply the method to photoactivatable green fluorescent protein diffusing freely in the nucleus of living NIH-3T3 mouse embryo fibroblasts. PMID:18621824

  9. Development and Validation of a Successful Microbiological Agar Assay for Determination of Ceftriaxone Sodium in Powder for Injectable Solution

    PubMed Central

    Aléssio, Patrícia V.; Salgado, Hérida R. N.

    2012-01-01

    Ceftriaxone sodium is a cephalosporin with broad-spectrum antimicrobial activity and belongs to the third generation of cephalosporins. Regarding the quality control of medicines, a validated microbiological assay for the determination of ceftriaxone sodium in powder for injectable solution has not been reported yet. This paper reports the development and validation of a simple, accurate and reproducible agar diffusion method to quantify ceftriaxone sodium in powder for injectable solution. The assay is based on the inhibitory effect of ceftriaxone sodium on the strain of Bacillus subtilis ATCC 9371 IAL 1027 used as test microorganism. The results were treated statistically by analysis of variance and were found to be linear (r = 0.999) in the selected range of 15.0–60.0 ?g/mL, precise with a relative standard deviation (RSD) of repeatability intraday = 1.40%, accurate (100.46%) and robust with a RSD lower than 1.28%. The results demonstrated the validity of the proposed bioassay, which allows reliable ceftriaxone sodium quantitation in pharmaceutical samples and therefore can be used as a useful alternative methodology for the routine quality control of this medicine. PMID:24300294

  10. Calculation of the Effective Emissivities of Specular-Diffuse Cavities by the Monte Carlo Method

    Microsoft Academic Search

    V. I. Sapritsky; A. V. Prokhorov

    1992-01-01

    An algorithm of the Monte Carlo method is described which allows evaluation of the effective emissivities of isothermal and nonisothermal specular-diffuse black-body cavities for use in radiometry, photometry and optical pyrometry. The calculation provides estimates of normal spectral effective emissivity for black-body cavities, formed by cone surfaces and a cylinder. It does this for an isothermal cavity and for a

  11. A Study on the Comparison of Median Filter Regularization Methods in Diffusion Tensor MRI

    Microsoft Academic Search

    Sunghee Kim; Kiwoon Kwon; Insung Park; Bongsu Han; Dongyoun Kim

    2007-01-01

    Diffusion tensor magnetic resonance imaging (DT-MRI) is a method which makes it possible to study non-invasively the architecture of axonal fibers in the central nervous system. Since eigenvectors obtained from DT-MRI usually contain noise, the calculated vector directions may be deviated from the real fiber orientation. Therefore, noise errors can be accumulated as fiber tract becomes longer in tractography of

  12. Discontinuous Hp-Finite Element Methods For Advection-Diffusion Problems

    Microsoft Academic Search

    Paul Houston; Christoph Schwab; Endre Süli

    2000-01-01

    We consider the hp-version of the discontinuous Galerkin finite element methodfor second-order partial differential equations with nonnegative characteristic form. This class ofequations includes second-order elliptic and parabolic equations, first)rder hyperbolic equations, aswell as problems of mixed hyperbolic-elliptic-parabolic type. Our main concern is the error analysisof the method in the absence of streamline-diffusion stabilization. In the hyperbolic case, an hpoptimalerror bound...

  13. New contactless method for thermal diffusivity measurements using modulated photothermal radiometry

    SciTech Connect

    Pham Tu Quoc, S., E-mail: sang.phamtuquoc@cea.fr; Cheymol, G.; Semerok, A. [French Alternative Energies and Atomic Energy Commission, Division of Nuclear Energy, DEN/DANS/DPC/SEARS/LISL, 91191 Gif/Yvette (France)] [French Alternative Energies and Atomic Energy Commission, Division of Nuclear Energy, DEN/DANS/DPC/SEARS/LISL, 91191 Gif/Yvette (France)

    2014-05-15

    Modulated photothermal radiometry is a non-destructive and contactless technique for the characterization of materials. It has two major advantages: a good signal-to-noise ratio through a synchronous detection and a low dependence on the heating power and the optical properties of the sample surface. This paper presents a new method for characterizing the thermal diffusivity of a material when the phase shift between a modulated laser power signal and the thermal signal of a plate sample is known at different frequencies. The method is based on a three-dimensional analytical model which is used to determine the temperature amplitude and the phase in the laser heating of the plate. A new simple formula was developed through multi-parametric analysis to determine the thermal diffusivity of the plate with knowledge of the frequency at the minimum phase shift, the laser beam radius r{sub 0} and the sample thickness L. This method was developed to control the variation of the thermal diffusivity of nuclear components and it was first applied to determine the thermal diffusivity of different metals: 304 L stainless steel, nickel, titanium, tungsten, molybdenum, zinc, and iron. The experimental results were obtained with 5%–10% accuracy and corresponded well with the reference values. The present paper also demonstrates the limit of application of this method for plate with thickness r{sub 0}/100 ? L ? r{sub 0}/2. The technique is deemed interesting for the characterization of barely accessible components that require a contactless measurement.

  14. Direct Cloning of Human Ovarian Carcinoma Cells in Agar1

    Microsoft Academic Search

    Anne W. Hamburger; Sydney E. Salmon; Mary B. Kim; Jeff M. Trent; Barbara J. Soehnlen

    We have recently developed an in vitro assay for human tumor stem cells that permits cloning of human ovarian adenocarcinoma cells in soft agar. Tumor colonies grew from both effusions and biopsies from 85% of 31 ovarian cancer patients. The cloning efficiency did not vary with the histology of the tumor. Growth was induced with medium conditioned by the adherent

  15. Maintenance of Leptospira Species in Leptospira Vanaporn Wuthiekanun Agar

    PubMed Central

    Wuthiekanun, Vanaporn; Amornchai, Premjit; Langla, Sayan; Oyuchua, Malinee; Day, Nicholas P. J.

    2014-01-01

    The maintenance of Leptospira species in liquid or semisolid medium is time-consuming and at risk of contamination due to the needs of routine subculture and dark field microscopy. Using Leptospira Vanaporn Wuthiekanun (LVW) agar, we maintained 100 pathogenic Leptospira isolates for 12 months without the need for subculture and confirmed the viability of all isolates by the naked eye. PMID:25253789

  16. Maintenance of leptospira species in leptospira Vanaporn Wuthiekanun agar.

    PubMed

    Wuthiekanun, Vanaporn; Amornchai, Premjit; Langla, Sayan; Oyuchua, Malinee; Day, Nicholas P J; Limmathurotsakul, Direk

    2014-12-01

    The maintenance of Leptospira species in liquid or semisolid medium is time-consuming and at risk of contamination due to the needs of routine subculture and dark field microscopy. Using Leptospira Vanaporn Wuthiekanun (LVW) agar, we maintained 100 pathogenic Leptospira isolates for 12 months without the need for subculture and confirmed the viability of all isolates by the naked eye. PMID:25253789

  17. Plaque Formation in Agar by Single Antibody-Producing Cells

    Microsoft Academic Search

    Niels K. Jerne; Albert A. Nordin

    1963-01-01

    Distinct plaques, each of which is due to the release of hemolysin by a single antibody-forming cell, are revealed by complement after incubation, in an agar layer, of a mixture of sheep red cells and lymphoid cells from a rabbit immunized with sheep red cells.

  18. Transferring a Bacterial Culture to an Agar Slant

    NSDL National Science Digital Library

    This video from CUNY Kingsborough Community College describes how to transfer a bacterial culture to an agar slant. The brief demonstration is described step by step and would be easy to replicate in a laboratory setting. Running time for the video is 0:34.

  19. Hyperspectral Imaging for Detecting Pathogens Grown on Agar Plates

    Technology Transfer Automated Retrieval System (TEKTRAN)

    This paper is concerned with the development of a hyperspectral imaging technique for detecting and identifying one of the most common foodborne pathogens, Campylobacter. Direct plating using agars is an effective tool for laboratory tests and analyses of microorganisms. The morphology (size, growth...

  20. A hybrid preprocessing method using geometry based diffusion and elective enhancement filtering for pulmonary nodule detection

    NASA Astrophysics Data System (ADS)

    Dhara, Ashis K.; Mukhopadhyay, Sudipta

    2012-03-01

    The computer aided diagnostic (CAD) system has been developed to assist radiologist for early detection and analysis of lung nodules. For pulmonary nodule detection, image preprocessing is required to remove the anatomical structure of lung parenchyma and to enhance the visibility of pulmonary nodules. In this paper a hybrid preprocessing technique using geometry based diffusion and selective enhancement filtering have been proposed. This technique provides a unified preprocessing framework for solid nodule as well as ground glass opacity (GGO) nodules. Geometry based diffusion is applied to smooth the images by preserving the boundary. In order to improve the sensitivity of pulmonary nodule detection, selective enhancement filter is used to highlight blob like structure. But selective enhancement filter sometimes enhances the structures like blood vessel and airways other than nodule and results in large number of false positive. In first step, geometry based diffusion (GBD) is applied for reduction of false positive and in second step, selective enhancement filtering is used for further reduction of false negative. Geometry based diffusion and selective enhancement filtering has been used as preprocessing step separately but their combined effect was not investigated earlier. This hybrid preprocessing approach is suitable for accurate calculation of voxel based features. The proposed method has been validated on one public database named Lung Image Database Consortium (LIDC) containing 50 nodules (30 solid and 20 GGO nodule) from 30 subjects and one private database containing 40 nodules (25 solid and 15 GGO nodule) from 30 subjects.

  1. A Proposal for a Novel Method to Measure the Diffusivity of Species in Slag

    NASA Astrophysics Data System (ADS)

    Muhmood, Luckman; Viswanathan, Nurni Neelakantan; Seetharaman, Seshadri

    2011-04-01

    The rate of reactions involved in steel-refining operations largely depend on the transport of species through the slag or metal phase at steel refining temperatures; the intrinsic reaction rates are expected to be high. Therefore, the study of diffusivity of species in slag is of great importance. The present work proposes a new methodology, in which experiments can be designed to determine the diffusivity of species in liquid slag. In this article, a mathematical description for the methodology is formulated and subsequently solved using numerical methods. This exercise will help in identifying appropriate bounds for experimental parameters for a desired accuracy. The proposed methodology is generic for any species in the liquid slag phase. However, diffusion of sulfur through slag has been illustrated as a case study. The order of magnitude for the diffusion coefficient for sulfur was taken from the classic works of Saito and Kawai, the sulfide capacity and sulfur partition ratio were retrieved from the works of Taniguchi et al., and the slag density was retrieved from earlier experimental results of the present authors. The slag density was obtained from earlier experimental results from the present group. The Henrian activity coefficients were retrieved from literature. Subsequent to the present work, the design of experiments and measurements carried out using the proposed methodology and the results obtained are presented as the second article on this subject.

  2. Accurate numerical schemes based on the lattice Boltzmann methods for multi-dimensional diffusion equations

    NASA Astrophysics Data System (ADS)

    Suga, Shinsuke

    2014-11-01

    We propose accurate explicit numerical schemes based on the lattice Boltzmann (LB) method for multi-dimensional diffusion equations. In LB schemes, the velocity models D2Q9 and D2Q13 are used for two-dimensional equations and D3Q19 and D3Q25 for three-dimensional equations. We introduce free parameters that characterize the weight of the equilibrium distribution functions to reduce numerical errors. Consistency analysis through the fourth-order Chapman-Ensgok expansion of the distribution functions gives an approximate diffusion equation with error terms up to fourth-order. The relaxation parameter and weight parameters are determined so that second-order error terms are eliminated in the approximate equation. Stability analysis shows that we can find a relaxation parameter so that each of the presented schemes is stable for given diffusion coefficients and discretizing parameters. Numerical experiments for the isotropic and anisotropic benchmark problems show that the presented schemes derived from the velocity models D2Q13 and D3Q25 are useful for numerical simulations of practical problems governed by two- and three-dimensional diffusion equations, respectively. In particular, schemes in which the value of the relaxation parameter is set to be 1 demonstrate a fourth-order accuracy under the stability condition.

  3. Grain boundary diffusion in dry quartzites using the dispersed ‘sink’ method: sequestration of diffusant in near-source sink minerals

    NASA Astrophysics Data System (ADS)

    Thomas, J. B.; Gannon, R. S.; Watson, E. B.

    2009-12-01

    An experimental approach to evaluate Fe-Mg interdiffusion along dry grain boundaries consists of two parts: synthesis experiments and diffusion experiments. In synthesis experiments powdered quartz along with components required to form a ‘sink’ mineral were hammered into oxidized Ni sleeves. Experiments were conducted in a piston-cylinder apparatus at elevated P-T conditions to produce quartzites with an equilibrium microstructure containing ~5% of a minor ‘sink’ mineral dispersed throughout the rock. The diffusant, introduced during later diffusion experiments, is incompatible in the dominant mineral of the polycrystalline rock but is highly compatible in the dispersed sink minerals. The most successful efforts so far have focused on synthesizing quartzites that contain fayalite as the ‘sink’ minerals. After synthesis experiments, the rock analog was cut into disks and polished. The polished surfaces of the rock analog were juxtaposed against diffusant sources, and placed back into the piston-cylinder for diffusion experiments. Silicate minerals and MgF2 diffusant sources were use. The juxtaposition of the quartzite containing a dispersed fayalite against an Mg-rich diffusant source caused strong chemical potential gradients to develop. The only pathway for transport from the diffusant source to the sink mineral was along the grain boundaries. Assuming local partitioning and diffusive equilibrium between sink minerals and grain boundaries, the diffusant concentration in the sink minerals will be proportional to the concentration profile of the diffusant in the grain boundaries throughout the bulk sample. The MgO content of the fayalite grains decreases as a function of distance from the quartzite/ MgF2 source interface. The fayalite grains that were within ~10 ?m of the interface reacted to form enstatite and contain the highest MgO contents at ~15 wt.%. Traverses across fayalite grains that are >10 ?m from the source interface have constant MgO concentrations demonstrating that diffusive equilibrium was established between the grain boundary and the sink mineral. The longest experiments from a ‘time series’ do not show significantly greater transport distance, but at any given distance from the interface, the fayalite grains from the longer experiments have higher MgO concentrations. Numerical modeling revealed that the dispersed sink minerals closest to the diffusant source partition the majority of the diffusant from the grain boundary thereby significantly diminishing the concentration of diffusant in the grain boundary on the ‘backside’ of the sink mineral. Due to the strong partitioning and large volume of the sink mineral relative to the grain boundary volume, the sink minerals nearest the source interface effectively sequester the majority of the diffusant so that the longer duration experiments do not have longer transport distances. The numerical simulations produce transport and concentration systematics that are identical to those observed in experiments.

  4. A simple method for finding explicit analytic transition densities of diffusion processes with general diploid selection.

    PubMed

    Song, Yun S; Steinrücken, Matthias

    2012-03-01

    The transition density function of the Wright-Fisher diffusion describes the evolution of population-wide allele frequencies over time. This function has important practical applications in population genetics, but finding an explicit formula under a general diploid selection model has remained a difficult open problem. In this article, we develop a new computational method to tackle this classic problem. Specifically, our method explicitly finds the eigenvalues and eigenfunctions of the diffusion generator associated with the Wright-Fisher diffusion with recurrent mutation and arbitrary diploid selection, thus allowing one to obtain an accurate spectral representation of the transition density function. Simplicity is one of the appealing features of our approach. Although our derivation involves somewhat advanced mathematical concepts, the resulting algorithm is quite simple and efficient, only involving standard linear algebra. Furthermore, unlike previous approaches based on perturbation, which is applicable only when the population-scaled selection coefficient is small, our method is nonperturbative and is valid for a broad range of parameter values. As a by-product of our work, we obtain the rate of convergence to the stationary distribution under mutation-selection balance. PMID:22209899

  5. A deterministic particle method for one-dimensional reaction-diffusion equations

    NASA Technical Reports Server (NTRS)

    Mascagni, Michael

    1995-01-01

    We derive a deterministic particle method for the solution of nonlinear reaction-diffusion equations in one spatial dimension. This deterministic method is an analog of a Monte Carlo method for the solution of these problems that has been previously investigated by the author. The deterministic method leads to the consideration of a system of ordinary differential equations for the positions of suitably defined particles. We then consider the time explicit and implicit methods for this system of ordinary differential equations and we study a Picard and Newton iteration for the solution of the implicit system. Next we solve numerically this system and study the discretization error both analytically and numerically. Numerical computation shows that this deterministic method is automatically adaptive to large gradients in the solution.

  6. Population Analysis of Escherichia coli Isolates with Discordant Resistance Levels by Piperacillin-Tazobactam Broth Microdilution and Agar Dilution Testing

    PubMed Central

    Slaughter, Jen; Creely, David; van Belkum, Alex; Gayral, Jean Pierre; Dunne, William Michael; Zambardi, Gilles; Shortridge, Dee

    2014-01-01

    Population analysis was performed for 42 Escherichia coli isolates to determine whether heterogeneity of resistance was a factor in piperacillin-tazobactam category differences between agar dilution and broth microdilution. Of 20 isolates discordant between methods, 80% were heterogeneous. Of 22 isolates in agreement, 59% were homogeneous. Heterogeneity and homogeneity rates for those in agreement were significantly different from those that were discordant (P value, 0.010). Heterogeneity of resistance expression appears to be an important factor in category differences observed between broth microdilution and agar dilution for piperacillin-tazobactam. PMID:24342642

  7. Co-precipitation with PVP and Agar to Improve Physicomechanical Properties of Ibuprofen

    PubMed Central

    Maghsoodi, Maryam; Kiafar, Farhad

    2013-01-01

    Objective(s) : Ibuprofen is a problematic drug in tableting due to its viscoelastic properties. Additionally its high cohesivity results in low flowability. In this study, co-precipitation of ibuprofen with varying concentration of agar and PVP to optimize properties of Ibuprofen was carried out. Materials and Methods: Co-precipitates of ibuprofen- PVP or agar were prepared by solvent evaporation technique under vacuum condition. Differential scanning calorimetry (DSC), X -ray diffraction of powder (XRDP) and FT-IR spectroscopy were used to investigate the solid state characteristics of the co-precipitates. The dissolution behavior, flowability, particle size and compaction properties of various batches were also studied. Results: Co-precipitation of drug with agar led to a change in habit from needle to plate shape crystals, while drug –PVP co-precipitates had agglomerated structure and consisted of numerous crystals which had been aggregated together. The co-precipitates showed improved flow properties compared with ibuprofen alone. Precipitation of ibuprofen with these additives led to modification in the dissolution of the drug. Agar in 1% w/w improved slightly the dissolution rate of drug while PVP had a negative impact and led to reduction in the dissolution rate of drug to less than that of pure drug. The all obtained co-precipitates exhibited significantly improved tableting behavior compared with drug crystals alone. This may be due to this fact that, the polymer covering the drug particles increases and changes the nature of the surface area available for interparticulate bonds between particles. DSC, XRDP and FT-IR experiments showed that drug particles, in co-precipitates samples, did not undergo polymorphic modifications. Conclusion: The study highlights the influence of polymeric additives on crystallization process leading to modified performance. PMID:24250942

  8. Co-precipitation with PVP and Agar to Improve Physicomechanical Properties of Ibuprofen

    PubMed Central

    Maghsoodi, Maryam; Kiafar, Farhad

    2013-01-01

    Objective(s) : Ibuprofen is a problematic drug in tableting due to its viscoelastic properties. Additionally its high cohesivity results in low flowability. In this study, co-precipitation of ibuprofen with varying concentration of agar and PVP to optimize properties of Ibuprofen was carried out. Materials and Methods: Co-precipitates of ibuprofen- PVP or agar were prepared by solvent evaporation technique under vacuum condition. Differential scanning calorimetry (DSC), X -ray diffraction of powder (XRDP) and FT-IR spectroscopy were used to investigate the solid state characteristics of the co-precipitates. The dissolution behavior, flowability, particle size and compaction properties of various batches were also studied. Results: Co-precipitation of drug with agar led to a change in habit from needle to plate shape crystals, while drug –PVP co-precipitates had agglomerated structure and consisted of numerous crystals which had been aggregated together. The co-precipitates showed improved flow properties compared with ibuprofen alone. Precipitation of ibuprofen with these additives led to modification in the dissolution of the drug. Agar in 1% w/w improved slightly the dissolution rate of drug while PVP had a negative impact and led to reduction in the dissolution rate of drug to less than that of pure drug. The all obtained co-precipitates exhibited significantly improved tableting behavior compared with drug crystals alone. This may be due to this fact that, the polymer covering the drug particles increases and changes the nature of the surface area available for interparticulate bonds between particles. DSC, XRDP and FT-IR experiments showed that drug particles, in co-precipitates samples, did not undergo polymorphic modifications. Conclusion: The study highlights the influence of polymeric additives on crystallization process leading to modified performance. PMID:24250936

  9. Construction of the Jacobian matrix for fluorescence diffuse optical tomography using a perturbation Monte Carlo method

    NASA Astrophysics Data System (ADS)

    Zhang, Xiaofeng

    2012-03-01

    Image formation in fluorescence diffuse optical tomography is critically dependent on construction of the Jacobian matrix. For clinical and preclinical applications, because of the highly heterogeneous characteristics of the medium, Monte Carlo methods are frequently adopted to construct the Jacobian. Conventional adjoint Monte Carlo method typically compute the Jacobian by multiplying the photon density fields radiated from the source at the excitation wavelength and from the detector at the emission wavelength. Nonetheless, this approach assumes that the source and the detector in Green's function are reciprocal, which is invalid in general. This assumption is particularly questionable in small animal imaging, where the mean free path length of photons is typically only one order of magnitude smaller than the representative dimension of the medium. We propose a new method that does not rely on the reciprocity of the source and the detector by tracing photon propagation entirely from the source to the detector. This method relies on the perturbation Monte Carlo theory to account for the differences in optical properties of the medium at the excitation and the emission wavelengths. Compared to the adjoint methods, the proposed method is more valid in reflecting the physical process of photon transport in diffusive media and is more efficient in constructing the Jacobian matrix for densely sampled configurations.

  10. Agar-agar entrapment increases the stability of endo-?-1,4-xylanase for repeated biodegradation of xylan.

    PubMed

    Bibi, Zainab; Shahid, Faiza; Ul Qader, Shah Ali; Aman, Afsheen

    2015-04-01

    Microbial xylanases, specially endo-?-1,4-xylanase catalyzes the hydrolysis of xylan, is considered one of the most significant hydrolases. It has numerous applications but most extensively is utilized in paper and pulp industry as a bio-bleaching agent. Immobilization technique is comprehensively studied with the expectation of modifying and improving enzyme stability and characteristics for commercial purposes. Currently, matrix entrapment technique is applied to immobilize endo-?-1,4-xylanase within agar-agar gel beads produced by Geobacillus stearothermophilus KIBGE-IB29. Maximal enzyme immobilization yield was achieved at 2.5% of agar-agar concentration. Optimized conditions demonstrated an increase in the optimal reaction time from 05min to 30min and incubation temperature from 50°C to 60°C with reference to free enzyme whereas; no effect was observed for optimum pH. Entrapment technique uniquely changed the kinetic parameters of immobilized endo-?-1,4-xylanase (Km: 0.5074mgmin(-1) to 0.5230mgmin(-1) and Vmax: 4773Umin(-1) to 968Umin(-1)) as compared to free enzyme. However, immobilized enzyme displayed broad thermal stability and retained 79.0% of its initial activity at 80°C up to 30min whereas; free enzyme completely lost its activity at this temperature. With respect to economic feasibility, the immobilized enzyme showed impressive recycling efficiency up to six reaction cycles. PMID:25603143

  11. Galerkin finite element method for two-dimensional Riesz space fractional diffusion equations

    NASA Astrophysics Data System (ADS)

    Bu, Weiping; Tang, Yifa; Yang, Jiye

    2014-11-01

    In this article, a class of two-dimensional Riesz space fractional diffusion equations is considered. Some fractional spaces are established and some equivalences between fractional derivative spaces and fractional Sobolev space are presented. By the Galerkin finite element method and backward difference method, a fully discrete scheme is obtained. According to Lax-Milgram theorem, the existence and uniqueness of the solution to the fully discrete scheme are investigated. The stability and convergence of the scheme are also derived. Finally, some numerical examples are given for verification of our theoretical analysis.

  12. Diffusive Plasma Dechucking Method for Wafers to Reduce Falling Dust Particles

    NASA Astrophysics Data System (ADS)

    Jun, Hyun-Su

    2013-06-01

    A plasma dechucking method capable of effectively eliminating dust particles created during the plasma process was developed. Referred to as diffusive plasma dechucking (DPD), the method reduces the plasma potential and includes an argon gas purge to remove dust particles floating on top of the sheath after the main process. Experimental results indicate that DPD reduces the amount of falling dust particles after the process by approximately 50-80%. To analyze these results quantitatively, the Coulomb force and the neutral drag force exerted on the dust particles were considered. In addition, dust particle exhaust conditions were proposed with respect to dust particle size, plasma potential, and spatial electric field.

  13. Numerical methods for one-dimensional reaction-diffusion equations arising in combustion theory

    NASA Technical Reports Server (NTRS)

    Ramos, J. I.

    1987-01-01

    A review of numerical methods for one-dimensional reaction-diffusion equations arising in combustion theory is presented. The methods reviewed include explicit, implicit, quasi-linearization, time linearization, operator-splitting, random walk and finite-element techniques and methods of lines. Adaptive and nonadaptive procedures are also reviewed. These techniques are applied first to solve two model problems which have exact traveling wave solutions with which the numerical results can be compared. This comparison is performed in terms of both the wave profile and computed wave speed. It is shown that the computed wave speed is not a good indicator of the accuracy of a particular method. A fourth-order time-linearized, Hermitian compact operator technique is found to be the most accurate method for a variety of time and space sizes.

  14. An objective method for regularization of fiber orientation distributions derived from diffusion-weighted MRI.

    PubMed

    Sakaie, Ken E; Lowe, Mark J

    2007-01-01

    Spherical deconvolution is an elegant method by which the orientation of crossing fibers in the brain can be estimated from a diffusion-weighted MRI measurement. However, higher resolution of fiber directions comes at the cost of higher susceptibility to noise. In this study, we describe the use of linear regularization of the fiber orientation distribution function by Damped Singular Value Decomposition. Furthermore, the degree of regularization is optimized on a voxel-by-voxel basis with no user interaction using Generalized Cross Validation. We find, by simulations, that regularization can improve the reliability of fiber orientation determination when the signal-to-noise ratio is low. Simulations and in vivo measurements indicate that spurious peaks of the fiber orientation distribution function in regions with low anisotropy largely disappear when regularization is introduced. The methods examined are fast enough to be used on a routine basis with diffusion MRI data sets and may improve estimation of water diffusion properties in heterogeneous white matter and boost reliability of fiber tracking through regions of brain with complex fiber geometry. PMID:17030125

  15. Fixed and pulsed gradient diffusion methods in low-field core analysis.

    PubMed

    Leu, Gabriela; Fordham, Edmund J; Hürlimann, Martin D; Frulla, Phil

    2005-02-01

    We review diffusion-weighted relaxation protocols for two-dimensional diffusion/relaxation time (D, T(2)) distributions and their application to fluid-saturated sedimentary rocks at low fields typical of oil-well logging tools (< or = 2 MHz for 1H). Fixed field gradient (FFG) protocols may be implemented in logging tools and in the laboratory; there, pulsed field gradient (PFG) protocols are also available. In either category, direct or stimulated echoes may be used for the diffusion evolution periods. We compare the results of several variant FFG and PFG protocols obtained on liquids and two contrasting sedimentary rocks. For liquids and rocks of negligible internal gradients (g(int)), results are comparable, as expected, for all the studied protocols. For rocks of strong g(int), protocol-dependent artifacts are seen in the joint (D, T2) distributions, consistent with the effects of the internal fields. For laboratory petrophysics, the PFG methods offer several advantages: (a) significantly improved signal-to-noise ratio and acquisition times for repetitions over many samples; (b) freedom from heteronuclear contamination when fluorinated liquids are used in core holders; and (c) a palette of variants--one comparable with the FFG--for the study of rocks of significant g(int). Given suitable hardware, both PFG and FFG methods can be implemented in the same bench-top apparatus, providing a versatile test bed for application in a petrophysical laboratory. PMID:15833632

  16. Nanoscale simulation of shale transport properties using the lattice Boltzmann method: permeability and diffusivity

    NASA Astrophysics Data System (ADS)

    Chen, Li; Zhang, Lei; Kang, Qinjun; Viswanathan, Hari S.; Yao, Jun; Tao, Wenquan

    2015-01-01

    Porous structures of shales are reconstructed using the markov chain monte carlo (MCMC) method based on scanning electron microscopy (SEM) images of shale samples from Sichuan Basin, China. Characterization analysis of the reconstructed shales is performed, including porosity, pore size distribution, specific surface area and pore connectivity. The lattice Boltzmann method (LBM) is adopted to simulate fluid flow and Knudsen diffusion within the reconstructed shales. Simulation results reveal that the tortuosity of the shales is much higher than that commonly employed in the Bruggeman equation, and such high tortuosity leads to extremely low intrinsic permeability. Correction of the intrinsic permeability is performed based on the dusty gas model (DGM) by considering the contribution of Knudsen diffusion to the total flow flux, resulting in apparent permeability. The correction factor over a range of Knudsen number and pressure is estimated and compared with empirical correlations in the literature. For the wide pressure range investigated, the correction factor is always greater than 1, indicating Knudsen diffusion always plays a role on shale gas transport mechanisms in the reconstructed shales. Specifically, we found that most of the values of correction factor fall in the slip and transition regime, with no Darcy flow regime observed.

  17. New method for the simultaneous determination of diffusion and adsorption of dyes in silica hydrogels.

    PubMed

    Perullini, Mercedes; Jobbágy, Matías; Japas, María Laura; Bilmes, Sara A

    2014-07-01

    The fine tuning of porosity in sol gel based devices makes possible the design of novel applications in which the transport of molecules through the oxide gel plays a crucial role. In this work we develop a new method for the simultaneous analysis of diffusion and adsorption of small diffusing probes, as anionic and cationic dyes, through silica mesoporous hydrogels synthesized by sol-gel. The novelty of the work resides in the simplicity of acquisition of the experimental data (by means of a desk scanner) and further mathematical modeling, which is in line with high throughput screening procedures, enabling rapid and simultaneous determination of relevant diffusion and adsorption parameters. Net mass transport and adsorption properties of the silica based hydrogels were contrasted to dye adsorption isotherms and textural characterization of the wet gels by SAXS, as well as that of the corresponding aerogels determined by Field Emission Scanning Electron Microscopy (FESEM) and N2 adsorption. Thus, the validation of the results with well-established characterization methods demonstrates that our approach is robust enough to give reliable physicochemical information on these systems. PMID:24776668

  18. Nanoscale simulation of shale transport properties using the lattice Boltzmann method: permeability and diffusivity.

    PubMed

    Chen, Li; Zhang, Lei; Kang, Qinjun; Viswanathan, Hari S; Yao, Jun; Tao, Wenquan

    2015-01-01

    Porous structures of shales are reconstructed using the markov chain monte carlo (MCMC) method based on scanning electron microscopy (SEM) images of shale samples from Sichuan Basin, China. Characterization analysis of the reconstructed shales is performed, including porosity, pore size distribution, specific surface area and pore connectivity. The lattice Boltzmann method (LBM) is adopted to simulate fluid flow and Knudsen diffusion within the reconstructed shales. Simulation results reveal that the tortuosity of the shales is much higher than that commonly employed in the Bruggeman equation, and such high tortuosity leads to extremely low intrinsic permeability. Correction of the intrinsic permeability is performed based on the dusty gas model (DGM) by considering the contribution of Knudsen diffusion to the total flow flux, resulting in apparent permeability. The correction factor over a range of Knudsen number and pressure is estimated and compared with empirical correlations in the literature. For the wide pressure range investigated, the correction factor is always greater than 1, indicating Knudsen diffusion always plays a role on shale gas transport mechanisms in the reconstructed shales. Specifically, we found that most of the values of correction factor fall in the slip and transition regime, with no Darcy flow regime observed. PMID:25627247

  19. Nanoscale simulation of shale transport properties using the lattice Boltzmann method: permeability and diffusivity

    PubMed Central

    Chen, Li; Zhang, Lei; Kang, Qinjun; Viswanathan, Hari S.; Yao, Jun; Tao, Wenquan

    2015-01-01

    Porous structures of shales are reconstructed using the markov chain monte carlo (MCMC) method based on scanning electron microscopy (SEM) images of shale samples from Sichuan Basin, China. Characterization analysis of the reconstructed shales is performed, including porosity, pore size distribution, specific surface area and pore connectivity. The lattice Boltzmann method (LBM) is adopted to simulate fluid flow and Knudsen diffusion within the reconstructed shales. Simulation results reveal that the tortuosity of the shales is much higher than that commonly employed in the Bruggeman equation, and such high tortuosity leads to extremely low intrinsic permeability. Correction of the intrinsic permeability is performed based on the dusty gas model (DGM) by considering the contribution of Knudsen diffusion to the total flow flux, resulting in apparent permeability. The correction factor over a range of Knudsen number and pressure is estimated and compared with empirical correlations in the literature. For the wide pressure range investigated, the correction factor is always greater than 1, indicating Knudsen diffusion always plays a role on shale gas transport mechanisms in the reconstructed shales. Specifically, we found that most of the values of correction factor fall in the slip and transition regime, with no Darcy flow regime observed. PMID:25627247

  20. Determination of the absorption of solar radiation by atmospheric aerosols: Application of the diffuse-direct radiation method

    Microsoft Academic Search

    T. A. Cerni

    1978-01-01

    Data were taken and analyzed for a total of seven days at two widely separated sites (Tucson, AZ and Laramie, WY). Certain experimental and theoretical improvements on the diffuse-direct method and its implementation are discussed. Improved radiometer designs are discussed. A new approach to the reduction of diffuse-direct data, which eliminates any dependence on Mie theory for describing the optical

  1. Direct estimation of diffuse gaseous emissions from coal fires: current methods and future directions

    USGS Publications Warehouse

    Engle, Mark A.; Olea, Ricardo A.; O'Keefe, Jennifer M. K.; Hower, James C.; Geboy, Nicholas J.

    2013-01-01

    Coal fires occur in nature spontaneously, contribute to increases in greenhouse gases, and emit atmospheric toxicants. Increasing interest in quantifying coal fire emissions has resulted in the adaptation and development of specialized approaches and adoption of numerical modeling techniques. Overview of these methods for direct estimation of diffuse gas emissions from coal fires is presented in this paper. Here we take advantage of stochastic Gaussian simulation to interpolate CO2 fluxes measured using a dynamic closed chamber at the Ruth Mullins coal fire in Perry County, Kentucky. This approach allows for preparing a map of diffuse gas emissions, one of the two primary ways that gases emanate from coal fires, and establishing the reliability of the study both locally and for the entire fire. Future research directions include continuous and automated sampling to improve quantification of gaseous coal fire emissions.

  2. A balancing domain decomposition method by constraints for advection-diffusion problems

    SciTech Connect

    Tu, Xuemin; Li, Jing

    2008-12-10

    The balancing domain decomposition methods by constraints are extended to solving nonsymmetric, positive definite linear systems resulting from the finite element discretization of advection-diffusion equations. A pre-conditioned GMRES iteration is used to solve a Schur complement system of equations for the subdomain interface variables. In the preconditioning step of each iteration, a partially sub-assembled finite element problem is solved. A convergence rate estimate for the GMRES iteration is established, under the condition that the diameters of subdomains are small enough. It is independent of the number of subdomains and grows only slowly with the subdomain problem size. Numerical experiments for several two-dimensional advection-diffusion problems illustrate the fast convergence of the proposed algorithm.

  3. Calculating diffusion and permeability coefficients with the oscillating forward-reverse method

    NASA Astrophysics Data System (ADS)

    Holland, Bryan W.; Gray, Chris G.; Tomberli, Bruno

    2012-09-01

    The forward-reverse or FR method is an efficient bidirectional work method for determining the potential of mean force w(z) and also supposedly gives in principle the position-dependent diffusion coefficient D(z). Results from a variation called the OFR (oscillating FR) method suggest inconsistencies in the D(z) values when calculated as prescribed by the FR method. A new steering protocol has thus been developed and applied to the OFR method for the accurate determination of D(z) and also provides greater convergence for w(z) in molecular dynamics simulations. The bulk diffusion coefficient for water was found to be (6.03±0.16)×10-5 cm2/s at 350 K with system size dependence within the statistical error bars. Using this steering protocol, D(z) and w(z) for water permeating a dipalmitoylphosphatidylcholine (DPPC) bilayer were determined. The potential of mean force is shown to have a barrier of peak height, wmax/(kBT)=8.4, with a width of about 10 Å on either side from the membrane center. The diffusion constant is shown to be highest in the core region of the membrane [peak value ˜(8.0±0.8)×10-5 cm2/s], lowest in the head-group region [minimum value ˜(2.0±0.3)×10-5 cm2/s], and to tend toward the bulk value as the water molecule leaves the membrane. The permeability coefficient P for H2O in DPPC was determined using the simulated D(z) and w(z) to give values of (0.129±0.075) cm/s at 323 K and (0.141±0.043) cm/s at 350 K. The results show more spatial detail than results presented in previous work while reducing the computational and user effort.

  4. Social diffusion of novel foraging methods in brown capuchin monkeys (Cebus apella).

    PubMed

    Dindo, Marietta; Thierry, Bernard; Whiten, Andrew

    2008-01-22

    It has been reported that wild capuchin monkeys exhibit several group-specific behavioural traditions. By contrast, experiments have found little evidence for the social learning assumed necessary to support such traditions. The present study used a diffusion chain paradigm to investigate whether a novel foraging task could be observationally learned by capuchins (Cebus apella) and then transmitted along a chain of individuals. We used a two-action paradigm to control for independent learning. Either of two methods (lift or slide) could be used to open the door of a foraging apparatus to retrieve food. Two chains were tested (N1=4; N2=5), each beginning with an experimenter-trained model who demonstrated to a partner its group-specific method for opening the foraging apparatus. After the demonstration, if the observer was able to open the apparatus 20 times by either method, then it became the demonstrator for a new subject, thus simulating the spread of a foraging tradition among 'generations' of group members. Each method was transmitted along these respective chains with high fidelity, echoing similar results presently available only for chimpanzees and children. These results provide the first clear evidence for faithful diffusion of alternative foraging methods in monkeys, consistent with claims for capuchin traditions in the wild. PMID:17971322

  5. Fast non-overlapping Schwarz domain decomposition methods for solving the neutron diffusion equation

    SciTech Connect

    Jamelot, Erell [Commissariat à l’Énergie Atomique et aux Énergie Alternatives, CEA Saclay, 91191 Gif-sur-Yvette Cedex (France)] [Commissariat à l’Énergie Atomique et aux Énergie Alternatives, CEA Saclay, 91191 Gif-sur-Yvette Cedex (France); Ciarlet, Patrick, E-mail: patrick.ciarlet@ensta.fr [POEMS Laboratory, CNRS-INRIA-ENSTA UMR 7231, ENSTA ParisTech 32, Boulevard Victor, 75739 Paris Cedex 15 (France)] [POEMS Laboratory, CNRS-INRIA-ENSTA UMR 7231, ENSTA ParisTech 32, Boulevard Victor, 75739 Paris Cedex 15 (France)

    2013-05-15

    Studying numerically the steady state of a nuclear core reactor is expensive, in terms of memory storage and computational time. In order to address both requirements, one can use a domain decomposition method, implemented on a parallel computer. We present here such a method for the mixed neutron diffusion equations, discretized with Raviart–Thomas–Nédélec finite elements. This method is based on the Schwarz iterative algorithm with Robin interface conditions to handle communications. We analyse this method from the continuous point of view to the discrete point of view, and we give some numerical results in a realistic highly heterogeneous 3D configuration. Computations are carried out with the MINOS solver of the APOLLO3® neutronics code.

  6. Finite difference methods for the time fractional diffusion equation on non-uniform meshes

    NASA Astrophysics Data System (ADS)

    Zhang, Ya-nan; Sun, Zhi-zhong; Liao, Hong-lin

    2014-05-01

    Since fractional derivatives are integrals with weakly singular kernel, the discretization on the uniform mesh may lead to poor accuracy. The finite difference approximation of Caputo derivative on non-uniform meshes is investigated in this paper. The method is applied to solve the fractional diffusion equation and a semi-discrete scheme is obtained. The unconditional stability and H1 norm convergence are proved. A fully discrete difference scheme is constructed with space discretization by compact difference method. The error estimates are established for two kinds of nonuniform meshes. Numerical tests are carried out to support the theoretical results and comparing with the method on uniform grid shows the efficiency of our methods. Moreover, a moving local refinement technique is introduced to improve the temporal accuracy of numerical solution.

  7. Self-feeding MUSE: a robust method for high resolution diffusion imaging using interleaved EPI.

    PubMed

    Zhang, Zhe; Huang, Feng; Ma, Xiaodong; Xie, Sheng; Guo, Hua

    2015-01-15

    Single-shot echo planar imaging (EPI) with parallel imaging techniques has been well established as the most popular method for clinical diffusion imaging, due to its fast acquisition and motion insensitivity. However, this approach is limited by the relatively low spatial resolution and image distortion. Interleaved EPI is able to break the limitations but the phase variations among different shots must be considered for artifact suppression. The introduction of multiplexed sensitivity-encoding (MUSE) can address the phase issue using sensitivity encoding (SENSE) for self-navigation of each interleave. However, MUSE has suboptimal results when the number of shots is high. To achieve higher spatial resolution and lower geometric distortion, we introduce two new schemes into the MUSE framework: 1) a self-feeding mechanism is adopted by using prior information regularized SENSE in order to obtain reliable phase estimation; and 2) retrospective motion detection and data rejection strategies are performed to exclude unusable data corrupted by severe pulsatile motions. The proposed method is named self-feeding MUSE (SF-MUSE). Experiments on healthy volunteers demonstrate that this new SF-MUSE approach provides more accurate motion-induced phase estimation and fewer artifacts caused by data corruption when compared with the original MUSE method. SF-MUSE is a robust method for high resolution diffusion imaging and suitable for practical applications with reasonable scan time. PMID:25451470

  8. Nuclemeter: A Reaction-Diffusion Based Method for Quantifying Nucleic Acids Undergoing Enzymatic Amplification

    PubMed Central

    Liu, Changchun; Sadik, Mohamed M.; Mauk, Michael G.; Edelstein, Paul H.; Bushman, Frederic D.; Gross, Robert; Bau, Haim H.

    2014-01-01

    Real-time amplification and quantification of specific nucleic acid sequences plays a major role in medical and biotechnological applications. In the case of infectious diseases, such as HIV, quantification of the pathogen-load in patient specimens is critical to assess disease progression and effectiveness of drug therapy. Typically, nucleic acid quantification requires expensive instruments, such as real-time PCR machines, which are not appropriate for on-site use and for low-resource settings. This paper describes a simple, low-cost, reaction-diffusion based method for end-point quantification of target nucleic acids undergoing enzymatic amplification. The number of target molecules is inferred from the position of the reaction-diffusion front, analogous to reading temperature in a mercury thermometer. The method was tested for HIV viral load monitoring and performed on par with conventional benchtop methods. The proposed method is suitable for nucleic acid quantification at point of care, compatible with multiplexing and high-throughput processing, and can function instrument-free. PMID:25477046

  9. Nuclemeter: a reaction-diffusion based method for quantifying nucleic acids undergoing enzymatic amplification.

    PubMed

    Liu, Changchun; Sadik, Mohamed M; Mauk, Michael G; Edelstein, Paul H; Bushman, Frederic D; Gross, Robert; Bau, Haim H

    2014-01-01

    Real-time amplification and quantification of specific nucleic acid sequences plays a major role in medical and biotechnological applications. In the case of infectious diseases, such as HIV, quantification of the pathogen-load in patient specimens is critical to assess disease progression and effectiveness of drug therapy. Typically, nucleic acid quantification requires expensive instruments, such as real-time PCR machines, which are not appropriate for on-site use and for low-resource settings. This paper describes a simple, low-cost, reaction-diffusion based method for end-point quantification of target nucleic acids undergoing enzymatic amplification. The number of target molecules is inferred from the position of the reaction-diffusion front, analogous to reading temperature in a mercury thermometer. The method was tested for HIV viral load monitoring and performed on par with conventional benchtop methods. The proposed method is suitable for nucleic acid quantification at point of care, compatible with multiplexing and high-throughput processing, and can function instrument-free. PMID:25477046

  10. Localized axial Green's function method for the convection-diffusion equations in arbitrary domains

    NASA Astrophysics Data System (ADS)

    Lee, Wanho; Kim, Do Wan

    2014-10-01

    A localized axial Green's function method (LAGM) is proposed for the convection-diffusion equation. The axial Green's function method (AGM) enables us to calculate the numerical solution of a multi-dimensional problem using only one-dimensional Green's functions for the axially split differential operators. This AGM has been developed not only for the elliptic boundary value problems but also for the steady Stokes flows, however, this paper is concerned with the localization of the AGM. This localization of the method is needed for practical purpose when computing the axial Green's function, specifically for the convection-diffusion equation on a line segment that we call the local axial line. Although our focus is mainly on the convection-dominated cases in arbitrary domains, this method can solve other cases in a unified way. Numerical results show that, despite irregular types of discretization on an arbitrary domain, we can calculate the numerical solutions using the LAGM without loss of accuracy even in cases of large convection. In particular, it is also shown that randomly distributed axial lines are available in our LAGM and complicated domains are not a burden.

  11. Method of diffusive gradients in thin films (DGT) compared with other soil testing methods to predict uranium phytoavailability.

    PubMed

    Vandenhove, H; Antunes, K; Wannijn, J; Duquène, L; Van Hees, M

    2007-02-15

    The measurement of diffusive gradients in thin films (DGT) has been proposed as a surrogate for metal uptake by plants. A small-scale experiment was performed to test the predictive capacity of the DGT method with respect to uranium availability and uptake by ryegrass. Correlation analyses were performed to compare the results obtained with the DGT device with more conventional bioavailability indices - concentration of uranium in pore water or in selective extracts. Six soils with different uranium contamination history and with distinct soil characteristics were used for the availability tests and the uptake experiment. The four uranium bioavailability indices screened were highly correlated, indicating that at least partially comparable uranium pools were assessed. The uranium concentration in the pore water was a better predictor for uranium uptake by ryegrass than amounts of uranium recovered following extraction with 0.11 M CH3COOH or 0.4 M MgCl2, the fractions considered exchangeable according to, respectively, the BCR or NIST standardized sequential extraction methods. The DGT measured concentration, C(DGT), was also highly correlated with plant uptake but the significance level was sensitive to the value of the diffusion coefficient (pH depend or not) used to calculate C(DGT). From the results obtained it could not be concluded that the DGT method would have an additional value in assessing uranium bioavailability. PMID:17241652

  12. A Numerical Method for Pricing Electricity Derivatives for Jump-Diffusion Processes Based on Continuous Time Lattices

    E-print Network

    Albanese, Claudio

    A Numerical Method for Pricing Electricity Derivatives for Jump-Diffusion Processes Based.tompaidis@mccombs.utexas.edu Corresponding author. Tel. 512-4715252, Fax 512-4710587. #12;A Numerical Method for Pricing Electricity method for pricing derivatives on electricity prices. The method is based on approximating the generator

  13. Supersaturation patterns in counter-diffusion crystallisation methods followed by Mach Zehnder interferometry

    NASA Astrophysics Data System (ADS)

    García-Ruiz, J. M.; Novella, M. L.; Otálora, F.

    1999-01-01

    We present experimental observation of the spatio-temporal pattern of supersaturation in counter-diffusion methods. These complex patterns were recorded by dynamical interferometric analysis using a Mach-Zehnder configuration. Tetragonal hen egg white lysozyme crystals were grown inside APCF (advanced protein crystallisation facility) reactors. Salt and protein diffusion profiles were obtained independently by performing duplicated experiments with and without protein in the protein chamber; salt gradients were observed directly while protein concentration profiles are computed from the differences in refractive index between the two experiments. As expected from computer simulations, the time evolution of supersaturation shows a maximum about 45 h after activation (although this value can change as a function of the starting conditions and the geometry of the reactor). Nucleation takes place before this maximum supersaturation is reached. This explains the trend of the growth rate versus time curves for experiments performed within APCF reactors (both on ground and in space) and in capillaries by the gel acupuncture technique. By using very low concentration agarose gel in the protein chamber, sedimentation and buoyancy effects are eliminated so that the effects of gravity on fluid dynamics and hence on the spatio-temporal evolution of supersaturation can be assessed. These results confirm experimentally the predicted behaviour of counter-diffusion systems and support their use in growing large high-quality protein single crystals.

  14. A method to analyze the diffuse gamma-ray emission with the Fermi Large Area Telescope

    SciTech Connect

    Ackermann, Markus; Johannesson, Gueolaugur; Digel, Seth; Moskalenko, Igor V.; Reimer, Olaf [W. W. Hansen Experimental Physics Laboratory, Kavli Institute for Particle Astrophysics and Cosmology, Department of Physics and Stanford Linear Accelerator Center, Stanford University, Stanford, CA 94305 (United States); Porter, Troy [Santa Cruz Institute for Particle Physics, Department of Physics, University of California at Santa Cruz, Santa Cruz, CA 95064 (United States); Strong, Andrew [Max-Planck-Institut fur Extraterrestrische Physik, Giessenbachstrasse, 85748 Garching (Germany)

    2008-12-24

    The Fermi Gamma-Ray Space Telescope with its main instrument the LAT is the most sensitive {gamma}-ray telescope in the energy region between 30 MeV and 100 GeV. One of the prime scientific goals of this mission is the measurement and interpretation of the diffuse Galactic and extragalactic {gamma}-ray emission. While not limited by photon statistics, this analysis presents several challenges: Instrumental response functions, residual background from cosmic rays as well as resolved and unresolved foreground {gamma}-ray sources have to be taken carefully into account in the interpretation of the data. Detailed modeling of the diffuse {gamma}-ray emission is being performed and will form the basis of the investigations. We present the analysis approach to be applied to the Fermi LAT data, namely the modeling of the diffuse emission components and the background contributions, followed by an all-sky maximum-likelihood fitting procedure. We also report on the performance of this method evaluated in tests on simulated Fermi LAT and real EGRET data.

  15. Lattice simulation method to model diffusion and NMR spectra in porous materials

    NASA Astrophysics Data System (ADS)

    Merlet, Céline; Forse, Alexander C.; Griffin, John M.; Frenkel, Daan; Grey, Clare P.

    2015-03-01

    A coarse-grained simulation method to predict nuclear magnetic resonance (NMR) spectra of ions diffusing in porous carbons is proposed. The coarse-grained model uses input from molecular dynamics simulations such as the free-energy profile for ionic adsorption, and density-functional theory calculations are used to predict the NMR chemical shift of the diffusing ions. The approach is used to compute NMR spectra of ions in slit pores with pore widths ranging from 2 to 10 nm. As diffusion inside pores is fast, the NMR spectrum of an ion trapped in a single mesopore will be a sharp peak with a pore size dependent chemical shift. To account for the experimentally observed NMR line shapes, our simulations must model the relatively slow exchange between different pores. We show that the computed NMR line shapes depend on both the pore size distribution and the spatial arrangement of the pores. The technique presented in this work provides a tool to extract information about the spatial distribution of pore sizes from NMR spectra. Such information is difficult to obtain from other characterisation techniques.

  16. Lattice simulation method to model diffusion and NMR spectra in porous materials.

    PubMed

    Merlet, Céline; Forse, Alexander C; Griffin, John M; Frenkel, Daan; Grey, Clare P

    2015-03-01

    A coarse-grained simulation method to predict nuclear magnetic resonance (NMR) spectra of ions diffusing in porous carbons is proposed. The coarse-grained model uses input from molecular dynamics simulations such as the free-energy profile for ionic adsorption, and density-functional theory calculations are used to predict the NMR chemical shift of the diffusing ions. The approach is used to compute NMR spectra of ions in slit pores with pore widths ranging from 2 to 10 nm. As diffusion inside pores is fast, the NMR spectrum of an ion trapped in a single mesopore will be a sharp peak with a pore size dependent chemical shift. To account for the experimentally observed NMR line shapes, our simulations must model the relatively slow exchange between different pores. We show that the computed NMR line shapes depend on both the pore size distribution and the spatial arrangement of the pores. The technique presented in this work provides a tool to extract information about the spatial distribution of pore sizes from NMR spectra. Such information is difficult to obtain from other characterisation techniques. PMID:25747093

  17. Reassembling the Information Technology Innovation Process: An Actor Network Theory Method for Managing the Initiation, Production, and Diffusion of Innovations

    NASA Astrophysics Data System (ADS)

    Zendejas, Gerardo; Chiasson, Mike

    This paper will propose and explore a method to enhance focal actors' abilities to enroll and control the many social and technical components interacting during the initiation, production, and diffusion of innovations. The reassembling and stabilizing of such components is the challenging goal of the focal actors involved in these processes. To address this possibility, a healthcare project involving the initiation, production, and diffusion of an IT-based innovation will be influenced by the researcher, using concepts from actor network theory (ANT), within an action research methodology (ARM). The experiences using this method, and the nature of enrolment and translation during its use, will highlight if and how ANT can provide a problem-solving method to help assemble the social and technical actants involved in the diffusion of an innovation. Finally, the paper will discuss the challenges and benefits of implementing such methods to attain widespread diffusion.

  18. Pulsed photothermal temperature profiling of agar tissue phantoms

    Microsoft Academic Search

    Matija Milani?; Boris Majaron; J. Stuart Nelson

    2007-01-01

    We determine experimentally the accuracy of pulsed photothermal radiometric (PPTR) temperature depth profiling in water-based\\u000a samples. We use custom tissue phantoms composed of agar gel layers separated by very thin absorbing layers. Two configurations\\u000a of the acquisition system are compared, one using the customary spectral band of the InSb radiation detector (3.0–5.5 ?m)\\u000a and the other with a spectrally narrowed acquisition

  19. CCMR: Method Development of Dynamic Mass Diffusion Monte Carlo using Lennard-Jones Clusters

    NSDL National Science Digital Library

    Craig, Helen A.

    2007-08-29

    The Lennard-Jones clusters, clusters of inert particles have a long history of being studied. Many algorithms have been proposed and used with a varying level of success from "basin hopping" [1] to “greedy search” [2]. Despite these achievements, the Lennard-Jones potential continues to be a widely studied model. Not only is it a good test case for new particle structure algorithms, but it is still an interesting model that we can yet learn from. In this project we proposed to study these cluster using a method never before attempted: dynamic mass diffusion Monte Carlo.

  20. Diffuse Infrared Background Experiment (DIRBE) optics module breadboard alignment methods and results

    NASA Technical Reports Server (NTRS)

    Magner, Thomas J.

    1987-01-01

    The Diffuse Infrared Background Experiment (DIRBE) optics module will be assembled at ambient temperature but will operate at liquid helium temperature. The challenging task of ensuring that is possible to maintain alignment through cryogenic cooling and cryogenic vibration has been demonstrated in a DIRBE optics module breadboard program. This paper discusses the configuration of the DIRBE optics module breadboard, ambient temperature optical alignment methods used to assemble the breadboard, and cryogenic testing of the breadboard. The alignment of the optical assembly at ambient temperature, at 77 K, and after a 77 K vibration was within specification.

  1. The Galerkin finite element method for a multi-term time-fractional diffusion equation

    NASA Astrophysics Data System (ADS)

    Jin, Bangti; Lazarov, Raytcho; Liu, Yikan; Zhou, Zhi

    2015-01-01

    We consider the initial/boundary value problem for a diffusion equation involving multiple time-fractional derivatives on a bounded convex polyhedral domain. We analyze a space semidiscrete scheme based on the standard Galerkin finite element method using continuous piecewise linear functions. Nearly optimal error estimates for both cases of initial data and inhomogeneous term are derived, which cover both smooth and nonsmooth data. Further we develop a fully discrete scheme based on a finite difference discretization of the time-fractional derivatives, and discuss its stability and error estimate. Extensive numerical experiments for one- and two-dimensional problems confirm the theoretical convergence rates.

  2. An Ion Diffusion Method for Visualising a Solid-like Water Nanofilm

    PubMed Central

    Wang, Ya; Duan, Zhiguang; Fan, Daidi

    2013-01-01

    A nano-thick solid-like water film on solid surfaces plays an important role in various fields, including biology, materials science, atmospheric chemistry, catalysis and astrophysics. Visualising the water nanofilm has been a challenge due to its dynamic nature and nanoscale thickness. Here we report an ion diffusion method to address this problem using a membrane formed with a BSA-Na2CO3 (BSA, bovine serum albumin) mixture. After a solid-like water nanofilm deposits onto the membrane, Na+ and CO32? ions diffuse into the film to form a solid Na2CO3 phase in its place. Consequently, the morphology of the nanofilm can be visualised by the space filled by the Na2CO3. Using this method, we successfully observed polygon-like, ribbon-like and spot-like nanofilms at 193?K, 253?K and room temperature, respectively. Our method may provide a tool for characterising confined water films ranging from a few nanometres to hundreds of nanometres in thickness. PMID:24336341

  3. Modification of flow and compressibility of corn starch using quasi-emulsion solvent diffusion method

    PubMed Central

    Akhgari, Abbas; Sadeghi, Hasti; Dabbagh, Mohammad Ali

    2014-01-01

    Objective(s): The aim of this study was to improve flowability and compressibility characteristics of starch to use as a suitable excipient in direct compression tabletting. Quasi-emulsion solvent diffusion was used as a crystal modification method. Materials and Methods: Corn starch was dissolved in hydrochloric acid at 80°C and then ethanol as a non-solvent was added with lowering temperature until the formation of a precipitate of modified starch. Flow parameters, particle size and thermal behavior of the treated powders were compared with the native starch. Finally, the 1:1 mixture of naproxen and each excipient was tabletted, and hardness and friability of different tablets were evaluated. Results: Larger and well shaped agglomerates were formed which showed different thermal behavior. Treated starch exhibited suitable flow properties and tablets made by the treated powder had relatively high hardness. Conclusion: It was found that recrystallization of corn starch by quasi emulsion solvent diffusion method could improve its flowability and compressibility characteristics. PMID:25422746

  4. 3D modeling for solving forward model of no-contact fluorescence diffuse optical tomography method

    NASA Astrophysics Data System (ADS)

    Nouizi, F.; Chabrier, R.; Torregrossa, M.; Poulet, P.

    2009-07-01

    This paper presents detailed computational aspects of a new 3D modeling for solving the direct problem in a no-contact time-resolved Fluorescent Diffuse Optical Tomography (FDOT) method that rely on near-infrared scattered and fluorescent photons to image the optical properties and distribution of fluorescent probes in small laboratory animals. An optical scanner allowing performing in-vivo measurements in no-contact scheme was built in our laboratory and is presented. We use the three-dimensional Finite Element Method (FEM) to solve the coupled diffusion equations of excitation and fluorescence photons in highly scattering objects. The computed results allowed yielding photon density maps and the temporal profiles of photons on the surface of the small animal. Our 3D modeling of propagation of photons in the void space between the surface of the object and the detectors allows calculating the quantity of photons reaching the optodes. Simulations were carried-out on two test objects: a resin cylinder and a mouse phantom. The results demonstrate the potential applications of the method to pre-clinical imaging.

  5. Diffused bounce-back condition and refill algorithm for the lattice Boltzmann method

    NASA Astrophysics Data System (ADS)

    Krithivasan, Siddharth; Wahal, Siddhant; Ansumali, Santosh

    2014-03-01

    A solid-fluid boundary condition for the lattice Boltzmann (LB) method, which retains the simplicity of the bounce-back method and leads to positive definite populations similar to the diffusive boundary condition, is presented. As a refill algorithm, it is proposed that quasi-equilibrium distributions be used to model distributions at fluid nodes uncovered due to solid movement. The method is tested for flow past an impulsively started cylinder and demonstrates considerable enhancement in the accuracy of the unsteady force calculation at moderate and high Reynolds numbers. Furthermore, via simulations, we show that momentum exchange procedure used in LB to compute forces is not Galilean invariant. A modified momentum exchange procedure is proposed to reduce the errors due to violation of Galilean invariance.

  6. A comparison between the fission matrix method, the diffusion model and the transport model

    SciTech Connect

    Dehaye, B.; Hugot, F. X.; Diop, C. M. [Commissariat a l'Energie Atomique et aux Energies Alternatives, Direction de l'Energie Nucleaire, Departement de Modelisation des Systemes et Structures, CEA DEN/DM2S, PC 57, F-91191 Gif-sur-Yvette cedex (France)

    2013-07-01

    The fission matrix method may be used to solve the critical eigenvalue problem in a Monte Carlo simulation. This method gives us access to the different eigenvalues and eigenvectors of the transport or fission operator. We propose to compare the results obtained via the fission matrix method with those of the diffusion model, and an approximated transport model. To do so, we choose to analyse the mono-kinetic and continuous energy cases for a Godiva-inspired critical sphere. The first five eigenvalues are computed with TRIPOLI-4{sup R} and compared to the theoretical ones. An extension of the notion of the extrapolation distance is proposed for the modes other than the fundamental one. (authors)

  7. A model of cefoperazone tissue penetration: diffusion coefficient and protein binding.

    PubMed Central

    Meulemans, A

    1992-01-01

    The apparent diffusion coefficient of a bound drug, cefoperazone, was studied. The protein binding of cefoperazone was studied by voltammetry, a technique which permitted instant measurements. The apparent diffusion coefficients were similar in agar and fibrin and lower in rat brain tissue. The influence of protein on the value of the apparent diffusion coefficient was negligible. The hypothesis that only the free drug diffuses was supported. The percentage of binding determined by voltammetry corresponded to the true concentration of drug which diffuses and is much lower than the percentage of binding determined by the ultrafiltration centrifugation method. This discrepancy could be explained by the rate of dissociation of the protein-drug complex. PMID:1605594

  8. A sparse representation based method to classify pulmonary patterns of diffuse lung diseases.

    PubMed

    Zhao, Wei; Xu, Rui; Hirano, Yasushi; Tachibana, Rie; Kido, Shoji

    2015-01-01

    We applied and optimized the sparse representation (SR) approaches in the computer-aided diagnosis (CAD) to classify normal tissues and five kinds of diffuse lung disease (DLD) patterns: consolidation, ground-glass opacity, honeycombing, emphysema, and nodule. By using the K-SVD which is based on the singular value decomposition (SVD) and orthogonal matching pursuit (OMP), it can achieve a satisfied recognition rate, but too much time was spent in the experiment. To reduce the runtime of the method, the K-Means algorithm was substituted for the K-SVD, and the OMP was simplified by searching the desired atoms at one time (OMP1). We proposed three SR based methods for evaluation: SR1 (K-SVD+OMP), SR2 (K-Means+OMP), and SR3 (K-Means+OMP1). 1161 volumes of interest (VOIs) were used to optimize the parameters and train each method, and 1049 VOIs were adopted to evaluate the performances of the methods. The SR based methods were powerful to recognize the DLD patterns (SR1: 96.1%, SR2: 95.6%, SR3: 96.4%) and significantly better than the baseline methods. Furthermore, when the K-Means and OMP1 were applied, the runtime of the SR based methods can be reduced by 98.2% and 55.2%, respectively. Therefore, we thought that the method using the K-Means and OMP1 (SR3) was efficient for the CAD of the DLDs. PMID:25821509

  9. A Sparse Representation Based Method to Classify Pulmonary Patterns of Diffuse Lung Diseases

    PubMed Central

    Xu, Rui; Tachibana, Rie; Kido, Shoji

    2015-01-01

    We applied and optimized the sparse representation (SR) approaches in the computer-aided diagnosis (CAD) to classify normal tissues and five kinds of diffuse lung disease (DLD) patterns: consolidation, ground-glass opacity, honeycombing, emphysema, and nodule. By using the K-SVD which is based on the singular value decomposition (SVD) and orthogonal matching pursuit (OMP), it can achieve a satisfied recognition rate, but too much time was spent in the experiment. To reduce the runtime of the method, the K-Means algorithm was substituted for the K-SVD, and the OMP was simplified by searching the desired atoms at one time (OMP1). We proposed three SR based methods for evaluation: SR1 (K-SVD+OMP), SR2 (K-Means+OMP), and SR3 (K-Means+OMP1). 1161 volumes of interest (VOIs) were used to optimize the parameters and train each method, and 1049 VOIs were adopted to evaluate the performances of the methods. The SR based methods were powerful to recognize the DLD patterns (SR1: 96.1%, SR2: 95.6%, SR3: 96.4%) and significantly better than the baseline methods. Furthermore, when the K-Means and OMP1 were applied, the runtime of the SR based methods can be reduced by 98.2% and 55.2%, respectively. Therefore, we thought that the method using the K-Means and OMP1 (SR3) was efficient for the CAD of the DLDs.

  10. Efficacy of chromocult coliform agar for coliform and Escherichia coil detection in foods.

    PubMed

    Turner, K M; Restaino, L; Frampton, E W

    2000-04-01

    Chromocult coliform agar (CCA) was compared with Petrifilm Escherichia coli count plate (PEC) for identifying coliforms and E. coli in a variety of meat products. Products examined included 45 raw beef samples, 12 sausage emulsion samples, 11 samples of meat-based ready-to-eat appetizers, and 8 pork trimming samples. Coliforms from CCA and PEC were confirmed by gassing in brilliant green lactose broth plus a positive reaction on purple broth agar plus lactose after incubation at 35 degrees C for 48 h. Lauryl sulfate tryptose plus methylumbelliferyl-beta-glucuronide and tryptophan broth were used to confirm E. coli from CCA and PEC with 48-h incubations at 35 and 42.5 degrees C, respectively. API 20E test strips were inoculated for final confirmation. The overall respective confirmation percentages (CFU/g) for the PEC and the CCA methods were 93.1 and 93.7% for coliforms and 99.8 and 98.1% for E. coli, although the CCA method yielded significantly (P < 0.001) higher mean CFU/g values for both coliforms and E. coli. Regression analyses of these data indicated a strong positive linear relationship existed between the two methods over a wide CFU/g range for both coliforms and E. coli. The respective correlation coefficients obtained for coliforms and E. coli of 0.89 and 0.86 indicate that the CCA method provides a reliable optional method for these determinations in meat products. PMID:10772222

  11. A new method for apportionnement of diffuse nutrient sources of surface water contamination

    NASA Astrophysics Data System (ADS)

    Groenendijk, Piet; Mulder, Martin; Van Boekel, Erwin; Van der Bolt, Frank; Hendriks, Rob; Renaud, Leo

    2014-05-01

    Surface water quality has improved slightly in many regions of the Netherlands during the last decades, due to a reduction of the nutrient loads from point sources, but in most areas the concentrations do not meet the targets to comply with the objectives of the Water Framework Directive. Leaching from agricultural soils is currently the largest source. Quantitative insight into the contribution of the various land management related sources is necessary to discuss the responsibility of different authorities to further improve the quality. Such an understanding is also needed to assess the effects of mitigation measures. The STONE model was developed in 1998- 2000 aiming at the assessment of the effectiveness of Dutch policy measures to reduce nutrient loads to groundwater and surface waters from agricultural land. The process oriented model simulates the carbon, nitrogen and phosphorus cycles in soil and is capable to calculate N and P fluxes to surface waters. Due to the nature of the interdependent soil transformation processes, straight forward model runs don't yield in the relative contribution of the use of fertilizers and other diffuse sources to the total diffuse loads to surface waters. A new method was developed to reveal the relative contribution to surface water contamination of resp. the actual fertilization practise, the historical fertilizer excesses, the atmospheric deposition rates, the inputs by upward seeping water flow, the inputs by infiltrated surface water during summer time in polders and the natural soil release. The method is based on a linear proxy model of the STONE model. The coefficients were derived from the results of a sensitivity analysis. At the national level, the diffuse nitrogen and phosphorus load on surface waters due to the actual fertilization practise amounts to resp. 64% and 48% of the total diffuse loads from agricultural land. Deposition, the input by upward seeping water and the input by infiltrated surface water in polders amounts to less than 5% each. The release from soils, including the effect of historical nutrient surpluses, amounts to resp. 27% and 45% of nitrogen and phosphorus load from agricultural land. The method allows for a further distinction in the relative source contributions per land use, soil type and groundwater regime class. Although agriculture is one of the main contributors to surface water contamination, diminishing manure and fertilizer inputs will not result to a short time contamination reduction due to the long memory of the soil.

  12. Evaluation of centrifugal methods for measuring xylem cavitation in conifers, diffuse- and ring-porous angiosperms.

    PubMed

    Li, Yangyang; Sperry, John S; Taneda, Haruhiko; Bush, Susan E; Hacke, Uwe G

    2008-01-01

    A centrifugal method is used to measure 'vulnerability curves' which show the loss of hydraulic conductivity in xylem by cavitation. Until recently, conductivity was measured between bouts of centrifugation using a gravity-induced head. Now, conductivity can be measured during centrifugation. This 'spin' method is faster than the 'gravity' technique, but correspondence between the two has not been evaluated. The two methods were compared on the same stem segments for two conifer, four diffuse-porous, and four ring-porous species. Only 17 of 60 conductivity measurements differed, with differences in the order of 10%. When different, the spin method gave higher conductivities at the beginning of the curve and lower at the end. Pressure at 50% loss of conductivity, and mean cavitation pressure, were the same in 14 of 20 comparisons. When different, the spin method averaged 0.32 MPa less negative. Ring-porous species showed a precipitous initial drop in conductivity by both techniques. This striking pattern was confirmed by the air-injection method and native embolism measurements. Close correspondence inspires confidence in both methods, each of which has unique advantages. The observation that ring-porous species operate at only a fraction of their potential conductivity at midday demands further study. PMID:18028295

  13. A rapid technique for detection of resistance to chloramphenicol in Streptococcuspneumoniae and comparison with minimum inhibitory concentration and disk-diff usion methods

    Microsoft Academic Search

    C. W. WALKER; D. F. J. BROWN

    1990-01-01

    Summary. Fifty-two strains of Streptococcuspneumoniae were examined for production of chloramphenicol acetyltransferase (CAT) by a rapid technique based upon induction of enzyme activity and chemical assay. This method was compared with one measuring the minimum inhibitory concentration (MIC) by agar dilution and a diffusion test with disks containing 10 pg, 30 pg and 50 pg of chloramphenicol. The MIC for

  14. Characterization of biogenic iron oxides collected by the newly designed liquid culture method using diffusion chambers.

    PubMed

    Kikuchi, S; Makita, H; Takai, K; Yamaguchi, N; Takahashi, Y

    2014-03-01

    We designed a new culture method for neutrophilic iron-oxidizing bacteria using liquid medium (i) to study the formation and mineralogical characteristics of biogenic iron oxides (BIOS) and (ii) to apply BIOS to various scientific and engineering applications. An iron-oxidizing bacterium, Mariprofundus ferrooxydans PV-1(T) (ATCC, BAA-1020), was cultured using a set of diffusion chambers to prepare a broad anoxic-oxic interface, upon which BIOS formation is typically observed in natural environments. Iron oxide precipitates were generated in parallel with bacterial growth. A scanning electron microscopy analysis indicated that the morphological features of the iron oxide precipitates in the medium (in vitro BIOS) were similar to those of BIOS collected from natural deep-sea hydrothermal environments in the Northwest Eifuku Seamount field in the northern Mariana Arc (in situ BIOS). Further chemical speciation of both the in vitro and in situ BIOS was examined with X-ray absorption fine structure (XAFS). A bulk XAFS analysis showed that the minerals in both BIOS were mainly ferrihydrite and oligomeric stages of amorphous iron oxyhydroxides with edge-sharing octahedral linkages. The amount of in vitro BIOS produced with the diffusion-chamber method was greater than those produced previously with other culture methods, such as gel-stabilized gradient and batch liquid culture methods. The larger yields of BIOS produced with the new culture method will allow us to clarify in the future the mineralization mechanisms during bacterial growth and to examine the physicochemical properties of BIOS, such as their adsorption to and coprecipitation with various elements and substances. PMID:24382149

  15. A method to study interface diffusion of arsenic into a Nb-Ti microalloyed low carbon steel

    NASA Astrophysics Data System (ADS)

    Zhu, Yuan-zhi; Xu, Jian-ping

    2012-09-01

    A novel diffusion couple method was used to investigate the interface diffusion of arsenic into a Nb-Ti microalloyed low carbon steel and its effects on phase transformation at the interface. It is discovered that the content of arsenic has great effect on grain growth and phase transformation at high temperature. When the arsenic content is no more than 1wt%, there is no obvious grain growth and no obvious ferrite transitional region formed at the diffusion interface. However, when the arsenic content is no less than 5wt%, the grain grows very rapidly. In addition, the arsenic-enriched ferrite transitional layer forms at the diffusion interface in the hot-rolling process, which results from a slower diffusion rate of arsenic atoms than that of carbon in ferrite.

  16. Method and apparatus for determining minority carrier diffusion length in semiconductors

    SciTech Connect

    Moore, A.R.

    1984-02-21

    Method and apparatus are provided for determining the diffusion length of minority carriers in semiconductor material, particularly amorphous silicon, which has a significantly small minority carrier diffusion length using the constant magnitude surface-photovoltage (SPV) method. Steady or modulated illumination at several wavelengths provides the light excitation on the surface of the material to generate the SPV. A manually controlled or automatic servo system maintains a constant predetermined value of the SPB for each wavelength. A probe electrode immersed in an electrolyte solution containing redox couples (preferably quinhydrone) having an oxidation-reduction potential (E) in the order of +0.6 to -1.65 volts couples the SPV to a measurement system. The redox couple solution functions to create a liquid Schottky barrier at the surface of the material. The Schottky barrier is contacted by merely placing the probe in the solution. The redox solution is placed over and in contact with the material to be tested and light is passed through the solution to generate the SPV. To compensate for colored redox solutions a portion of the redox solution not over the material is also illuminated for determining the color compensated light intensity. Steady red light is also used as an optical bias to reduce deleterious space-charge effects that occur in amorphous silicon.

  17. Method and apparatus for determining minority carrier diffusion length in semiconductors

    SciTech Connect

    Moore, A.R.

    1984-06-12

    Method and apparatus are provided for determining the diffusion length of minority carriers in semiconductor material, particularly amorphous silicon which has a significantly small minority carrier diffusion length using the constant magnitude surface-photovoltage (SPV) method. Steady or modulated illumination at several wavelengths provides the light excitation on the surface of the material to generate the SPV. A manually controlled or automatic servo system maintains a constant predetermined value of the SPV for each wavelength. A drop of a transparent electrolyte solution containing redox couples (preferably quinhydrone) having an oxidation-reduction potential (E) in the order of +0.6 to -1.65 volts couples the SPV to a measurement system. The drop of redox couple solution functions to create a liquid Schottky barrier at the surface of the material. Illumination light is passed through a transparent rod supported over the surface and through the drop of transparent electrolyte. The drop is held in the gap between the rod and the surface. Steady red light is also used as an optical bias to reduce deleterious space-charge effects that occur in amorphous silicon.

  18. Flood routing based on diffusion wave equation using mixing cell method

    NASA Astrophysics Data System (ADS)

    Singh, V. P.; Wang, Guang-Te; Adrian, D. D.

    1997-11-01

    A one-dimensional non-linear diffusion wave equation is derived from the Saint Venant equations with neglect of the inertia terms. This non-linear equation has no general analytical solution. Numerical schemes are therefore employed to discretize the space and time axes and convert the differential equation to difference form. In this study, the mixing cell method is used to convert the diffusion wave equation to difference form, in which the difference term can be eliminated by selecting an optimal space step size x when time step size t is given. When the time step size t0, the space step size x=Q/(2S0BC]k) where Q is discharge, S0 is bed slope, B is channel width and methods produce hydrographs that are in agreement with the observed flood hydrographs.

  19. TOPICAL REVIEW: Applications of field-theoretic renormalization group methods to reaction diffusion problems

    NASA Astrophysics Data System (ADS)

    Täuber, Uwe C.; Howard, Martin; Vollmayr-Lee, Benjamin P.

    2005-04-01

    We review the application of field-theoretic renormalization group (RG) methods to the study of fluctuations in reaction-diffusion problems. We first investigate the physical origin of universality in these systems, before comparing RG methods to other available analytic techniques, including exact solutions and Smoluchowski-type approximations. Starting from the microscopic reaction-diffusion master equation, we then pedagogically detail the mapping to a field theory for the single-species reaction kA ? ellA(ell < k). We employ this particularly simple but non-trivial system to introduce the field-theoretic RG tools, including the diagrammatic perturbation expansion, renormalization and Callan-Symanzik RG flow equation. We demonstrate how these techniques permit the calculation of universal quantities such as density decay exponents and amplitudes via perturbative epsi = dc - d expansions with respect to the upper critical dimension dc. With these basics established, we then provide an overview of more sophisticated applications to multiple species reactions, disorder effects, Lévy flights, persistence problems and the influence of spatial boundaries. We also analyse field-theoretic approaches to non-equilibrium phase transitions separating active from absorbing states. We focus particularly on the generic directed percolation universality class, as well as on the most prominent exception to this class: even-offspring branching and annihilating random walks. Finally, we summarize the state of the field and present our perspective on outstanding problems for the future.

  20. Method and apparatus for determining minority carrier diffusion length in semiconductors

    DOEpatents

    Moore, Arnold R. (Princeton, NJ)

    1984-02-21

    Method and apparatus are provided for determining the diffusion length of minority carriers in semiconductor material, particularly amorphous silicon, which has a significantly small minority carrier diffusion length using the constant magnitude surface-photovoltage (SPV) method. Steady or modulated illumination at several wavelengths provides the light excitation on the surface of the material to generate the SPV. A manually controlled or automatic servo system maintains a constant predetermined value of the SPV for each wavelength. A probe electrode immersed in an electrolyte solution containing redox couples (preferably quinhydrone) having an oxidation-reduction potential (E) in the order of +0.6 to -1.65 volts couples the SPV to a measurement system. The redox couple solution functions to create a liquid Schottky barrier at the surface of the material. The Schottky barrier is contacted by merely placing the probe in the solution. The redox solution is placed over and in contact with the material to be tested and light is passed through the solution to generate the SPV. To compensate for colored redox solutions a portion of the redox solution not over the material is also illuminated for determining the color compensated light intensity. Steady red light is also used as an optical bias to reduce deleterious space-charge effects that occur in amorphous silicon.

  1. Method and apparatus for determining minority carrier diffusion length in semiconductors

    DOEpatents

    Moore, Arnold R. (Princeton, NJ)

    1984-01-01

    Method and apparatus are provided for determining the diffusion length of minority carriers in semiconductor material, particularly amorphous silicon which has a significantly small minority carrier diffusion length using the constant magnitude surface-photovoltage (SPV) method. Steady or modulated illumination at several wavelengths provides the light excitation on the surface of the material to generate the SPV. A manually controlled or automatic servo system maintains a constant predetermined value of the SPV for each wavelength. A drop of a transparent electrolyte solution containing redox couples (preferably quinhydrone) having an oxidation-reduction potential (E) in the order of +0.6 to -1.65 volts couples the SPV to a measurement system. The drop of redox couple solution functions to create a liquid Schottky barrier at the surface of the material. Illumination light is passed through a transparent rod supported over the surface and through the drop of transparent electrolyte. The drop is held in the gap between the rod and the surface. Steady red light is also used as an optical bias to reduce deleterious space-charge effects that occur in amorphous silicon.

  2. Numerical Modeling of Deep Mantle Convection: Advection and Diffusion Schemes for Marker Methods

    NASA Astrophysics Data System (ADS)

    Mulyukova, Elvira; Dabrowski, Marcin; Steinberger, Bernhard

    2013-04-01

    Thermal and chemical evolution of Earth's deep mantle can be studied by modeling vigorous convection in a chemically heterogeneous fluid. Numerical modeling of such a system poses several computational challenges. Dominance of heat advection over the diffusive heat transport, and a negligible amount of chemical diffusion results in sharp gradients of thermal and chemical fields. The exponential dependence of the viscosity of mantle materials on temperature also leads to high gradients of the velocity field. The accuracy of many numerical advection schemes degrades quickly with increasing gradient of the solution, while the computational effort, in terms of the scheme complexity and required resolution, grows. Additional numerical challenges arise due to a large range of length-scales characteristic of a thermochemical convection system with highly variable viscosity. To examplify, the thickness of the stem of a rising thermal plume may be a few percent of the mantle thickness. An even thinner filament of an anomalous material that is entrained by that plume may consitute less than a tenth of a percent of the mantle thickness. We have developed a two-dimensional FEM code to model thermochemical convection in a hollow cylinder domain, with a depth- and temperature-dependent viscosity representative of the mantle (Steinberger and Calderwood, 2006). We use marker-in-cell method for advection of chemical and thermal fields. The main advantage of perfoming advection using markers is absence of numerical diffusion during the advection step, as opposed to the more diffusive field-methods. However, in the common implementation of the marker-methods, the solution of the momentum and energy equations takes place on a computational grid, and nodes do not generally coincide with the positions of the markers. Transferring velocity-, temperature-, and chemistry- information between nodes and markers introduces errors inherent to inter- and extrapolation. In the numerical scheme that we use for this study, the velocity field is discretised using second order triangular elements, which gives second order accuracy of interpolation from grid-nodes to markers. A fourth order Runge-Kutta solver is used to compute marker-trajectories. We reevaluate the velocity field for each of the intermediate steps of the ODE-solver, rendering our advection scheme to be fourth-order accurate in time. We compare two different approaches for performing the thermal diffusion step. In the first, more conventional approach, the energy equation is solved on a static grid. For this grid, we use first-order triangular elements and a higher resolution than for the velocity-grid, to compensate for the lower order elements. The temperature field is transferred between grid-nodes and markers, and a subgrid diffusion correction step (Gerya and Yuen, 2003) is included to account for the different spatial resolutions of the markers and the grid. In the second approach, the energy equation is solved directly on markers. To do this, we compute a constrained Delaunay triangulation, with markers as nodes, at every time step. We wish to resolve the large range of spatial scales of the solution at lowest possible computational cost. In several existing codes this is achieved with dynamically adaptive meshes, which use high resolution in regions with high solution gradients, and vice versa. The numerical scheme used in this study can be extended to include a similar feature, by regenerating the thermal and mechanical grids in the course of computation, adapting them to the temperature and chemistry fields carried by the markers. We present the results of thermochemical convection simulations obtained using the schemes outlined above, as well as the results of the numerical benchmarks commonly used in the geodynamics community. The quality of the solutions, as well as the computational cost of our schemes, are discussed.

  3. Application of a Particle Method to the Advection-Diffusion-Reaction Equation

    NASA Astrophysics Data System (ADS)

    Paster, A.; Bolster, D.; Benson, D. A.

    2012-12-01

    A reaction between two chemical species can only happen if molecules collide and react. Thus, the mixing of a system can become a limiting factor in the onset of reaction. Solving for reaction rate in a well-mixed system is typically a straightforward task. However, when incomplete mixing kicks in, obtaining a solution becomes more challenging. Since reaction can only happen in regions where both reactants co-exist, the incomplete mixing may slow down the reaction rate, when compared to a well-mixed system. The effect of incomplete mixing upon reaction is a highly important aspect of various processes in natural and engineered systems, ranging from mineral precipitation in geological formations to groundwater remediation in aquifers. We study a relatively simple system with a bi-molecular irreversible kinetic reaction A+B ? Ø where the underlying transport of reactants is governed by an advection-diffusion equation, and the initial concentrations are given in terms of an average and a perturbation. Such a system does not have an analytical solution to date, even for the zero advection case. We model the system by a Monte Carlo particle tracking method, where particles represent some reactant mass. In this method, diffusion is modeled by a random walk of the particles, and reaction is modeled by annihilation of particles. The probability of the annihilation is proportional to the reaction rate constant and the probability density associated with particle co-location. We study the numerical method in depth, characterizing typical numerical errors and time step restrictions. In particular, we show that the numerical method converges to the advection-diffusion-reaction equation at the limit ?t ?0. We also rigorously derive the relationship between the initial number of particles in the system and the initial concentrations perturbations represented by that number. We then use the particle simulations of zero-advection system to demonstrate the well-known phenomena of incomplete mixing (Ovchinnikov-Zeldovich segregation). The numerical results of the particle-tracking simulations are compared to an approximate analytical solution and the late time discrepancy is explained. We also study, for a two dimensional system, how shear flow effects the reaction rate. We do so since shear flow is the simplest form of a spatially variable advection. For the shear flow system, we find that shear flow leads to better mixing of the system on one hand, and a surprising one dimensional segregation at late times, on the other hand. This is in contrast with zero-advection two-dimensional system, where the late time behavior is characterized by the formation of two-dimensional islands. References (Manuscripts in submission): Paster A., D. Bolster and D.A. Benson. Connecting the dots: application of a particle method to the diffusion-reaction equation. Submitted to Advances in Water Resources. Paster A., D. Bolster and D.A. Benson. Particle Tracking and the Diffusion-Reaction Equation. Submitted to Water Resources Research.

  4. Choline chloride based ionic liquid analogues as tool for the fabrication of agar films with improved mechanical properties.

    PubMed

    Sousa, Ana M M; Souza, Hiléia K S; Latona, Nicholas; Liu, Cheng-Kung; Gonçalves, Maria P; Liu, LinShu

    2014-10-13

    In the present paper, we test the suitability of ChCl/urea (DES-U) and ChCl/glycerol (DES-G) eutectic mixtures, each one prepared at 1:2 molar ratio, for the production of agar films. A three-step process is proposed: pre-solubilization of polymer in DES followed by compression-molding and subsequent drying. The mechanical properties, water resistance and microstructure of the films were evaluated at different polymer concentrations (i.e. 2-6%, w/w). DES-U showed by far, the best film forming ability. Agreeing with the diffusion and SEM data, films with the best mechanical properties were found at the lowest and highest agar concentrations (tensile strengths of 24.2-42 MPa and elongations of 15.4-38.9%). The water sorption and contact angle studies suggested increased hydrophilicity for the film containing the lowest concentration of agar. The use of choline chloride based ionic liquid analogues as solvent and plasticizer might be a promising tool for the development of new non-aqueous materials based on seaweed polysaccharides. PMID:25037344

  5. Measurement of the thermal diffusivity of thin films on substrate by the photoacoustic method

    SciTech Connect

    Akabori, M.; Nagasaka, Y.; Nagashima, A. (Keio Univ., Yokohama (Japan))

    1992-05-01

    Measurements of the thermal diffusivity of thin films on substrate have been performed by the photoacoustic method. In order to examine the method the authors have built a new apparatus and proposed (1) a system calibration procedure using optically and thermally thick reference samples and (2) a data analysis procedure based on the RG (Rosencwaig and Gersho) theory. As a result of using a transparent photoacoustic cell, the systematic errors which are caused by stray light have been reduced. With this apparatus, measurements have been performed on platinum, titanium, and stainless steel (SUS304) thin foils (thickness form 50 to 100 [mu]m) with three different liquid backing materials (water, glycerol, and ethyl alcohol). The reproducibility was within [+-]7% regardless of film thickness and substrate materials. 27 refs., 9 figs., 2 tabs.

  6. Reprint of Domain decomposition multigrid methods for nonlinear reaction-diffusion problems

    NASA Astrophysics Data System (ADS)

    Arrarás, A.; Gaspar, F. J.; Portero, L.; Rodrigo, C.

    2015-04-01

    In this work, we propose efficient discretizations for nonlinear evolutionary reaction-diffusion problems on general two-dimensional domains. The spatial domain is discretized through an unstructured coarse triangulation, which is subsequently refined via regular triangular grids. Following the method of lines approach, we first consider a finite element spatial discretization, and then use a linearly implicit splitting time integrator related to a suitable decomposition of the triangulation nodes. Such a procedure provides a linear system per internal stage. The equations corresponding to those nodes lying strictly inside the elements of the coarse triangulation can be decoupled and solved in parallel using geometric multigrid techniques. The method is unconditionally stable and computationally efficient, since it avoids the need for Schwarz-type iteration procedures. In addition, it is formulated for triangular elements, thus yielding much flexibility in the discretization of complex geometries. To illustrate its practical utility, the algorithm is shown to reproduce the pattern-forming dynamics of the Schnakenberg model.

  7. Lattice Boltzmann methods for some 2-D nonlinear diffusion equations:Computational results

    SciTech Connect

    Elton, B.H.; Rodrigue, G.H. (California Univ., Davis, CA (USA). Dept. of Applied Science Lawrence Livermore National Lab., CA (USA)); Levermore, C.D. (Arizona Univ., Tucson, AZ (USA). Dept. of Mathematics)

    1990-01-01

    In this paper we examine two lattice Boltzmann methods (that are a derivative of lattice gas methods) for computing solutions to two two-dimensional nonlinear diffusion equations of the form {partial derivative}/{partial derivative}t u = v ({partial derivative}/{partial derivative}x D(u){partial derivative}/{partial derivative}x u + {partial derivative}/{partial derivative}y D(u){partial derivative}/{partial derivative}y u), where u = u({rvec x},t), {rvec x} {element of} R{sup 2}, v is a constant, and D(u) is a nonlinear term that arises from a Chapman-Enskog asymptotic expansion. In particular, we provide computational evidence supporting recent results showing that the methods are second order convergent (in the L{sub 1}-norm), conservative, conditionally monotone finite difference methods. Solutions computed via the lattice Boltzmann methods are compared with those computed by other explicit, second order, conservative, monotone finite difference methods. Results are reported for both the L{sub 1}- and L{sub {infinity}}-norms.

  8. CCMR: Sisal Fiber Reinforced Green Composite Using Soy Flour Resin Modified With Sorbitol, Agar and NB416 Microfibers

    NSDL National Science Digital Library

    Khalsa, Amrit

    2009-08-15

    Fully biodegradable green composites were prepared using natural sisal fiber and soy flour (SF) resin modified with sorbitol, agar, and NB416 microfiber. The SF resin modified with agar and NB416 microfibers had a higher Tensile Stress and Young’s Modulus, 8.73 + 0.60 MPa, 232.61 + 25.44 MPa, and 12.15 + 1.53 MPa, 327.87 + 27.62 respectively, compared to the Tensile Stress and Young’s Modulus of the sorbitol modified SF resin. The composites fabricated with sorbitol modified SF resin showed the highest Tensile Stress of 141.45 + 16.72 MPa which was significantly greater than the Tensile Stress of the pure SF resin. Problems arose in preparing the composites with the resins modified with agar and NB416. The method for coating the fibers with the more viscous resin solutions was not an adequate way to prepare the composite. The mechanical properties of the SF resins modified with agar and NB416 microfibers suggests that if the resin was equally dispersed in the composites then the composite properties would be very high. These composites are very useful in replacing some of the petroleum based composites in use today and reducing the amount of plastics in the landfills.

  9. How do microorganisms influence trace element uptake by plants? Screening in an agar model rhizosphere.

    NASA Astrophysics Data System (ADS)

    Marchetti, M.; Robinson, B. H.; Evangelou, M. W. H.; Vachey, A.; Schwitzguebel, J. P.; Bernier-Latmani, R.; Schulin, R.

    2009-04-01

    Trace elements (TE) are essential for humans and plants, but they may be toxic if their concentration is too high. For this reason, the management of TE in soils is very important. In some cases it may be necessary to increase the uptake of nutrients or TE by plants, for example in a biofortification perspective. Conversely, in some other cases TE uptake by plants should be decreased, for instance to avoid heavy metals entering the food chain via edible crops. Microorganisms living in the rhizosphere affect trace element (TE) uptake by plants. However, due to the complexity of this space and the variety of microorganisms that occur there, it is difficult to isolate the effect of any particular strain. To overcome this hurdle, we developed a system in which we grew plants under sterile conditions in agar and inoculated their rhizosphere with a single, well-defined microbial strain. For many years, agar has been used as a growth substrate for microorganisms and plant tissues. It is cheap, easy to use, and can be autoclaved to ensure its sterility. Because of its widespread use, an experiment conducted using this substrate can be reproduced under the same conditions in any laboratory. In contrast to soil, there is little interaction between the trace elements and the agar matrix. There are many studies investigating the influence of microorganisms on TE uptake by plants. However, so far only a small variety of microorganisms has been tested on few plant species. Therefore, the first objective of our research was to develop a method to rapidly screen a large variety of microorganisms on various plant species. Once this goal was achieved, we sought to study the effect of single, well-defined microbial strains on TE uptake by sunflower and wheat. The substrate for plants growth was a 10% agar solution prepared with modified Hoagland's solution and a TE solution containing 1 mg/kg Pb and molar equivalents of Cu, Ni and Zn. The agar solution was autoclaved and poured into sterile, transparent plastic boxes, whose lid was equipped with a filter allowing gas exchanges without contamination by external microorganisms. The seed surface was sterilised and the plants grew one week in agar before their rhizosphere was inoculated with LB broth containing a pure bacterial strain or agar plugs colonized by fungal hyphae. We tested 14 strains, with 5 replicates per treatment and a control where the system was inoculated with sterile LB broth. The plants grew for 2 weeks in a climate chamber and their shoots were analysed for their TEs by ICP-OES. Samples of agar and roots were collected to confirm microbial colonization of the rhizosphere, respectively sterile conditions in the control treatments. Concerning the method development, the plants grew without visible toxicity in all the boxes, and the analysis of root and agar samples indicated that the controls were sterile and the strains inoculated were growing along the roots. More than 90% of the TE and nutrients added to the system were in the liquid fraction of the agar medium, thus available for root uptake. The screening showed that the microorganisms in general decreased TE uptake by wheat and sunflower, although some of them had an opposite effect on the plants. However, with the same plant species, the microorganisms had a consistent effect on all TE tested, i.e. a given single strain caused the same effect (increase or decrease of TE uptake) on all TE tested. In sunflower, 3 microorganisms (Paenibacillus polymyxa, Pythium ultimum and Rhizoctonia solani) decreased Cu and Zn uptake by 50% compared to the control treatment. These three species are common soil microorganisms. All three are known to exude auxin, a phytohormone. This hormone can modify root morphology and physiology and thus may affect TE uptake by plants. R. solani and P. ultimum are root pathogens. Their effect was opposite to what we expected. If roots are damaged, TE should have flooded into the plant and accumulate in the tissues, but this was not the case. One explanation could be the biosorption of TE by these mi

  10. Photoacoustic signal normalization method and its application to the measurement of the thermal diffusivity for optically opaque materials

    NASA Astrophysics Data System (ADS)

    Balderas-López, J. A.

    2006-06-01

    A normalized photoacoustic method, especially suitable for thermal diffusivity measurements of highly optically opaque materials, is described. The photoacoustic signal for normalization in this case, unlike other normalized photoacoustic methodologies, corresponds to a semi-infinite reference material in the front photoacoustic configuration. The amplitude and phase of the sample's photoacoustic signal, in transmission, are normalized with the corresponding ones of the reference. The normalization methodology yields, in this way, two independent thermal diffusivity values. This thermal property was measured for two polymers (black paint and black plastic tape); good agreement between the two thermal diffusivities measured for each material was obtained.

  11. A texture classification method for diffused liver diseases using Gabor wavelets.

    PubMed

    Ahmadian, A; Mostafa, A; Abolhassani, M; Salimpour, Y

    2005-01-01

    We proposed an efficient method for classification of diffused liver diseases based on Gabor wavelet. It is well known that Gabor wavelets attain maximum joint space-frequency resolution which is highly significant in the process of texture extraction and presentation. This property has been explored here as the proposed method outperforms the classification rate obtained by using dyadic wavelets and methods based on statistical properties of textures. The feature vector is relatively small compared to other methods. This has a significant impact on the speed of retrieval process. In addition, the proposed algorithm is not sensitive to shift of the image contents. Since shifting the contents of an image will cause a circular shift of the Gabor filter coefficients in each sub-band. The proposed algorithm applied to discriminate ultrasonic liver images into three disease states that are normal liver, liver hepatitis and cirrhosis. In our experiment 45 liver sample images from each three disease states which already proven by needle biopsy were used. We achieved the sensitivity 85% in the distinction between normal and hepatitis liver images and 86% in the distinction between normal and cirrhosis liver images. Based on our experiments, the Gabor wavelet is more appropriate than dyadic wavelets and statistical based methods for texture classification as it leads to higher classification accuracy. PMID:17282503

  12. Operational methods for minimising soil compaction and diffuse pollution risk from wheelings in winter cereals

    NASA Astrophysics Data System (ADS)

    Jackson, Bob; Silgram, Martyn; Quinton, John

    2010-05-01

    Recent UK government-funded research has shown that compacted, unvegetated tramlines wheelings can represent an important source and transport pathway, which can account for 80% of surface runoff, sediment and phosphorus losses to edge-of-field from cereals on moderate slopes. For example, recent research found 5.5-15.8% of rainfall lost as runoff, and losses of 0.8-2.9 kg TP/ha and 0.3-4.8 T/ha sediment from tramline wheelings. When compaction was released by shallow cultivation, runoff was reduced to 0.2-1.7% of rainfall with losses of 0.0-0.2 kg TP/ha and 0.003-0.3 T/ha sediment respectively i.e. close to reference losses from control areas without tramlines. Recent independent assessments using novel tracer techniques have also shown that tramline wheelings can represent important sediment sources at river catchment scale. In response to these latest findings, a new project is now underway investigating the most cost-effective and practical ways of operationalising methods for managing tramline wheelings in autumn-sown cereal systems to reduce the risk of soil compaction from the autumn spray operation and the associated risk of surface runoff and diffuse pollution loss of sediment, phosphorus and nitrogen to edge of field. Research is focusing on the over-winter period when soils are close to field capacity and the physical protection of the soil surface granted by growing crop is limited. This paper outlines this new multi-disciplinary project and associated methodologies, which include hillslope-scale event-based evaluations of the effectiveness of novel mitigation methods on surface runoff and diffuse pollution losses to edge of field, assessments of the economic and practical viability of mitigation methods, and modelling the impact on water quality of implementation of the most promising techniques at both farm and catchment scale. The study involves a large consortium with 20 partners, including many industrial organisations representing tractor, crop sprayer, cultivator and tyre manufacturers, and the associated development and evaluation of novel tools for sustainable land management. Preliminary results from the first winter of monitoring focus on soil physics assessments (such as surface roughness, near-surface compaction, bulk density) and event-based losses associated with surface runoff. Research is initially investigating the relative importance of soil compaction, rather than the lack of vegetation cover, in accounting for the much greater losses of surface runoff, sediment and P loss identified down tramline wheelings compared to the uncompacted, cropped area. Treatments being investigated on three sites with contrasting soil textures and climatic regimes include: • The effect of correctly inflated, "Xeobib" low ground pressure tractor and sprayer tyres compared to conventional tyres and "common practice" tyre pressures • The effect of drilling the wheeling areas and using new GPS technology to guide spraying operations, compared to conventional practice of using undrilled tramline areas for that purpose. Subsequent monitoring periods will explore the cost-effectiveness of techniques to lift the soil compaction in the autumn using novel tools attached to the sprayer unit. Results from such applied, field scale cost-effectiveness studies provide evidence to help identify source areas of diffuse pollution, improve our process understanding of the response of soil systems to land management practices, and thereby support the targeting of practical pollution control measures across a range of soil types and climatic regimes. This project will provide practical recommendations to the farming industry, help inform farm scale evaluations of diffuse pollution risk such as the new Soil Protection Review recently introduced by the UK Department for the Environment Food and Rural Affairs (Defra), and yield data to help parameterise and refine diffuse pollution models used for policy support at a range of scales.

  13. A Monte Carlo based nodal diffusion model for criticality analysis, and, Application of high-order cross section homogenization method to two-group nodal diffusion

    NASA Astrophysics Data System (ADS)

    Ilas, Germina

    In the first part, an accurate and fast computational method is presented as an alternative to the Monte Carlo or deterministic transport theory codes currently used to determine the subcriticality of spent fuel storage lattices. The method is capable of analyzing storage configurations with simple or complex lattice cell geometry. It is developed based on two-group nodal diffusion theory, with the nodal cross sections and discontinuity factors determined from continuous-energy Monte Carlo simulations of each unique node (spent fuel assembly type). Three different approaches are developed to estimate the node-averaged diffusion coefficient. The applicability and the accuracy of the nodal method are assessed in two-dimensional geometry through several benchmark configurations typical at Savannah River Site. It is shown that the multiplication constant of the analyzed configurations is within 1% of the MCNP results. In the second part, the high-order cross section homogenization method, recently developed by McKinley and Rahnema, is implemented in the context of two-group nodal diffusion theory. The method corrects the generalized equivalence theory homogenization parameters for the effect of the core environment. The reconstructed fine-mesh (fuel pin) flux and power distributions are a natural byproduct of this method. The method was not tested for multigroup problems, where it was assumed that the multigroup flux expansion in terms of the perturbation parameter is a convergent series. Here the applicability of the method to two-group problems is studied, and it is shown that the perturbation expansion series converges for the multigroup case. A two-group nodal diffusion code with a bilinear intra-nodal flux shape is developed for the implementation of the high-order homogenization method in the context of the generalized equivalence theory. The method is tested by using as a benchmark a core configuration typical of a BWR in slab geometry, which has large variations in the flux distribution across the core. There is a very good agreement between the nodal calculation and the fine-mesh reference calculation: the node-integrated group flux is within 0.5% of the reference solution in all nodes. The reconstructed fine-mesh flux (or equivalently the power distribution) in the core approximates the reference value very well.

  14. A meshless method based on moving Kriging interpolation for a two-dimensional time-fractional diffusion equation

    NASA Astrophysics Data System (ADS)

    Ge, Hong-Xia; Cheng, Rong-Jun

    2014-04-01

    Fractional diffusion equations have been the focus of modeling problems in hydrology, biology, viscoelasticity, physics, engineering, and other areas of applications. In this paper, a meshfree method based on the moving Kriging interpolation is developed for a two-dimensional time-fractional diffusion equation. The shape function and its derivatives are obtained by the moving Kriging interpolation technique. For possessing the Kronecker delta property, this technique is very efficient in imposing the essential boundary conditions. The governing time-fractional diffusion equations are transformed into a standard weak formulation by the Galerkin method. It is then discretized into a meshfree system of time-dependent equations, which are solved by the standard central difference method. Numerical examples illustrating the applicability and effectiveness of the proposed method are presented and discussed in detail.

  15. Field evaluation of the direct detection of multidrug resistant Mycobacterium tuberculosis by nitrate reductase assay on 7H11 agar.

    PubMed

    Satti, Luqman; Ikram, Aamer; Palomino, Juan Carlos; Martin, Anandi; Khan, Farooq Ahmad

    2013-05-01

    In this study we evaluated the performance of colorimetric nitrate reductase assay (NRA) on Middlebrook 7H11 agar instead of Lowenstein-Jensen medium for detection of isoniazid (INH) and rifampin (RIF) resistance directly on 114 smear positive sputum specimens and compared the results with direct proportion method on LJ medium. The results of both methods were in 100% agreement for detection of RIF resistance while agreement for INH was 96.4%. The average turnaround time for NRA was 18.6 days and majority of the specimens gave positive results within 21 days. Thus direct NRA testing on smear positive sputum specimens by using 7H11 agar could be used as a fast, reliable and inexpensive method in resource starved settings. PMID:23507185

  16. Development of a method to study positron diffusion in metals by the observation of positronium negative ions

    NASA Astrophysics Data System (ADS)

    Suzuki, Takuji; Terabe, Hiroki; Iida, Shimpei; Yamashita, Takashi; Nagashima, Yasuyuki

    2014-09-01

    We have developed a new method to study positron diffusion in metals. In this method, we observe positronium negative ions emitted from the sample surfaces after coating with alkali-metals to evaluate the yields of the positrons which return to the surfaces. ?-rays from the ions accelerated using an electric field are clearly distinguished from those emitted from pair-annihilation of positrons in the bulk or on the surface and self-annihilation of emitted positronium atoms. Reliable studies on positron diffusion in metals have been enabled by this method.

  17. Basic principles for the development of a common standardised method for determining the radon diffusion coefficient in waterproofing materials.

    PubMed

    Jiránek, Martin; Rovenská, Kate?ina

    2012-04-01

    Paper presents the principles for unified test methods for determining the radon diffusion coefficient in waterproof materials in order to increase the accuracy, repeatability and reproducibility of the results. We consider this very important, because an assessment of the radon diffusion coefficient is required by several national technical standards when waterproofing acts as a radon-proof membrane. The requirements for key parameters for one test method performed under non-stationary conditions and for two methods performed under stationary conditions are described in this paper. PMID:22245288

  18. Elemental composition of Physarum compressum Alb. et Schw. sporocarps and their structures cultivated on rabbit dung and agar substrates.

    PubMed

    Janik, Paulina; Tylko, Grzegorz; Ostachowicz, Beata; Turnau, Katarzyna

    2010-12-01

    The elemental composition of spores, peridium walls, and lime nodes of Physarum compressum sporocarps, cultivated on rabbit dung as a natural growing environment for the slime mold and on artificial agar medium, was compared to evaluate differences that may be dependent on substrates. Whole fruiting bodies and samples of both experimental media were extracted with nitric acid or Parr digest bomb, respectively, and analyzed by means of total X-ray reflection fluorescence (TXRF). Electron probe microanalysis (EPMA) of spores, peridium walls, and lime nodes structure was carried out with the scanning electron microscope equipped with energy-dispersive spectrometer. Because of minute sizes and roughness of investigated structures, Monte Carlo simulations were utilized to establish analytical conditions of EPMA. Biological and geological standards were used in the quantification of element concentrations. According to TXRF, the fruiting bodies from agar medium revealed lower concentrations of K, Ca, Cr, Mn, and Fe in relation to fruiting bodies from the dung, reflecting elemental relationships in the experimental media. According to EPMA, the highest Ca concentration was found in the lime nodes followed by the peridium and the spores. Culturing of the slime molds on the rabbit dung indicated higher concentration of Ca in the lime nodes and peridium walls when compared with those obtained from the sporocarps grown on agar media. The opposite relation was found for the spores. The concentration of Na, Mg, P, S, and Cl was generally lower in all structures of the sporocarps harvested from the dung than from the agar medium. K was in higher concentration in analyzed structures from dung than from agar. Different element uptake (except for Ca and K) was revealed by the two methods: TXRF and EPMA. PMID:20981759

  19. Identification of Staphylococcus aureus: DNase and Mannitol salt agar improve the efficiency of the tube coagulase test

    PubMed Central

    2010-01-01

    Background The ideal identification of Staphylococcus aureus clinical isolates requires a battery of tests and this is costly in resource limited settings. In many developing countries, the tube coagulase test is usually confirmatory for S. aureus and is routinely done using either human or sheep plasma. This study evaluated Mannitol salt agar and the deoxyribonuclease (DNase) test for improving the efficiency of the tube coagulase test in resource limited settings. The efficiency of human and sheep plasma with tube coagulase tests was also evaluated. Methods One hundred and eighty Gram positive, Catalase positive cocci occurring in pairs, short chains or clusters were subjected to growth on Mannitol salt agar, deoxyribonuclease and tube coagulase tests. Of these, isolates that were positive for at least two of the three tests (n = 60) were used to evaluate the performance of the tube coagulase test for identification of S. aureus, using PCR-amplification of the nuc gene as a gold standard. Results Human plasma was more sensitive than sheep plasma for the tube coagulase test (sensitivity of 91% vs. 81% respectively), but both plasmas had very low specificity (11% and 7% respectively). The sensitivity and specificity of the tube coagulase test (human plasma) was markedly improved when Mannitol salt agar and DNase were introduced as a tri-combination test for routine identification of Staphylococcus aureus (100% specificity and 75% sensitivity). The specificity and sensitivity of Mannitol salt agar/DNase/tube coagulase (sheep plasma) combination was 100% and 67%, respectively. Conclusion The efficiency of the tube coagulase test can be markedly improved by sequel testing of the isolates with Mannitol salt agar, DNase and Tube coagulase. There is no single phenotypic test (including tube coagulase) that can guarantee reliable results in the identification of Staphylococcus aureus. PMID:20707914

  20. An anatomically driven anisotropic diffusion filtering method for 3D SPECT reconstruction

    NASA Astrophysics Data System (ADS)

    Kazantsev, Daniil; Arridge, Simon R.; Pedemonte, Stefano; Bousse, Alexandre; Erlandsson, Kjell; Hutton, Brian F.; Ourselin, Sébastien

    2012-06-01

    In this study, we aim to reconstruct single-photon emission computed tomography images using anatomical information from magnetic resonance imaging as a priori knowledge about the activity distribution. The trade-off between anatomical and emission data is one of the main concerns for such studies. In this work, we propose an anatomically driven anisotropic diffusion filter (ADADF) as a penalized maximum likelihood expectation maximization optimization framework. The ADADF method has improved edge-preserving denoising characteristics compared to other smoothing penalty terms based on quadratic and non-quadratic functions. The proposed method has an important ability to retain information which is absent in the anatomy. To make our approach more stable to the noise-edge classification problem, robust statistics have been employed. Comparison of the ADADF method is performed with a successful anatomically driven technique, namely, the Bowsher prior (BP). Quantitative assessment using simulated and clinical neuroreceptor volumetric data show the advantage of the ADADF over the BP. For the modelled data, the overall image resolution, the contrast, the signal-to-noise ratio and the ability to preserve important features in the data are all improved by using the proposed method. For clinical data, the contrast in the region of interest is significantly improved using the ADADF compared to the BP, while successfully eliminating noise.

  1. A modified method for diffusive monitoring of 3-ethenylpyridine as a specific marker of environmental tobacco smoke

    NASA Astrophysics Data System (ADS)

    Kuusimäki, Leea; Peltonen, Kimmo; Vainiotalo, Sinikka

    A previously introduced method for monitoring environmental tobacco smoke (ETS) was further validated. The method is based on diffusive sampling of a vapour-phase marker, 3-ethenylpyridine (3-EP), with 3 M passive monitors (type 3500). Experiments were done in a dynamic chamber to assess diffusive sampling in comparison with active sampling in charcoal tubes or XAD-4 tubes. The sampling rate for 3-EP collected on the diffusive sampler was 23.1±0.6 mL min -1. The relative standard deviation for parallel samples ( n=6) ranged from 4% to 14% among experiments ( n=9). No marked reverse diffusion of 3-EP was detected nor any significant effect of relative humidity at 20%, 50% or 80%. The diffusive sampling of 3-EP was validated in field measurements in 15 restaurants in comparison with 3-EP and nicotine measurements using active sampling. The 3-EP concentration in restaurants ranged from 0.01 to 9.8 ?g m -3, and the uptake rate for 3-EP based on 92 parallel samples was 24.0±0.4 mL min -1. A linear correlation ( r=0.98) was observed between 3-EP and nicotine concentrations, the average ratio of 3-EP to nicotine being 1:8. Active sampling of 3-EP and nicotine in charcoal tubes provided more reliable results than sampling in XAD-4 tubes. All samples were analysed using gas chromatography-mass spectrometry after elution with a 15% solution of pyridine in toluene. For nicotine, the limit of quantification of the charcoal tube method was 4 ng per sample, corresponding to 0.04 ?g m -3 for an air sample of 96 L. For 3-EP, the limit of quantification of the diffusive method was 0.5-1.0 ng per sample, corresponding to 0.04-0.09 ?g m -3 for 8 h sampling. The diffusive method proved suitable for ETS monitoring, even at low levels of ETS.

  2. InP synthesis by the synthesis, solute diffusion (SSD) method using glassy-carbon crucibles

    SciTech Connect

    Miskys, C.R.; Oliveira, C.E.M. de; Carvalho, M.M.G. de [UNICAMP-IFGW-DFA-LPD, Campinas, Sao Paulo (Brazil)

    1996-12-31

    An Indium Phosphide (InP) Synthesis system by the Synthesis, Solute Diffusion (SSD) method has been built. It provides high purity InP charges with low carrier densities (3 {times} 10{sup 14} to 2 {times} 10{sup 15} cm{sup {minus}3}) to be used as starting material for InP single-crystal Liquid Encapsulated Czochralski (LEC) growth. Glassy-carbon is a refractory material with low vapor pressure that can be moulded in various forms and sizes. Indeed the glassy-carbon crucible is reusable after the synthesis because InP does not stick to its walls. Preliminary electrical characteristics measurements showed residual carrier concentration below 3 {times} 10{sup 15} cm{sup {minus}3}. These results are comparable with those achieved utilizing quartz crucibles. The features denoted makes glassy-carbon an interesting alternative in comparison with quartz and PBN crucibles.

  3. The Auxiliary Field Diffusion Monte Carlo Method for Nuclear Physics and Nuclear Astrophysics

    E-print Network

    Stefano Gandolfi

    2007-12-09

    In this thesis, I discuss the use of the Auxiliary Field Diffusion Monte Carlo method to compute the ground state of nuclear Hamiltonians, and I show several applications to interesting problems both in nuclear physics and in nuclear astrophysics. In particular, the AFDMC algorithm is applied to the study of several nuclear systems, finite, and infinite matter. Results about the ground state of nuclei ($^4$He, $^8$He, $^{16}$O and $^{40}$Ca), neutron drops (with 8 and 20 neutrons) and neutron rich-nuclei (isotopes of oxygen and calcium) are discussed, and the equation of state of nuclear and neutron matter are calculated and compared with other many-body calculations. The $^1S_0$ superfluid phase of neutron matter in the low-density regime was also studied.

  4. A systematic investigation of reflectance diffuse optical tomography using nonlinear reconstruction methods and continuous wave measurements.

    PubMed

    Yuan, Zhen; Zhang, Jiang; Wang, Xiaodong; Li, Changqing

    2014-09-01

    We conducted a systematic investigation of the reflectance diffuse optical tomography using continuous wave (CW) measurements and nonlinear reconstruction algorithms. We illustrated and suggested how to fine-tune the nonlinear reconstruction methods in order to optimize target localization with depth-adaptive regularizations, reduce boundary noises in the reconstructed images using a logarithm based objective function, improve reconstruction quantification using transport models, and resolve crosstalk problems between absorption and scattering contrasts with the CW reflectance measurements. The upgraded nonlinear reconstruction algorithms were evaluated with a series of numerical and experimental tests, which show the potentials of the proposed approaches for imaging both absorption and scattering contrasts in the deep targets with enhanced image quality. PMID:25401014

  5. A systematic investigation of reflectance diffuse optical tomography using nonlinear reconstruction methods and continuous wave measurements

    PubMed Central

    Yuan, Zhen; Zhang, Jiang; Wang, Xiaodong; Li, Changqing

    2014-01-01

    We conducted a systematic investigation of the reflectance diffuse optical tomography using continuous wave (CW) measurements and nonlinear reconstruction algorithms. We illustrated and suggested how to fine-tune the nonlinear reconstruction methods in order to optimize target localization with depth-adaptive regularizations, reduce boundary noises in the reconstructed images using a logarithm based objective function, improve reconstruction quantification using transport models, and resolve crosstalk problems between absorption and scattering contrasts with the CW reflectance measurements. The upgraded nonlinear reconstruction algorithms were evaluated with a series of numerical and experimental tests, which show the potentials of the proposed approaches for imaging both absorption and scattering contrasts in the deep targets with enhanced image quality. PMID:25401014

  6. A gene expression-based method to diagnose clinically distinct subgroups of diffuse large B cell lymphoma

    Microsoft Academic Search

    George Wright; Bruce Tan; Andreas Rosenwald; Elaine H. Hurt; Adrian Wiestner; Louis M. Staudt

    2003-01-01

    To classify cancer specimens by their gene expression profiles, we created a statistical method based on Bayes' rule that estimates the probability of membership in one of two cancer subgroups. We used this method to classify diffuse large B cell lymphoma (DLBCL) biopsy samples into two gene expression subgroups based on data obtained from spotted cDNA microarrays. The germinal center

  7. A simple and green analytical method for determination of glyphosate in commercial formulations and water by diffuse reflectance spectroscopy

    Microsoft Academic Search

    Aline Santana da Silva; Flávio Cesar Bedatty Fernandes; João Olímpio Tognolli; Leonardo Pezza; Helena Redigolo Pezza

    2011-01-01

    This article describes a simple, inexpensive, and environmentally friendly method for the monitoring of glyphosate using diffuse reflectance spectroscopy. The proposed method is based on reflectance measurements of the colored compound produced from the spot test reaction between glyphosate and p-dimethylaminocinnamaldehyde (p-DAC) in acid medium, using a filter paper as solid support. Experimental designs were used to optimize the analytical

  8. Theory of the discontinuous Galerkin finite element method for nonstationary convection-diffusion problems and applications to

    E-print Network

    Al Hanbali, Ahmad

    Theory of the discontinuous Galerkin finite element method for nonstationary convection with several aspects of the numerical solution of convection- diffusion problems by the discontinuous Galerkin finite element method (DGFEM) and applications to compressible flow. The DGFEM is based on a piecewise

  9. Enumeration of heterotrophic bacteria in water for dialysis: Comparison of the efficiency of reasoner’2 agar and plate count agar

    PubMed Central

    Bugno, Adriana; Almodóvar, Adriana Aparecida Buzzo; Pereira, Tatiana Caldas

    2010-01-01

    Due to the fact the incubation conditions may influence the microbiological evaluation of water for dialysis, the objective of the present study was the comparison of the efficiency of R2A and PCA media in the enumeration of heterotrophic bacteria in 193 samples of water collected in dialysis clinics from 12 cities in São Paulo, between October and December 2007. Results showed counts significantly greater in R2A, suggesting that enumeration should be carried out in R2A, suggesting that enumeration should be carried out in R2A agar associated with longer incubation times, because of the greater sensitivity. PMID:24031456

  10. Sediment transport via needle ice: a new method for diffusive transport on laboratory-scale hillslopes

    NASA Astrophysics Data System (ADS)

    Sweeney, K. E.; Roering, J. J.; Rempel, A. W.

    2012-12-01

    Convex hilltops formed by diffusive sediment transport are a fundamental feature of soil-mantled landscapes worldwide. Additionally, the competition and interaction between hillslopes and valleys control basic topographic metrics, such as relief, drainage density, and breaks in slope-area scaling. Despite recent progress in erosive landscape experiments, no published work has explored the competition of hillslope diffusion and channel advection experimentally. Here, we present preliminary findings on the plausibility of needle ice driven frost creep as a mechanism for laboratory hillslope transport of wet sediment. In nature, needle ice is a diurnal form of ice segregation, whereby liquid water held in sediment pore space is driven upward toward a near-surface freezing front by a temperature-controlled liquid pressure gradient. As needles grow perpendicular to the surface, sediment is incorporated in the growing needle ice by temperature perturbations and associated downward shifts in the freezing front. Sediment then moves downslope due to melting or sublimation of the ice needles. We constructed a slope of saturated sediment in a freezer to constrain the temperature, grain size, and soil moisture limits on laboratory needle ice growth and sediment transport. Surficial sediment transport is measured during experimentation by tracking the movement of colored grains. Additionally, at the end of each run we measure depth-dependent sediment transport by taking slices of the experimental slope and observing the displacement of buried columns of colored grains. In agreement with past work, we find that with temperatures just below freezing, soil moisture above 35%, and silt-sized sediment, the moisture migration induced by freezing releases enough latent heat to maintain the location of the freezing front and encourage needle ice growth. Our experiments demonstrate that the amount of sediment incorporated during needle growth, i.e., the transport efficiency, can be controlled by systematically varying the frequency and/or duration of temperature perturbations. The rate of sediment transport on soil mantled hillslopes depends on topographic slope and transport occurs in an "active layer", i.e., the soil mantle. We show that needle ice transports sediment diffusively and has great potential as a method for laboratory simulation of a soil-mantled hillslope since transport is confined to a layer only a few millimeters from the surface. Furthermore, while past experiments are limited to modeling landscape response to precipitation or uplift, our method to systematically control the vigor of hillslope processes will enable us to model potential climate-driven changes in hillslope transport efficiency.

  11. Diffusion approximation-based simulation of stochastic ion channels: which method to use?

    PubMed Central

    Pezo, Danilo; Soudry, Daniel; Orio, Patricio

    2014-01-01

    To study the effects of stochastic ion channel fluctuations on neural dynamics, several numerical implementation methods have been proposed. Gillespie's method for Markov Chains (MC) simulation is highly accurate, yet it becomes computationally intensive in the regime of a high number of channels. Many recent works aim to speed simulation time using the Langevin-based Diffusion Approximation (DA). Under this common theoretical approach, each implementation differs in how it handles various numerical difficulties—such as bounding of state variables to [0,1]. Here we review and test a set of the most recently published DA implementations (Goldwyn et al., 2011; Linaro et al., 2011; Dangerfield et al., 2012; Orio and Soudry, 2012; Schmandt and Galán, 2012; Güler, 2013; Huang et al., 2013a), comparing all of them in a set of numerical simulations that assess numerical accuracy and computational efficiency on three different models: (1) the original Hodgkin and Huxley model, (2) a model with faster sodium channels, and (3) a multi-compartmental model inspired in granular cells. We conclude that for a low number of channels (usually below 1000 per simulated compartment) one should use MC—which is the fastest and most accurate method. For a high number of channels, we recommend using the method by Orio and Soudry (2012), possibly combined with the method by Schmandt and Galán (2012) for increased speed and slightly reduced accuracy. Consequently, MC modeling may be the best method for detailed multicompartment neuron models—in which a model neuron with many thousands of channels is segmented into many compartments with a few hundred channels. PMID:25404914

  12. Diffusion approximation-based simulation of stochastic ion channels: which method to use?

    PubMed

    Pezo, Danilo; Soudry, Daniel; Orio, Patricio

    2014-01-01

    To study the effects of stochastic ion channel fluctuations on neural dynamics, several numerical implementation methods have been proposed. Gillespie's method for Markov Chains (MC) simulation is highly accurate, yet it becomes computationally intensive in the regime of a high number of channels. Many recent works aim to speed simulation time using the Langevin-based Diffusion Approximation (DA). Under this common theoretical approach, each implementation differs in how it handles various numerical difficulties-such as bounding of state variables to [0,1]. Here we review and test a set of the most recently published DA implementations (Goldwyn et al., 2011; Linaro et al., 2011; Dangerfield et al., 2012; Orio and Soudry, 2012; Schmandt and Galán, 2012; Güler, 2013; Huang et al., 2013a), comparing all of them in a set of numerical simulations that assess numerical accuracy and computational efficiency on three different models: (1) the original Hodgkin and Huxley model, (2) a model with faster sodium channels, and (3) a multi-compartmental model inspired in granular cells. We conclude that for a low number of channels (usually below 1000 per simulated compartment) one should use MC-which is the fastest and most accurate method. For a high number of channels, we recommend using the method by Orio and Soudry (2012), possibly combined with the method by Schmandt and Galán (2012) for increased speed and slightly reduced accuracy. Consequently, MC modeling may be the best method for detailed multicompartment neuron models-in which a model neuron with many thousands of channels is segmented into many compartments with a few hundred channels. PMID:25404914

  13. Examination of methods to determine free-ion diffusivity and number density from analysis of electrode polarization

    SciTech Connect

    Wang, Yangyang [ORNL; Sun, Che-Nan [Oak Ridge National Laboratory (ORNL); Fan, Fei [ORNL; Sangoro, Joshua R [ORNL; Berman, Marc [Hunter College of the City University of New York; Greenbaum, Steve [Hunter College of the City University of New York; Zawodzinski, Thomas [University of Tennessee, Knoxville (UTK); Sokolov, Alexei P [ORNL

    2013-01-01

    Electrode polarization analysis is frequently used to determine free-ion diffusivity and number density in ionic conductors. In the present study, this approach is critically examined in a wide variety of electrolytes, including aqueous and nonaqueous solutions, polymer electrolytes, and ionic liquids. It is shown that the electrode polarization analysis based on theMacdonald-Trukhan model [J. Chem. Phys. 124, 144903 (2006); J. Non-Cryst. Solids 357, 3064 (2011)] progressively fails to give reasonable values of free-ion diffusivity and number density with increasing salt concentration. This should be expected because the original model of electrode polarization is designed for dilute electrolytes. An empirical correction method which yields ion diffusivities in reasonable agreement with pulsed-field gradient nuclear magnetic resonance measurements is proposed. However, the analysis of free-ion diffusivity and number density from electrode polarization should still be exercised with great caution because there is no solid theoretical justification for the proposed corrections.

  14. Diffusion Tensor Imaging Biomarkers for Traumatic Axonal Injury: Analysis of Three Analytic Methods

    PubMed Central

    Marquez de la Plata, Carlos D.; Yang, Fanpei Gloria; Paliotta, Chris; Wang, Jun Yi; Krishnan, Kamini; Bakhadirov, Khamid; Aslan, Sina; Devous, Michael D.; Moore, Carol; Harper, Caryn; McColl, Roderick; Cullum, C. Munro; Diaz-Arrastia, Ramon

    2011-01-01

    Traumatic axonal injury (TAI) is a common mechanism of traumatic brain injury not readily identified using conventional neuroimaging modalities. Novel imaging modalities such as diffusion tensor imaging (DTI) can detect microstructural compromise in white matter (WM) in various clinical populations including TAI. DTI-derived data can be analyzed using global methods (i.e., WM histogram or voxel based approaches) or a regional approach (i.e., tractography). While each of these methods produce qualitatively comparable results, it is not clear which is most useful in clinical research and ultimately in clinical practice. This study compared three methods of analyzing DTI-derived data with regard to detection of WM injury and their association with clinical outcomes. Thirty patients with TAI and 19 demographically similar normal controls were scanned using a 3T magnet. Patients were scanned approximately eight months post-injury, and underwent an outcomes assessment at that time. Histogram analysis of FA and MD showed global WM integrity differences between patients and controls. Voxel-based and tractography analyses showed significant decreases in FA within centroaxial structures involved in TAI. All three techniques were associated with functional and cognitive outcomes. DTI measures of microstructural integrity appear robust, as the three analysis techniques studied showed adequate utility for detecting WM injury. PMID:21070694

  15. The evaluation of a population based diffusion tensor image atlas using a ground truth method

    NASA Astrophysics Data System (ADS)

    Van Hecke, Wim; Leemans, Alexander; D'Agostino, Emiliano; De Backer, Steve; Vandervliet, Evert; Parizel, Paul M.; Sijbers, Jan

    2008-03-01

    Purpose: Voxel based morphometry (VBM) is increasingly being used to detect diffusion tensor (DT) image abnormalities in patients for different pathologies. An important requisite for these VBM studies is the use of a high-dimensional, non-rigid coregistration technique, which is able to align both the spatial and the orientational information. Recent studies furthermore indicate that high-dimensional DT information should be included during coregistration for an optimal alignment. In this context, a population based DTI atlas is created that preserves the orientational DT information robustly and contains a minimal bias towards any specific individual data set. Methods: A ground truth evaluation method is developed using a single subject DT image that is deformed with 20 deformation fields. Thereafter, an atlas is constructed based on these 20 resulting images. Thereby, the non-rigid coregistration algorithm is based on a viscous fluid model and on mutual information. The fractional anisotropy (FA) maps as well as the DT elements are used as DT image information during the coregistration algorithm, in order to minimize the orientational alignment inaccuracies. Results: The population based DT atlas is compared with the ground truth image using accuracy and precision measures of spatial and orientational dependent metrics. Results indicate that the population based atlas preserves the orientational information in a robust way. Conclusion: A subject independent population based DT atlas is constructed and evaluated with a ground truth method. This atlas contains all available orientational information and can be used in future VBM studies as a reference system.

  16. Inverse Monte Carlo method in a multilayered tissue model for diffuse reflectance spectroscopy.

    PubMed

    Fredriksson, Ingemar; Larsson, Marcus; Strömberg, Tomas

    2012-04-01

    Model based data analysis of diffuse reflectance spectroscopy data enables the estimation of optical and structural tissue parameters. The aim of this study was to present an inverse Monte Carlo method based on spectra from two source-detector distances (0.4 and 1.2 mm), using a multilayered tissue model. The tissue model variables include geometrical properties, light scattering properties, tissue chromophores such as melanin and hemoglobin, oxygen saturation and average vessel diameter. The method utilizes a small set of presimulated Monte Carlo data for combinations of different levels of epidermal thickness and tissue scattering. The path length distributions in the different layers are stored and the effect of the other parameters is added in the post-processing. The accuracy of the method was evaluated using Monte Carlo simulations of tissue-like models containing discrete blood vessels, evaluating blood tissue fraction and oxygenation. It was also compared to a homogeneous model. The multilayer model performed better than the homogeneous model and all tissue parameters significantly improved spectral fitting. Recorded in vivo spectra were fitted well at both distances, which we previously found was not possible with a homogeneous model. No absolute intensity calibration is needed and the algorithm is fast enough for real-time processing. PMID:22559695

  17. Method qualification and application of diffusion interaction parameter and virial coefficient.

    PubMed

    Shi, Shuai; Uchida, Makiko; Cheung, Jason; Antochshuk, Valentyn; Shameem, Mohammed

    2013-11-01

    This research focused on evaluation and application of two methods in studying weak protein-protein interactions, i.e. diffusion interaction parameter (KD) and second virial coefficient (B22), both of which are first-order coefficients of protein interactions. Although the plate-based KD method successfully distinguished KD values with relatively large difference in a pH ranging study, it failed to make a consistent statistical decision to determine close interactions as shown by the comprehensive ANOVA analysis. We also validated the DLS-based B22 method by using a model protein lysozyme. The dramatic change of solution appearance for lysozyme as a function of NaCl concentration highlighted the importance of B22 in understanding protein interactions. Moreover, B22 measurement for a MAb fragment suggested a more repulsive protein interaction in histidine buffer than in citrate buffer. The coefficient of variation was <10% when B22 was on an order of magnitude of 10(-4) L mmol/g(2) in contrast to >30% when it approached 10(-5) L mmol/g(2). In this research, we also made an attempt to study protein-protein interactions in concentrated MAb fragment solutions (e.g. >50 mg/mL). Our data suggested that such interactions could be empirically modeled by high-order virial expansions. PMID:24095715

  18. A hybrid, infrared thermography: heat diffusion equation, method for the 3D air-temperature measurement

    NASA Astrophysics Data System (ADS)

    Djupkep Dizeu, F. B.; Maldague, X.; Bendada, A.; Grinzato, E.; Bison, P.

    2011-05-01

    The question of how to map the 3D indoor temperature by infrared thermography is solved by a hybrid method which is a combination of infrared thermography and the well known heat diffusion equation. The idea is to use infrared thermography to get the surface temperature of each frontier of the 3D domain of interest. A suitable procedure is devoted to this, allowing an automatic scanning of the whole frontier, the registration of data and computation. These surface temperatures constitute the boundary conditions of the heat equation solved in the domain of interest. The solution of the heat equation allows analyzing and controlling the temperature of every point belonging to the considered domain. This temperature distribution is controlled over the time with a period of the same order than the necessary time to obtain the frontier temperatures and at the end to contribute to the analysis of the thermal comfort. The study is done for the steady-state conditions under various weather situations. In this case the temperature depends only on space coordinates. With such procedure, we can have an idea about the time necessary to reach thermal equilibrium; time which has a great impact on the thermal comfort sensation. The results yielded by this method are compared with those given by others techniques used for temperature measurement. Finally, the method is used to access 3D temperature distribution for various geometric shapes.

  19. Diffuse Attenuation Coefficient of Downwelling Irradiance: An Evaluation of Remote Sensing Methods

    NASA Technical Reports Server (NTRS)

    Lee, Zhong-Ping; Darecki, Miroslaw; Carder, Kendall L.; Davis, Curtiss O.; Stramski, Dariusz; Rhea, W. Joseph

    2005-01-01

    The propagation of downwelling irradiance at wavelength lambda from surface to a depth (z) in the ocean is governed by the diffuse attenuation coefficient, K(sup -)(sub d)(lambda). There are two standard methods for the derivation of K(sup -)(sub d)(lambda) in remote sensing, which both are based on empirical relationships involving the blue-to-green ratio of ocean color. Recently, a semianalytical method to derive K(sup -)(sub d)(lambda) from reflectance has also been developed. In this study, using K(sup -)(sub d)(490) and K(sup -)(sub d)(443) as examples, we compare the K(sup -)(sub d)(lambda) values derived from the three methods using data collected in three different regions that cover oceanic and coastal waters, with K(sup -)(sub d)(490) ranging from approximately 0.04 to 4.0 per meter. The derived values are compared with the data calculated from in situ measurements of the vertical profiles of downwelling irradiance. The comparisons show that the two standard methods produced satisfactory estimates of K(sup -)(sub d)(lambda) in oceanic waters where attenuation is relatively low but resulted in significant errors in coastal waters. The newly developed semianalytical method appears to have no such limitation as it performed well for both oceanic and coastal waters. For all data in this study the average of absolute percentage difference between the in situ measured and the semianalytically derived K(sup -)(sub d) is approximately 14% for lambda = 490 nm and approximately 11% for lambda = 443 nm.

  20. Determining pre- and syn-eruptive timescales by diffusion methods: case studies from the Oruanui super-eruption

    NASA Astrophysics Data System (ADS)

    Morgan, D. J.; Allan, A. S.; Charlier, B. L.; Wilson, C. J.

    2012-12-01

    Diffusion methods permit investigation of timescales of short-lived processes occurring in magmatic systems before, and in some cases during, eruption. We here present three case studies from the 25.4 ka Oruanui super-eruption looking at diffusion in a variety of minerals that reflects a spectrum of timescales. At one end of the spectrum, the diffusion of Li is exceedingly rapid. Diffusion distances of >100 microns in quartz and plagioclase can be attained in minutes at magmatic conditions. Strong diffusion appears to be induced in the very latest stages of magmatic ascent across most quartz and plagioclase crystals and is interpreted to be due to changes in the melt structure and fluid-melt equilibrium during decompression. With corrections for adiabatic expansion and post-eruptive cooling, the magma ascent rate from depths corresponding to the critical pressure is constrained to be up to 21 m/s. Determining timescales here requires corrections of raw data for local anorthite contents, although Li diffusion itself appears to be largely independent of composition. Fe-Ti oxides can retain significant zonation of Fe and Ti abundance for only a matter of days at magmatic conditions, making them ideal for thermometry to establish pre-eruptive conditions. However, observation of zonation in magnetite grains can be used to infer timescales of processes occurring over days before eruption. Magnetites from the phase 7 Oruanui eruption deposits show zoning, reflecting events which occurred in the hours before quenching of the host pumice. In combination with field and textural evidence, we interpret these events to result from syn-eruptive infiltration of hot mafic magma into Oruanui rhyolite. Diffusion in this scenario is straightforward to model in one dimension but requires consideration of ambient fO2. Structural ions in silicate minerals typically diffuse much more slowly, and so yield information on long-lived and persistent processes. Fe-Mg interdiffusion in orthopyroxene is more complex than either Fe-Ti in magnetite or Li in feldspars and quartz. The diffusion coefficient is both composition- and oxygen fugacity-dependent and so a finite difference model would typically be used to model the diffusion behaviour. Here, we show how a specially-constructed spreadsheet can accurately fit and model diffusion profiles based on certain diffusion laws. Results obtained for Oruanui orthopyroxenes suggest residence times in the range of 300 to 1000 years, reflecting the timescale over which the eruptible portion of the Oruanui magma body was assembled (see also ASR Allan et al. in session V046).

  1. A noninvasive method for measuring the velocity of diffuse hydrothermal flow by tracking moving refractive index anomalies

    NASA Astrophysics Data System (ADS)

    Mittelstaedt, Eric; Davaille, Anne; van Keken, Peter E.; Gracias, Nuno; Escartin, Javier

    2010-10-01

    Diffuse flow velocimetry (DFV) is introduced as a new, noninvasive, optical technique for measuring the velocity of diffuse hydrothermal flow. The technique uses images of a motionless, random medium (e.g., rocks) obtained through the lens of a moving refraction index anomaly (e.g., a hot upwelling). The method works in two stages. First, the changes in apparent background deformation are calculated using particle image velocimetry (PIV). The deformation vectors are determined by a cross correlation of pixel intensities across consecutive images. Second, the 2-D velocity field is calculated by cross correlating the deformation vectors between consecutive PIV calculations. The accuracy of the method is tested with laboratory and numerical experiments of a laminar, axisymmetric plume in fluids with both constant and temperature-dependent viscosity. Results show that average RMS errors are ˜5%-7% and are most accurate in regions of pervasive apparent background deformation which is commonly encountered in regions of diffuse hydrothermal flow. The method is applied to a 25 s video sequence of diffuse flow from a small fracture captured during the Bathyluck'09 cruise to the Lucky Strike hydrothermal field (September 2009). The velocities of the ˜10°C-15°C effluent reach ˜5.5 cm/s, in strong agreement with previous measurements of diffuse flow. DFV is found to be most accurate for approximately 2-D flows where background objects have a small spatial scale, such as sand or gravel.

  2. A simple measurement of the Ni-63 diffusion profiles by residual activity method using a liquid scintillation counter

    NASA Astrophysics Data System (ADS)

    Rothová, V?ra

    2013-11-01

    A simple and sensitive technique based on a solid scintillator in place of the commonly used liquid scintillation (LS) cocktail has been developed to measure the low-energy surface radioactivity with the LS counter. As a test case, the method was applied to the successful determination of the nickel-63 self-diffusion profile in commercial purity nickel by means of the Gruzin?s residual activity method. On the same sample, the additional three methods of diffusion profile determination were used to compare with the proposed new method: (i) proportional counter activity detection, (ii) serial sectioning method and (iii) an integral sample measurement in LS cocktail. In conclusion, the strong and weak points are discussed for each method.

  3. Comparison of microbial adherence to antiseptic and antibiotic central venous catheters using a novel agar subcutaneous infection model

    Microsoft Academic Search

    Trupti A. Gaonkar; Shanta M. Modak

    An agar subcutaneous infection model (agar model), which simulates the rat subcutaneous infection model (rat model), was developed to assess the ability of antimicrobial catheters to resist microbial colonization. The catheters were implanted in the agar and rat models and the insertion sites were infected immediately or on day 7, 14 or 21 post-implantation. The catheters implanted in the agar

  4. Quantification of Al-goethite from diffuse reflectance spectroscopy and magnetic methods

    NASA Astrophysics Data System (ADS)

    Jiang, Zhaoxia; Liu, Qingsong; Colombo, Claudio; Barrón, Vidal; Torrent, José; Hu, Pengxiang

    2014-01-01

    As one of the most abundant iron oxides in soils, the presence and nature of goethite is controlled by the soil conditions and burial history. The visible diffuse reflectance spectroscopy (DRS) is a useful tool for quantifying goethite. However, aluminium (Al) substitution for goethite is very common in soils and the effects of Al content on the DRS properties of goethite have not been fully resolved. In this study, two series of Al substituted goethites (Al-goethite) and 20 Chinese loess/palaeosol samples were investigated using both DRS and magnetic methods to test the feasibility of quantifying Al-goethite with the DRS method. Results show that the peak positions and amplitudes of the goethite DRS band are significantly influenced by Al substitution. Specifically, the goethite concentration proxy, the amplitude of the DRS band, is relatively stable only when Al substitution ranged between about 4 and 16 mol per cent. Practically, in order to resolve the difficulty in measuring Al content in natural samples, the unblocking temperature (Tb) is proposed as the proxy for Al substitution of goethite. When Tb of Al-goethite was above 250 K, the amplitude of DRS can be used to reliably trace the goethite concentration variation in natural samples. For example, the DRS spectra for the Chinese loess-palaeosol samples support the idea that only haematite is enhanced via pedogenesis. In contrast, the origin of goethite seems to be mostly related to the aeolian inputs.

  5. Bifurcation analysis of brown tide by reaction-diffusion equation using finite element method

    SciTech Connect

    Kawahara, Mutsuto; Ding, Yan [Chuo Univ., Tokyo (Japan)] [Chuo Univ., Tokyo (Japan)

    1997-03-01

    In this paper, we analyze the bifurcation of a biodynamics system in a two-dimensional domain by virtue of reaction-diffusion equations. The discretization method in space is the finite element method. The computational algorithm for an eigenspectrum is described in detail. On the basis of an analysis of eigenspectra according to Helmholtz`s equation, the discrete spectra in regards to the physical variables are numerically obtained in two-dimensional space. In order to investigate this mathematical model in regards to its practical use, we analyzed the stability of two cases, i.e., hydranth regeneration in the marine hydroid Tubularia and a brown tide in a harbor in Japan. By evaluating the stability according to the linearized stability definition, the critical parameters for outbreaks of brown tide can be theoretically determined. In addition, results for the linear combination of eigenspectrum coincide with the distribution of the observed brown tide. Its periodic characteristic was also verified. 10 refs., 8 figs., 5 tabs.

  6. Hierarchical clustering method to improve transrectal ultrasound-guided diffuse optical tomography for prostate cancer imaging.

    PubMed

    Kavuri, Venkaiah C; Liu, Hanli

    2014-02-01

    The inclusion of anatomical prior information in reconstruction algorithms can improve the quality of reconstructed images in near-infrared diffuse optical tomography (DOT). Prior literature on possible locations of human prostate cancer from transrectal ultrasound (TRUS), however, is limited and has led to biased reconstructed DOT images. In this work, we propose a hierarchical clustering method (HCM) to improve the accuracy of image reconstruction with limited prior information. HCM reconstructs DOT images in three steps: 1) to reconstruct the human prostate, 2) to divide the prostate region into geometric clusters to search for anomalies in finer clusters, 3) to continue the geometric clustering within anomalies for improved reconstruction. We demonstrated this hierarchical clustering method using computer simulations and laboratory phantom experiments. Computer simulations were performed using combined TRUS/DOT probe geometry with a multilayered model; experimental demonstration was performed with a single-layer tissue simulating phantom. In computer simulations, two hidden absorbers without prior location information were reconstructed with a recovery rate of 100% in their locations and 95% in their optical properties. In experiments, a hidden absorber without prior location information was reconstructed with a recovery rate of 100% in its location and 83% in its optical property. PMID:24439338

  7. DSA Image Blood Vessel Skeleton Extraction Based on Anti-concentration Diffusion and Level Set Method

    NASA Astrophysics Data System (ADS)

    Xu, Jing; Wu, Jian; Feng, Daming; Cui, Zhiming

    Serious types of vascular diseases such as carotid stenosis, aneurysm and vascular malformation may lead to brain stroke, which are the third leading cause of death and the number one cause of disability. In the clinical practice of diagnosis and treatment of cerebral vascular diseases, how to do effective detection and description of the vascular structure of two-dimensional angiography sequence image that is blood vessel skeleton extraction has been a difficult study for a long time. This paper mainly discussed two-dimensional image of blood vessel skeleton extraction based on the level set method, first do the preprocessing to the DSA image, namely uses anti-concentration diffusion model for the effective enhancement and uses improved Otsu local threshold segmentation technology based on regional division for the image binarization, then vascular skeleton extraction based on GMM (Group marching method) with fast sweeping theory was actualized. Experiments show that our approach not only improved the time complexity, but also make a good extraction results.

  8. Adaptive meshless local maximum-entropy finite element method for convection-diffusion problems

    NASA Astrophysics Data System (ADS)

    Wu, C. T.; Young, D. L.; Hong, H. K.

    2014-01-01

    In this paper, a meshless local maximum-entropy finite element method (LME-FEM) is proposed to solve 1D Poisson equation and steady state convection-diffusion problems at various Peclet numbers in both 1D and 2D. By using local maximum-entropy (LME) approximation scheme to construct the element shape functions in the formulation of finite element method (FEM), additional nodes can be introduced within element without any mesh refinement to increase the accuracy of numerical approximation of unknown function, which procedure is similar to conventional p-refinement but without increasing the element connectivity to avoid the high conditioning matrix. The resulted LME-FEM preserves several significant characteristics of conventional FEM such as Kronecker-delta property on element vertices, partition of unity of shape function and exact reproduction of constant and linear functions. Furthermore, according to the essential properties of LME approximation scheme, nodes can be introduced in an arbitrary way and the continuity of the shape function along element edge is kept at the same time. No transition element is needed to connect elements of different orders. The property of arbitrary local refinement makes LME-FEM be a numerical method that can adaptively solve the numerical solutions of various problems where troublesome local mesh refinement is in general necessary to obtain reasonable solutions. Several numerical examples with dramatically varying solutions are presented to test the capability of the current method. The numerical results show that LME-FEM can obtain much better and stable solutions than conventional FEM with linear element.

  9. Diffusion of innovation: enhancing the dissemination of the Ponseti method in Latin America through virtual forums.

    PubMed

    Jayawardena, Asitha; Boardman, Allison; Cook, Thomas; Oprescu, Florin; Morcuende, Jose A

    2011-01-01

    This ethnographic study evaluated the use of low-bandwidth web-conferencing to enhance diffusion of a specific best practice, the Ponseti method to treat clubfoot, in three economically diverse countries in Latin America. A "Ponseti Virtual Forum" (PVF) was organized in Guatemala, Peru and Chile to examine the influences of economic level and telecommunication infrastructure on the effectiveness of tins approach. Across the three countries, a total of 14 different sites participated in the PVFs. Thirty-three Ponseti-trained practitioners were interviewed before and after each PVF, which included interactions with a Spanish-speaking Ponseti method expert. Semi-structured interviews, observations, and IP address data were triangulated and analyzed. The results demonstrated that 100% of the practitioners rated the sessions as very useful and that they would use this approach again. The largest obstacles to using PVFs were financial (7 out of 9 practitioners) in Guatemala; a lack of equipment and network access (6 out of 11) in Peru; and the organization and implementation of the conferences themselves (7 out of 9) in Chile. This study illustrates the usefulness of Ponseti Virtual Forums in Latin America. Health officials in Peru are currently developing a large-scale information session for traumatologists about the Ponseti method, while practitioners in Guatemala and Chile are organizing monthly scholarly meetings for physicians in remote areas. This initial feedback suggests that low-bandwidth web-conferencing can be an important vehicle for the dissemination of best practices, such as the Ponseti method, in developing countries. PMID:22096417

  10. Isolation of Shiga toxin-producing Escherichia coli from fresh produce using STEC heart infusion washed blood agar with mitomycin-C.

    PubMed

    Lin, Andrew; Nguyen, Lam; Clotilde, Laurie M; Kase, Julie A; Son, Insook; Lauzon, Carol R

    2012-11-01

    The ability to detect and isolate Shiga toxin-producing Escherichia coli (STEC) remains a major challenge for food microbiologists. Although methods based on nucleic acids and antibodies have improved detection of STECs in foods, isolation of these bacteria remains arduous. STEC isolation is necessary for matching food, environmental, and clinical isolates during outbreak investigations and for distinguishing between pathogenic and nonpathogenic organisms. STEC heart infusion washed blood agar with mitomycin-C (SHIBAM) is a modification of washed sheep blood agar prepared by adding mitomycin-C and optimizing both the washed blood and base agar to better isolate STECs. Most STEC isolates produce a zone of hemolysis on SHIBAM plates and are easily distinguishable from background microbiota. Here, we present data supporting the use of SHIBAM to isolate STECs from fresh produce. SHIBAM was tested for accuracy in identifying STECs (365 of 410 STEC strains were hemolytic, and 63 of 73 E. coli strains that did not produce Shiga toxin were not hemolytic) and for recovery from artificially inoculated fresh produce (11 of 24 romaine lettuce samples and 6 of 24 tomato samples). STEC recovery with SHIBAM agar was greatly improved when compared with recovery on Levine's eosin-methylene blue agar as a reference method. PMID:23127712

  11. Testing the quality of magnetic gradient fields for studying self-diffusion processes by magnetic resonance methods

    NASA Astrophysics Data System (ADS)

    Bartusek, Karel; Gescheidtova, Eva

    2006-08-01

    Imaging techniques based on the principle of nuclear magnetic resonance (NMR) rank with the most advanced methods for studying chemical and biological properties of substances. Their universality makes them particularly suitable for use in a wide range of scientific branches. NMR has found significant application in medicine. The diffusion effects of water molecules in tissues reduce the magnitude of spin echo in NMR measuring methods. Based on the amplitude change in the image, the diffusion coefficients and their distribution in the specimen being measured can be calculated. MR images of an object weighted by diffusion coefficients require a defined sequence of gradient pulses and accurate knowledge of their time behaviour. Methods for measuring the diffusion coefficients require knowledge of the minimum length of leading and trailing edges, the defined magnitude of the magnetic field gradient being excited and also the symmetry of positive and negative gradient pulses (the zero integral of pulses of the same magnitude with opposite polarity). To determine the above characteristics of the time behaviour of gradient pulses of both polarities a simple measuring method was developed and experimentally tested on a tomograph with 4.7 T induction of the basic magnetic field. This method is based on the principle of measuring the instantaneous frequency of the MR signal in the presence of a gradient pulse subsequent to exciting a thin defined layer of the specimen under examination outside the gradient field centre.

  12. A finite elements method to solve the Bloch–Torrey equation applied to diffusion magnetic resonance imaging

    SciTech Connect

    Nguyen, Dang Van [INRIA Saclay, Equipe DEFI, CMAP, Ecole Polytechnique, Route de Saclay, 91128 Palaiseau Cedex (France); NeuroSpin, Bat145, Point Courrier 156, CEA Saclay Center, 91191 Gif-sur-Yvette Cedex (France); Li, Jing-Rebecca, E-mail: jingrebecca.li@inria.fr [INRIA Saclay, Equipe DEFI, CMAP, Ecole Polytechnique, Route de Saclay, 91128 Palaiseau Cedex (France); NeuroSpin, Bat145, Point Courrier 156, CEA Saclay Center, 91191 Gif-sur-Yvette Cedex (France); Grebenkov, Denis [Laboratoire de Physique de la Matiere Condensee, CNRS, Ecole Polytechnique, 91128 Palaiseau Cedex (France); Le Bihan, Denis [NeuroSpin, Bat145, Point Courrier 156, CEA Saclay Center, 91191 Gif-sur-Yvette Cedex (France)

    2014-04-15

    The complex transverse water proton magnetization subject to diffusion-encoding magnetic field gradient pulses in a heterogeneous medium can be modeled by the multiple compartment Bloch–Torrey partial differential equation (PDE). In addition, steady-state Laplace PDEs can be formulated to produce the homogenized diffusion tensor that describes the diffusion characteristics of the medium in the long time limit. In spatial domains that model biological tissues at the cellular level, these two types of PDEs have to be completed with permeability conditions on the cellular interfaces. To solve these PDEs, we implemented a finite elements method that allows jumps in the solution at the cell interfaces by using double nodes. Using a transformation of the Bloch–Torrey PDE we reduced oscillations in the searched-for solution and simplified the implementation of the boundary conditions. The spatial discretization was then coupled to the adaptive explicit Runge–Kutta–Chebyshev time-stepping method. Our proposed method is second order accurate in space and second order accurate in time. We implemented this method on the FEniCS C++ platform and show time and spatial convergence results. Finally, this method is applied to study some relevant questions in diffusion MRI.

  13. A new method of determination of minority carrier diffusion length in the base region of silicon solar cells

    SciTech Connect

    Basu, P.K.; Singh, S.N.; Arora, N.K.; Chakravarty, B.C. (National Physical Lab., New Delhi (India))

    1994-03-01

    A new method of determination of the minority carrier diffusion length (L) in the base region of an n[sup +]-p-p[sup +] silicon solar cell using the spectral response of the cell in a middle wavelength ([lambda]) range is presented. The minority carrier diffusion length (L) in the base region of an n[sup +]-p or n[sup +]-p-p[sup +] silicon solar cell has a profound effect on the solar cell performance. In this paper the authors report a new method of determination of diffusion length using the middle wavelength spectral response (MWSR) of the cell. It has been developed using a model of n[sup +]-p-p[sub +] silicon solar cells given by Singh and Jain and making some simplifying assumptions. It is equally applicable to cells with d/L > 2.5 and d/L < 2.5. In the following they give the theoretical basis of the method and present the result of the measurement of diffusion length of a few N[sup +]-p-p[sup +] silicon solar cells with d/L in the range 1.3--4.1 by using this method and the LWSR method.

  14. Improved Isolation of Vibrio vulnificus from Seawater and Sediment with Cellobiose-Colistin Agar

    Microsoft Academic Search

    LISE HØI; INGER DALSGAARD; ANDERS DALSGAARD

    An improved selective medium, cellobiose-colistin (CC) agar, gave a significantly higher (P < 0.05) isolation rate of Vibrio vulnificus from water and sediment samples than did modified cellobiose-polymyxin B-colistin (mCPC) agar. In a total of 446 alkaline peptone water preenrichments amended with polymyxin B, V. vulnificus was isolated from 154 preenrichments (35%) with mCPC agar and from 179 preenrichments (40%)

  15. New experimental method to measure pure and cross diffusion coefficients of transparent ternary mixtures using Mach-Zehnder interferometry

    NASA Astrophysics Data System (ADS)

    Ahadi, Amirhossein; Saghir, M. Ziad

    2014-08-01

    In this study, a Mach-Zehnder interferometer that is equipped with two lasers of different wavelengths was used to conduct high resolution measurements of concentration profiles of a ternary mixture inside a diffusion cell. Windowed Fourier transform along with an advanced unwrapping procedure was employed to extract the phase image from fringe images. Then the phase difference was obtained for a spatial resolution of 1920×1240. According to the measured refractive index profile, concentration contours of two components (out of three) were measured. Consequently, the concentration profile of the third components was calculated. Previously, the analytical solution for binary mixtures was used to estimate only the pure diffusion coefficients. In this study, for the first time, the refractive indices measured by two lasers along with the analytical solution for the ternary system, based on Fick's law, and an evolutionary algorithm (EA) known as a genetic algorithm (GA) were employed to measure the pure and cross diffusion coefficients of a transparent ternary mixture simultaneously. The optimization method to estimate diffusion coefficients was tested against various objective functions, and the best approach was that which was proposed herein. In order to validate the proposed measurement method, the experimental results of the Selectable Optical Diagnostics Instrument-Diffusion Coefficients in Mixtures (SODI-DCMIX1 project) on board the International Space Station (ISS) were analyzed using this technique and the obtained results were compared with previous techniques.

  16. Effect of the 5E Model on Prospective Teachers' Conceptual Understanding of Diffusion and Osmosis: A Mixed Method Approach

    ERIC Educational Resources Information Center

    Artun, Huseyin; Costu, Bayram

    2013-01-01

    The aim of this study was to explore a group of prospective primary teachers' conceptual understanding of diffusion and osmosis as they implemented a 5E constructivist model and related materials in a science methods course. Fifty prospective primary teachers' ideas were elicited using a pre- and post-test and delayed post-test survey consisting…

  17. Thermal diffusivity measurement of BMS 10-102 thermal insulation material in a vacuum condition using a cyclic heating method

    Microsoft Academic Search

    Gi-Won Nam; Cheol-Won Kong; Yeong-Moo Yi; Akira Ohnishi

    2009-01-01

    With the many different types of spacecraft missions, insulation techniques are required to advance spacecraft thermal design. In order to create a reliable thermal design system, it is essential to characterize materials and basic properties accurately. In this paper, the cyclic heating method is used to measure the thermal diffusivity for a high-temperature porous material as an insulation material for

  18. Experimental Method Development for Estimating Solid-phase Diffusion Coefficients and Material-air Partition Coefficients of SVOCs

    EPA Science Inventory

    The solid-phase diffusion coefficient (Dm) and material-air partition coefficient (Kma) are key parameters for characterizing the sources and transport of semivolatile organic compounds (SVOCs) in the indoor environment. In this work, a new experimental method was developed to es...

  19. A method for estimating soil water diffusivity from moisture profiles and its application across an experimental catchment

    NASA Astrophysics Data System (ADS)

    Espejo, A.; Giráldez, J. V.; Vanderlinden, K.; Taguas, E. V.; Pedrera, A.

    2014-08-01

    Despite the well-accepted value of soil hydraulic properties for describing and modeling matter and energy fluxes in the unsaturated zone, their accurate measurement across scales is still a daunting task. The increasing availability of continuous soil water content measurements at discrete points in space, as provided by sensor networks, offers still unexplored possibilities for evaluating soil physical properties across landscapes. In this study, we propose a new method, based on the Bruce and Klute equation, to estimate effective soil water diffusivity from soil water profile data observed during continuous desiccation periods. An analytical expression is proposed for the diffusion-soil water relationship, assuming an exponential relationship between soil water content and the Boltzmann variable. The method has been evaluated using soil water profile data observed at inter-row and under canopy locations across a rainfed olive orchard in SW Spain. The spatial variability of the effective soil water diffusivity across the orchard was estimated. Different soil conditions under the tree canopies as compared to inter-row areas resulted in significantly different effective diffusivity relationships, reflecting the effect of trees on soil physical properties and water dynamics across olive orchards. The proposed method offers a suitable alternative to traditional laboratory methods and can be easily extended to estimate soil hydraulic conductivity and water retention curves.

  20. Simultaneous Determination of Thermal Conductivity and Thermal Diffusivity of Food and Agricultural Materials Using a Transient Plane-Source Method

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Thermal conductivity and thermal diffusivity are two important physical properties essential for designing any food engineering processes. Recently a new transient plane-source method was developed to measure a variety of materials, but its application in foods has not been documented. Therefore, ...

  1. Investigating chemical constraints to the measurement of phosphorus in soils using diffusive gradients in thin films (DGT) and resin methods

    Microsoft Academic Search

    Sean Mason; Rebecca Hamon; Hao Zhang; Jenny Anderson

    2008-01-01

    The effect of potential chemical constraints on the performance of two relatively new soil P testing methods, anion exchange membrane (AEM) and diffusive gradients in thin films (DGT), were evaluated. Exposures to ranges of anion (Cl?, NO3?, SO42? and HCO3?) concentrations relevant to agricultural soils had minimal effect on P recoveries using DGT. It has also been shown previously that

  2. Simultaneous determination of thermal conductivity and thermal diffusivity of food and agricultural materials using a transient plane-source method

    Microsoft Academic Search

    Lihan Huang; Lin-Shu Liu

    2009-01-01

    Thermal conductivity (K) and thermal diffusivity (?) are two important physical properties essential for designing any food engineering processes. Recently a new transient plane-source method was developed to measure K and ? in a variety of materials, but its application in foods has not been documented. Therefore, the objective of this work was to evaluate the feasibility of using this

  3. Lookup-table method for imaging optical properties with structured illumination beyond the diffusion theory regime

    PubMed Central

    Erickson, Tim A.; Mazhar, Amaan; Cuccia, David; Durkin, Anthony J.; Tunnell, James W.

    2010-01-01

    Sinusoidally structured illumination is used in concert with a phantom-based lookup-table (LUT) to map wide-field optical properties in turbid media with reduced albedos as low as 0.44. A key advantage of the lookup-table approach is the ability to measure the absorption (?a) and reduced scattering coefficients (?s?) over a much broader range of values than permitted by current diffusion theory methods. Through calibration with a single reflectance standard, the LUT can extract ?s? from 0.8 to 2.4 mm?1 with an average root-mean-square (rms) error of 7% and extract ?a from 0 to 1.0 mm?1 with an average rms error of 6%. The LUT is based solely on measurements of two parameters, reflectance R and modulation M at an illumination period of 10 mm. A single set of three phase-shifted images is sufficient to measure both M and R, which are then used to generate maps of absorption and scattering by referencing the LUT. We establish empirically that each pair (M,R) maps uniquely to only one pair of (?s?,?a) and report that the phase function (i.e., size) of the scatterers can influence the accuracy of optical property extraction. PMID:20615015

  4. Lattice Microbes: high-performance stochastic simulation method for the reaction-diffusion master equation

    PubMed Central

    Roberts, Elijah; Stone, John E.; Luthey-Schulten, Zaida

    2013-01-01

    Spatial stochastic simulation is a valuable technique for studying reactions in biological systems. With the availability of high-performance computing, the method is poised to allow integration of data from structural, single-molecule, and biochemical studies into coherent computational models of cells. Here we introduce the Lattice Microbes software package for simulating such cell models on high-performance computing systems. The software performs either well-stirred or spatially resolved stochastic simulations with approximated cytoplasmic crowding in a fast and efficient manner. Our new algorithm efficiently samples the reaction-diffusion master equation using NVIDIA GPUs and is shown to be two orders of magnitude faster than exact sampling for large systems while maintaining an accuracy of ?0.1%. Display of cell models and animation of reaction trajectories involving millions of molecules is facilitated using a plug-in to the popular VMD visualization platform. The Lattice Microbes software is open source and available for download at http://www.scs.illinois.edu/schulten/lm. PMID:23007888

  5. Comparison of dialysis membrane diffusion samplers and two purging methods in bedrock wells

    USGS Publications Warehouse

    Imbrigiotta, T.E.; Ehlke, T.A.; Lacombe, P.J.; Dale, J.M.

    2002-01-01

    Collection of ground-water samples from bedrock wells using low-flow purging techniques is problematic because of the random spacing, variable hydraulic conductivity, and variable contamination of contributing fractures in each well's open interval. To test alternatives to this purging method, a field comparison of three ground-water-sampling techniques was conducted on wells in fractured bedrock at a site contaminated primarily with volatile organic compounds. Constituent concentrations in samples collected with a diffusion sampler constructed from dialysis membrane material were compared to those in samples collected from the same wells with a standard low-flow purging technique and a hybrid (high-flow/low-flow) purging technique. Concentrations of trichloroethene, cis-1,2-dichloroethene, vinyl chloride, calcium, chloride, and alkalinity agreed well among samples collected with all three techniques in 9 of the 10 wells tested. Iron concentrations varied more than those of the other parameters, but their pattern of variation was not consistent. Overall, the results of nonparametric analysis of variance testing on the nine wells sampled twice showed no statistically significant difference at the 95-percent confidence level among the concentrations of volatile organic compounds or inorganic constituents recovered by use of any of the three sampling techniques.

  6. Method of coating the interior surface of hollow objects with a diffusion coating

    DOEpatents

    Knowles, Shawn D.; Senor, David J.; Forbes, Steven V.; Johnson, Roger N.; Hollenberg, Glenn W.

    2005-03-15

    A method for forming a diffusion coating on the interior of surface of a hollow object wherein a filament, extending through a hollow object and adjacent to the interior surface of the object, is provided, with a coating material, in a vacuum. An electrical current is then applied to the filament to resistively heat the filament to a temperature sufficient to transfer the coating material from the filament to the interior surface of the object. The filament is electrically isolated from the object while the filament is being resistively heated. Preferably, the filament is provided as a tungsten filament or molybdenum filament. Preferably, the coating materials are selected from the group consisting of Ag, Al, As, Au, Ba, Be, Bi, Ca, Cd, Co, Cr, Cu, Dy, Er, Eu, Fe, Ga, Ge, Hg, In, K, Li, Mg, Mn, Na, Ni P, Pb, Pd, Pr, S, Sb, Sc, Se, Si, Sn, Sr, Te, Tl, Y, Yb, Zn, and combinations thereof. The invention additionally allows for the formation of nitrides, hydrides, or carbides of all the possible coating materials, where such compounds exist, by providing a partial pressure of nitrogen, hydrogen, hydrocarbons, or combination thereof, within the vacuum.

  7. Measuring thermal diffusivity of mechanical and optical grades of polycrystalline diamond using an AC laser calorimetry method

    SciTech Connect

    Rule, Toby D. [II-VI Incorporated; Cai, Wei [ORNL; Wang, Hsin [ORNL

    2013-01-01

    Because of its extremely high thermal conductivity, measuring the thermal conductivity or diffusivity of optical-grade diamond can be challenging. Various methods have been used to measure the thermal conductivity of thick diamond films. For the purposes of commercial quality control, the AC laser calorimetry method is appealing because it enables fairly rapid and convenient sample preparation and measurement. In this paper, the method is used to measure the thermal diffusivity of optical diamond. It is found that sample dimensions and measurement parameters are critical, and data analysis must be performed with great care. The results suggest that the method as it is applied to optical-grade diamond could be enhanced by a more powerful laser, higher frequency beam modulation, and post-processing based on 2D thermal simulation.

  8. Engineering Instruction In Nondestructive Testing Of Materials (NDT) Using The Capillary Diffusion Method

    NSDL National Science Digital Library

    Berezkina, Nadezda

    In a great majority of educational cases, testing of materials in the laboratory implies destructive techniques consisting of using universal testing machines (UTMs), where materials are brought to a failure condition under tension, compression, shear, bending or torsion. Common objectives associated with these types of tests are: the evaluation of materials moduli of elasticity and rigidity, yield strength, strain, ultimate strength, etc. In engineering practice, however, in-situ nondestructive testing (NDT) of materials are highly preferable, in order to evaluate rapidly the condition, failure potential, usefulness and serviceability of engineering materials. Thus, nondestructive testing of materials ought to be an essential ingredient of engineering education and training, since it plays a significant role in design, manufacturing and evaluation of engineering equipment. This paper presents an inexpensive, simple and effective method to convey to engineering students the underlying principles of NDT, based on an innovative technique referred to as Capillary Diffusion Method (CDM), which is classified within the category of non-destructive Penetrant Testing (PT). CDM is relatively unknown in the United States, but, it has been used for several years in the former Soviet Union, and more recently, in the Russian Federation. CDM proves to be quite versatile and considerably faster than conventional PT techniques used in the U.S. In this paper, the underlying science behind the CDM technique is discussed in detail, as well as, the academic benefits and educational potential derived from the inclusion of CDM in engineering academic curriculum. Mathematical, graphical and numerical documentation are presented in order to substantiate the suitability of CDM as an educational tool to teach Nondestructive Testing in engineering programs such as: Mechanical engineering, Chemical engineering, Civil engineering, Aeronautical, Aerospace engineering, Power Plant Engineering, and Nuclear engineering.

  9. Effect of agar concentration on the matric potential of glycerol agar media and the germination and growth of xerophilic and non-xerophilic fungi.

    PubMed

    Huang, Yang; Chapman, Belinda; Wilson, Mark; Hocking, Ailsa D

    2009-07-31

    The concept of water activity (a(w)) does not differentiate between water status resulting from the interaction of water with solutes, and that from interaction of water with matrices, which is termed matric potential (psi(m)). This study reports the effect of agar concentration (1.5, 3.0, 4.5, 6.0, and 7.5%, w/w) on matric potential of glycerol agar media (GA) and the germination and growth of xerophilic fungi (Eurotium herbariorum and E. rubrum) and non-xerophilic fungi (Aspergillus niger, A. flavus, and Penicillium roqueforti) on GA with or without sorbic acid (0.1-0.4%, w/w) at 0.90 a(w) and 0.95 a(w). The matric potential of GA decreased when the agar concentration increased from 1.5 to 7.5%. When the agar concentration increased at each a(w), the radial growth rate of the xerophilic fungi generally increased but the biomass density (biomass per unit area) decreased, whereas the radial growth rate of the non-xerophilic fungi generally decreased but the biomass density was unchanged. In the absence of sorbic acid, the time to germination of each species was similar for all agar concentrations. In the presence of sorbic acid, the time to germination of some species was significantly longer at higher agar concentrations (4.5%-7.5%) than 1.5% agar. This study demonstrated the inhibition effect on germination and growth of non-xerophilic fungi and xerophilic fungi by decreased matric potential resulting from increased agar concentrations, and the different responses of non-xerophilic fungi and xerophilic fungi to water stress from solutes and matrices. The concept of matric potential may be useful in food microbiology to provide a better understanding of fungal growth in complex food matrices. PMID:19520449

  10. Comparison of diffusion- and pumped-sampling methods to monitor volatile organic compounds in ground water, Massachusetts Military Reservation, Cape Cod, Massachusetts, July 1999-December 2002

    USGS Publications Warehouse

    Archfield, Stacey A.; LeBlanc, Denis R.

    2005-01-01

    To evaluate diffusion sampling as an alternative method to monitor volatile organic compound (VOC) concentrations in ground water, concentrations in samples collected by traditional pumped-sampling methods were compared to concentrations in samples collected by diffusion-sampling methods for 89 monitoring wells at or near the Massachusetts Military Reservation, Cape Cod. Samples were analyzed for 36 VOCs. There was no substantial difference between the utility of diffusion and pumped samples to detect the presence or absence of a VOC. In wells where VOCs were detected, diffusion-sample concentrations of tetrachloroethene (PCE) and trichloroethene (TCE) were significantly lower than pumped-sample concentrations. Because PCE and TCE concentrations detected in the wells dominated the calculation of many of the total VOC concentrations, when VOC concentrations were summed and compared by sampling method, visual inspection also showed a downward concentration bias in the diffusion-sample concentration. The degree to which pumped- and diffusion-sample concentrations agreed was not a result of variability inherent within the sampling methods or the diffusion process itself. A comparison of the degree of agreement in the results from the two methods to 13 quantifiable characteristics external to the sampling methods offered only well-screen length as being related to the degree of agreement between the methods; however, there is also evidence to indicate that the flushing rate of water through the well screen affected the agreement between the sampling methods. Despite poor agreement between the concentrations obtained by the two methods at some wells, the degree to which the concentrations agree at a given well is repeatable. A one-time, well-bywell comparison between diffusion- and pumped-sampling methods could determine which wells are good candidates for the use of diffusion samplers. For wells with good method agreement, the diffusion-sampling method is a time-saving and cost-effective alternative to pumped-sampling methods in a long-term monitoring program, such as at the Massachusetts Military Reservation.

  11. Investigation to develop a method to apply diffusion barrier to high strength fibers

    NASA Technical Reports Server (NTRS)

    Veltri, R. D.; Paradis, R. D.; Douglas, F. C.

    1975-01-01

    A radio frequency powered ion plating process was used to apply the diffusion barriers of aluminum oxide, yttrium oxide, hafnium oxide and titanium carbide to a substrate tungsten fiber. Each of the coatings was examined as to its effect on both room temperature strength and tensile strength of the base tungsten fiber. The coated fibers were then overcoated with a nickel alloy to become single cell diffusion couples. These diffusion couples were exposed to 1093 C for 24 hours, cycled between room temperature and 1093 C, and given a thermal anneal for 100 hours at 1200 C. Tensile testing and metallographic examinations determined that the hafnium oxide coating produced the best high temperature diffusion barrier for tungsten of the four coatings.

  12. A STABILIZED FINITE ELEMENT METHOD FOR ADVECTION-DIFFUSION EQUATIONS ON SURFACES

    E-print Network

    Olshanskii, Maxim A.

    is sufficiently fine. The paper introduces a stabilized finite element formulation based on the SUPG technique, advection-diffusion equation, SUPG stabilization AMS subject classifications. 58J32, 65N12, 65N30, 76D45, 76

  13. Simultaneous measurement of thermal conductivity and thermal diffusivity of solids by the parallel-wire method

    NASA Astrophysics Data System (ADS)

    Zhang, Y. Z.; Cheng, S. X.; Lee, J. A.; Ge, X. S.

    1991-05-01

    An improved parallel-wire technique for simultaneous measurement of thermal conductivity and thermal diffusivity is presented. The deviation between experimental results and recommended (or another author's) values is less than 5% for fused quartz and refractory brick.

  14. DEVELOPMENT OF SPLIT-OPERATOR, PETROV-GALERKIN METHODS TO SIMULATE TRANSPORT AND DIFFUSION PROBLEMS

    EPA Science Inventory

    The rate at which contaminants in groundwater undergo sorption and desorption is routinely described using diffusion models. Such approaches, when incorporated into transport models, lead to large systems of coupled equations, often nonlinear. This has restricted applications of ...

  15. DEVELOPMENT OF SPLIT-OPERATOR, PETROV-GALERKIN METHODS TO STIMULATE TRANSPORT AND DIFFUSION PROBLEMS

    EPA Science Inventory

    The rate at which contaminants in groundwater undergo sorption and desorption is routinely described using diffusion models. uch approaches, when incorporated into transport models, lead to large systems of coupled equations, often nonlinear. his has restricted applications of co...

  16. The Adomian Decomposition Method for Solving a Moving Boundary Problem Arising from the Diffusion of Oxygen in Absorbing Tissue

    PubMed Central

    Bougoffa, Lazhar

    2014-01-01

    This paper begins by giving the results obtained by the Crank-Gupta method and Gupta-Banik method for the oxygen diffusion problem in absorbing tissue, and then we propose a new resolution method for this problem by the Adomian decomposition method. An approximate analytical solution is obtained, which is demonstrated to be quite accurate by comparison with the numerical and approximate solutions obtained by Crank and Gupta. The study confirms the accuracy and efficiency of the algorithm for analytic approximate solutions of this problem. PMID:25165743

  17. Selection of tumour cell subpopulations occurs during cultivation of human tumours in soft agar. A DNA flow cytometric study.

    PubMed Central

    Tveit, K. M.; Pettersen, E. O.; Fosså, S. D.; Pihl, A.

    1985-01-01

    To examine whether selection of tumour cell subpopulations occurs during cultivation in soft agar, we compared in 23 human tumours of different histological types the DNA content of cells from colonies formed in soft agar (method of Courtenay and Mills, 1978) with that of the original tumour cells. The ploidy as well as the fraction of cells in S phase were determined from DNA histograms after staining of the nuclei with a propidium-iodide procedure and flow cytometric recordings. In 8 of 17 aneuploid tumours analysed, specific aneuploid subpopulations disappeared during cultivation or new aneuploid populations, not demonstrable in the original cell suspensions, appeared in the colonies. In 9 cases identical aneuploid populations were found in the colonies and the tumours. In one of 6 diploid tumours examined, aneuploid cell populations not revealed in the original cell suspension, were found in addition to diploid cells, whereas 5 tumours gave rise to colonies containing a purely diploid population. The results show that in a variety of human malignant tumours cultivation in soft agar may select specific aneuploid tumour cell populations. PMID:4063145

  18. An improved design method and experimental performance of two dimensional curved wall diffusers

    NASA Technical Reports Server (NTRS)

    Yang, T.; Hudson, W. G.; El-Nashar, A. M.

    1972-01-01

    A computer design program was developed to incorporate the suction slots in solving the potential flow equations with prescribed boundary conditions. Using the contour generated from this program two Griffith diffusers were tested having area ratios AR = 3 and 4. The inlet Reynolds number ranged from 600,000 to 7 million. It was found that the slot suction required for metastable operation depends on the sidewall suction applied. Values of slot suction of 8% of the inlet flow rate was required for AR = 4 with metastable condition, provided that enough sidewall suction was applied. For AR = 3, the values of slot suction was about 25% lower than those required for AR = 4. For nearly all unseparated test runs, the effectiveness was 100% and the exit flow was uniform. In addition to the Griffith diffusers, dump and cusp diffusers of comparable area ratios were built and tested. The results obtained from these diffusers were compared with those of the Griffith diffusers. Flow separation occurred in all test runs with the dump and cusp diffusers.

  19. Jc enhancement of high density MgB 2 bulk made by Premix-PICT-Diffusion method

    NASA Astrophysics Data System (ADS)

    Iwayama, I.; Ueda, S.; Yamamoto, A.; Katsura, Y.; Shimoyama, J.; Horii, S.; Kishio, K.

    2007-09-01

    A high Jc of 1.05 MA/cm 2 at 20 K in self-field was achieved by a MgB 2 bulk synthesized by newly developed “Premix-Powder-In-Closed-Tube-Diffusion” (Premix-PICT-Diffusion) method starting from Mg and powder mixture of B and MgB 2, which were separately packed into Nb tubes. MgB 2 bulks prepared by this method are highly dense without voids and cracks, resulting in two or three times larger effective grain connecting area contributing dramatically high Jc compared with the conventional PICT-processed porous bulks. This method will be easily extended for development of superconducting current leads with large capacities.

  20. [Evaluation of a new medium, eggplant (Solanum melongena) agar as a screening medium for Cryptococcus neoformans in environmental samples].

    PubMed

    Sengul, Mustafa; Ergin, Ca?r?; Kartal, Tu?ba

    2014-04-01

    Cryptococcus neofomans is an encapsulated yeast-like fungus that causes life-threatening infections, especially in immunosuppresive patients. C.neoformans infection is believed to be acquired via inhalation of aerosolized particles from the environment. Avian guano, decaying tree hollows and soil are the related known environmental niches. Brown pigmented yeast growth from the precursors in growth media is an important step for the identification and isolation of C.neoformans. Seeds of plants in nature are preferred owing to easy accessibility and low costs for the preparation of such media. Guizotia abysinicca (Niger seed) as Staib agar, Helianthus annus (Sunflower) as Pal's medium, Brassica nigra (Mustard) agar, tobacco agar, Mucuna pruriens (Velvet bean) seed agar, Perilla frutescens (Beefsteak plant) seed agar, Rubus fruticosus (Blackberry) agar and ground red hot pepper agar are pigment-based selective media for the differentiation of C.neoformans. The aim of this study was to observe the pigment production of C.neoformans in a new medium based on eggplant (Solanum melongena) and also to compare its performance with the simplified Staib, Pal's and tobacco agar for isolation from the environment. Three different eggplant-based medium (S.melongena Melanzaza viserba, S.melongena Pinstripe F1 and S.ovigerum Ivory F1) were included in the study. Pigment-forming eggplant medium, simplified Staib agar, Pal's agar and tobacco agar were used for the cultivation of the environmental swabbed samples from 19 Eucalyptus camaldulensis trunk hollows in continuous colonization region. While pigment formation were observed with S.melongena Melanzaza viserba and S.melongena Pinstripe F1 containing media, S.ovigerum Ivory F1 medium was found to be non-reactive. In colonization area (Gökova-Akyaka, Turkey), 11 (57.9%) out of 19 E.camaldulensis samples were positive with simplified Staib agar, Pal's agar and eggplant agar while 10 (52.6%) of them are positive with tobacco agar. C.neoformans colony forming unit (cfu) per plate were found as 51, 57 and 48 (median values) on simplified Staib agar, Pal's agar and eggplant agar, respectively, while tobacco agar has lower performance with 33 cfu/petri. No statistically significant difference were found between simplified Staib agar, Pal's agar and eggplant agar's performances for C.neoformans isolations from the nature (p=0.71). In conclusion, easily prepared eggplant agar is as functional as widely used media such as simplified Staib agar and Pal's agar for the isolation of C.neoformans from the natural environment. PMID:24819266

  1. Caprylate-thallous agar medium for selectively isolating Serratia and its utility in the clinical laboratory.

    PubMed Central

    Starr, M P; Grimont, P A; Grimont, F; Starr, P B

    1976-01-01

    A defined agar medium (hereinafter designated caprylate-thallous [CT5 agar) containing 0.01% yeast extract, 0.1% caprylic (n-octanoic) acid, and 0.025% thallous sulfate is highly selective for all Serratia species and effectively discriminates against most non-Serratia strains likely to be in the same habitats. The selectivity of CT agar is demonstrated by the very high efficiency of colony formation (mean, 80.7% of that on a nonselective complex medium) on CT agar by known Serratia strains and the very low efficiency of colony formation (close to zero) on CT agar by bacterial strains known not to be Serratia. The utility of this medium in actual clinical laboratory practice is demonstrated by the more rapid and higher recovery of Serratia on this selective medium as compared to conventional procedures of in-tandem runs of 513 consecutive urine, feces, and sputum specimens. Pigmented and nonpigmented Serratia strains deliberately added to fecal specimens can be selectively and quantitatively recovered on CT agar. CT agar compares favorably with, or in some cases is an improvement over, other selective media which have been recommended for isolating Serratia. This selective CT agar medium could be quite useful in ecological surveys, especially those related to hospital-acquired infections. PMID:972193

  2. Agar gel electrophoresis of proteolytic enzymes in gastric juice of patients with chronic gastritis

    Microsoft Academic Search

    Mona Agunod; George B. Jerzy Glass

    1972-01-01

    Agar gel electrophoresis with proteolytic digestion of albumin substrate and subsequent Chromoscan analysis of the agar slide, were used to study the proteolytic enzymes of gastric juice in 28 patients with atrophic gastritis with or without intestinal metaplasia, 7 patients with chronic superficial gastritis and 6 with a normal gastric mucosa. Five proteolytic enzyme spots, designated I through V in

  3. Electrospinning of agar/PVA aqueous solutions and its relation with rheological properties.

    PubMed

    Sousa, Ana M M; Souza, Hiléia K S; Uknalis, Joseph; Liu, Shih-Chuan; Gonçalves, Maria P; Liu, LinShu

    2015-01-22

    In this work, we report the successful fabrication of agar-based nanofibers by electrospinning technique, using water as solvent media. A tubeless spinneret was attached inside the electrospinning chamber, operating at 50°C, to avoid agar gelation. Agar pure solution (1 wt%) showed inadequate spinnability regardless of the used electrospinning conditions. The addition of a co-blending polymer such as PVA (10 wt% starting solution) improved the solutions viscoelasticity and hence, the solutions spinnability. Agar/PVA solutions were prepared with different mass ratios (100/0, 50/50, 40/60, 30/70, 20/80 and 0/100) and electrospun at various sets of electrospinning conditions. Best nanofibers were obtained with 30/70 and 20/80 agar/PVA blends while samples with higher agar contents (50/50 and 40/60 agar/PVA) were harder to process and led to discontinuous fibrous mats. This first set of encouraging results can open a new window of opportunities for agar-based biomaterials in the form of nanofibers. PMID:25439904

  4. Standing Stock, Agar Yield and Properties of Gracilaria salicornia Harvested along the Tanzanian Coast

    Microsoft Academic Search

    A. S. Buriyo; A. K. Kivaisi

    Seasonal biomass variation and agar yield of G. salicornia (C. Ag.) Dawson from Oyster Bay, Dar es Salaam, and Chwaka Bay, Zanzibar, were determined, and some properties of the agar examined. Mean biomass and canopy cover values ranged from 21-60 g\\/m 2 and 7- 20 %, respectively. The highest mean biomass and cover values were obtained during the SE monsoon.

  5. Agar medium for use in susceptibility testing of bacteria from human periodontal pockets.

    PubMed

    Walker, C B; Niebloom, T A; Socransky, S S

    1979-10-01

    An agar medium (medium V) was formulated to determine the minimal inhibitory concentrations (MICs) of antimicrobial agents for bacteria encountered in human periodontal pockets. The medium contained (per liter) Trypticase, 15 g; yeast extract, 5 g; sodium chloride, 5 g; glucose, 2 g; sodium pyruvate, 2 g; sodium formate, 1 g; sodium fumarate, 1.5 g; sodium succinate, 0.1 g; Tween 80, 0.25 ml; agar, 15 g; hemin, 5 mg; and menadione, 0.5 mg. The growth of 50 oral strains was compared on this and six other media which included: Wilkins-Chalgren agar, Schaedler agar, Brucella agar, Trypticase-soy blood agar, and Schaedler and Brucella agars supplemented with whole blood. Growth, for most strains, was greatest on medium V. Medium V was also compared with Wilkins-Chalgren agar, using the same oral strains, to determine the MICs of the following antibiotics: penicillin, tetracycline, chloramphenicol, clindamycin, and erythromycin. The MICs of these antibiotics were essentially the same on both media when growth was quantitatively similar. PMID:518074

  6. Copper removal by algae Gelidium, agar extraction algal waste and granulated algal waste: Kinetics and equilibrium

    Microsoft Academic Search

    Vítor J. P. Vilar; Cidália M. S. Botelho; Rui A. R. Boaventura

    2008-01-01

    Biosorption of copper ions by an industrial algal waste, from agar extraction industry has been studied in a batch system. This biosorbent was compared with the algae Gelidium itself, which is the raw material for agar extraction, and the industrial waste immobilized with polyacrylonitrile (composite material).The effects of contact time, pH, ionic strength (IS) and temperature on the biosorption process

  7. Preparation and characterization of solid lipid nanoparticles containing cyclosporine by the emulsification-diffusion method

    PubMed Central

    Urbán-Morlán, Zaida; Ganem-Rondero, Adriana; Melgoza-Contreras, Luz María; Escobar-Chávez, José Juan; Nava-Arzaluz, María Guadalupe; Quintanar-Guerrero, David

    2010-01-01

    Solid lipid nanoparticles (SLNs) have been used for carrying different therapeutic agents because they improve absorption and bioavailability. The aim of the study was to prepare lipidic nanoparticles containing cyclosporine (CyA) by the emulsification-diffusion method and to study their physicochemical stability. Glyceryl behenate (Compritol® ATO 888) and lauroyl macrogolglycerides (Gelucire® 44/14) were used as carrier materials. Nanoparticles with good stability were obtained with Gelucire®, while it was difficult to obtain stable systems with Compritol®. Systems with Gelucire® were characterized by particle size, Z-potential, differential scanning calorimetry (DSC), scanning electron microscopy (SEM), entrapment efficiency and in vitro release. Particle size and Z-potential were evaluated for at least three months. With a high CyA content (?60 mg) in Gelucire® SLNs, variations in size were greater and particle size also increased over time in all batches; this effect may have been caused by a probable expulsion of the drug due to the lipid’s partial rearrangement. While the Z-potential decreased 10 mV after three months, this effect may be explained by the superficial properties of the drug that make the molecules to be preferably oriented at the solid-liquid interface, causing a change in the net charge of the particle. SEM confirmed size and shape of the nanoparticles. DSC studies evidenced that CyA affects the lipid structure by a mechanism still unknown. The entrapment efficiency was higher than 92%, and CyA release from SLNs was relatively fast (99.60% in 45 min). PMID:20856836

  8. Diffuse Interstellar Band at 8620 Å in RAVE: A New Method for Detecting the Diffuse Interstellar Band in Spectra of Cool Stars

    NASA Astrophysics Data System (ADS)

    Kos, J.; Zwitter, T.; Grebel, E. K.; Bienayme, O.; Binney, J.; Bland-Hawthorn, J.; Freeman, K. C.; Gibson, B. K.; Gilmore, G.; Kordopatis, G.; Navarro, J. F.; Parker, Q.; Reid, W. A.; Seabroke, G.; Siebert, A.; Siviero, A.; Steinmetz, M.; Watson, F.; Wyse, R. F. G.

    2013-12-01

    Diffuse interstellar bands (DIBs) are usually observed in spectra of hot stars, where interstellar lines are rarely blended with stellar ones. The need for hot stars is a strong limitation in the number of sightlines we can observe and their distribution in the Galaxy, as hot stars are rare and concentrated in the Galactic plane. We are introducing a new method, where interstellar lines can be observed in spectra of cool stars in large spectroscopic surveys. The method is completely automated and does not require prior knowledge of the stellar parameters. The main step is a construction of the stellar spectrum, which is done by finding other observed spectra that lack interstellar features and are otherwise very similar to the spectrum in question. Such spectra are then combined into a single stellar spectrum template, matching the stellar component of the observed spectrum. We demonstrate the performance of this new method on a sample of 482,430 Radial Velocity Experiment survey spectra. However, many spectra have to be combined (48 on average) in order to achieve a signal-to-noise ratio high enough to measure the profile of the DIB at 8620 Å, hence limiting the spatial information about the interstellar medium. We compare its equivalent width with extinction maps and with Bayesian reddening, calculated for individual stars, and provide a linear relation between the equivalent width and reddening. Separately from the introduced method, we calculate equivalent widths of the DIB in spectra of hot stars with known extinction and compare all three linear relations.

  9. Large-scale conductivity-tensor calculations for Hall effects in time-dependent wave-packet diffusion method

    NASA Astrophysics Data System (ADS)

    Ishii, Hiroyuki; Tamura, Hiroyuki; Tsukada, Masaru; Kobayashi, Nobuhiko; Hirose, Kenji

    2014-10-01

    We present a computational methodology to evaluate the conductivity tensors of "large-scale" systems in a magnetic field based on the time-dependent wave-packet diffusion method. As demonstrations, we first apply the method to the two-dimensional square lattice model with static disorder and confirm appropriate magnetic-field dependence of conductivities from weak to strong magnetic-field regimes. Furthermore, we extend the method to apply to realistic systems and evaluate the influence of dynamical disorder on the Hall effects of organic semiconductors, taking microscopic molecular vibrations into account.

  10. Alternating direction implicit Galerkin finite element method for the two-dimensional fractional diffusion-wave equation

    NASA Astrophysics Data System (ADS)

    Li, Limei; Xu, Da; Luo, Man

    2013-12-01

    New numerical techniques are presented for the solution of the two-dimensional fractional diffusion-wave equation with a time fractional derivative of order ?(1methods, Galerkin finite element is used for the spatial discretization, and, for the time stepping, new alternating direction implicit (ADI) method based on the Crank-Nicolson method are considered. The unconditional stability and L2 norm convergence of the ADI scheme are proved rigorously. Numerical results are presented to support our theoretical analysis.

  11. Gas-phase cleanup method for analysis of trace atmospheric semivolatile organic compounds by thermal desorption from diffusion denuders.

    PubMed

    Rowe, Mark D; Perlinger, Judith A

    2009-08-01

    A novel gas-phase cleanup method was developed for use with a thermal desorption method for analysis of trace semivolatile organic compounds (SOCs) in the atmosphere using diffusion denuder samplers to separate gas-phase from particle-associated fractions. The cleanup selectively removed hydrogen-bonding chemicals from samples, including much of the background matrix of oxidized organic compounds that is present in ambient air samples. Abraham solvation parameters were found to be useful predictors of recovery of compounds through the cleanup method; most compounds with A+B<0.3 and Lmethod. Addition of the cleanup method successfully produced baseline resolution in air samples and improved method precision. The utility of the method was demonstrated in an investigation of the built environment as a continuing source of semivolatile persistent, bioaccumulative, and toxic chemicals (PBTs) to the atmosphere. PMID:19570539

  12. Determining Enzyme Activity by Radial Diffusion

    ERIC Educational Resources Information Center

    Davis, Bill D.

    1977-01-01

    Discusses advantages of radial diffusion assay in determining presence of enzyme and/or rough approximation of amount of enzyme activities. Procedures are included for the preparation of starch-agar plates, and the application and determination of enzyme. Techniques using plant materials (homogenates, tissues, ungerminated embryos, and seedlings)…

  13. Modeling Surface Growth of Escherichia coli on Agar Plates

    PubMed Central

    Fujikawa, Hiroshi; Morozumi, Satoshi

    2005-01-01

    Surface growth of Escherichia coli cells on a membrane filter placed on a nutrient agar plate under various conditions was studied with a mathematical model. The surface growth of bacterial cells showed a sigmoidal curve with time on a semilogarithmic plot. To describe it, a new logistic model that we presented earlier (H.?Fujikawa et al., Food Microbiol. 21:501-509, 2004) was modified. Growth curves at various constant temperatures (10 to 34°C) were successfully described with the modified model (model III). Model III gave better predictions of the rate constant of growth and the lag period than a modified Gompertz model and the Baranyi model. Using the parameter values of model III at the constant temperatures, surface growth at various temperatures was successfully predicted. Surface growth curves at various initial cell numbers were also sigmoidal and converged to the same maximum cell numbers at the stationary phase. Surface growth curves at various nutrient levels were also sigmoidal. The maximum cell number and the rate of growth were lower as the nutrient level decreased. The surface growth curve was the same as that in a liquid, except for the large curvature at the deceleration period. These curves were also well described with model III. The pattern of increase in the ATP content of cells grown on a surface was sigmoidal, similar to that for cell growth. We discovered several characteristics of the surface growth of bacterial cells under various growth conditions and examined the applicability of our model to describe these growth curves. PMID:16332768

  14. Controlled generation of black carbon particles from a diffusion flame and applications in evaluating black carbon measurement methods

    Microsoft Academic Search

    Thomas W. Kirchstetter; T. Novakov

    2007-01-01

    Measurements of black carbon (BC) concentration have long been uncertain. Neither a BC standard or a technique that provides a reliable measurement of BC exist, which precludes the evaluation and optimization of BC measurement methods. In this manuscript, we describe the generation of BC particles (mass absorption efficiency ?8.5m2g?1 and single scattering albedo ?0.2 at 530nm) using an inverted diffusion

  15. Theory of the generalized chloride mass balance method for recharge estimation in groundwater basins characterised by point and diffuse recharge

    NASA Astrophysics Data System (ADS)

    Somaratne, N.; Smettem, K. R. J.

    2014-01-01

    Application of the conventional chloride mass balance (CMB) method to point recharge dominant groundwater basins can substantially under-estimate long-term average annual recharge by not accounting for the effects of localized surface water inputs. This is because the conventional CMB method ignores the duality of infiltration and recharge found in karstic systems, where point recharge can be a contributing factor. When point recharge is present in groundwater basins, recharge estimation is unsuccessful using the conventional CMB method with, either unsaturated zone chloride or groundwater chloride. In this paper we describe a generalized CMB that can be applied to groundwater basins with point recharge. Results from this generalized CMB are shown to be comparable with long-term recharge estimates obtained using the watertable fluctuation method, groundwater flow modelling and Darcy flow calculations. The generalized CMB method provides an alternative, reliable long-term recharge estimation method for groundwater basins characterised by both point and diffuse recharge.

  16. Repeatability and variation of region-of-interest methods using quantitative diffusion tensor MR imaging of the brain

    PubMed Central

    2012-01-01

    Background Diffusion tensor imaging (DTI) is increasingly used in various diseases as a clinical tool for assessing the integrity of the brain’s white matter. Reduced fractional anisotropy (FA) and an increased apparent diffusion coefficient (ADC) are nonspecific findings in most pathological processes affecting the brain’s parenchyma. At present, there is no gold standard for validating diffusion measures, which are dependent on the scanning protocols, methods of the softwares and observers. Therefore, the normal variation and repeatability effects on commonly-derived measures should be carefully examined. Methods Thirty healthy volunteers (mean age 37.8 years, SD 11.4) underwent DTI of the brain with 3T MRI. Region-of-interest (ROI) -based measurements were calculated at eleven anatomical locations in the pyramidal tracts, corpus callosum and frontobasal area. Two ROI-based methods, the circular method (CM) and the freehand method (FM), were compared. Both methods were also compared by performing measurements on a DTI phantom. The intra- and inter-observer variability (coefficient of variation, or CV%) and repeatability (intra-class correlation coefficient, or ICC) were assessed for FA and ADC values obtained using both ROI methods. Results The mean FA values for all of the regions were 0.663 with the CM and 0.621 with the FM. For both methods, the FA was highest in the splenium of the corpus callosum. The mean ADC value was 0.727 ×10-3 mm2/s with the CM and 0.747 ×10-3 mm2/s with the FM, and both methods found the ADC to be lowest in the corona radiata. The CV percentages of the derived measures were < 13% with the CM and < 10% with the FM. In most of the regions, the ICCs were excellent or moderate for both methods. With the CM, the highest ICC for FA was in the posterior limb of the internal capsule (0.90), and with the FM, it was in the corona radiata (0.86). For ADC, the highest ICC was found in the genu of the corpus callosum (0.93) with the CM and in the uncinate fasciculus (0.92) with FM. Conclusions With both ROI-based methods variability was low and repeatability was moderate. The circular method gave higher repeatability, but variation was slightly lower using the freehand method. The circular method can be recommended for the posterior limb of the internal capsule and splenium of the corpus callosum, and the freehand method for the corona radiata. PMID:23057584

  17. Integration of biological control with other methods to restore rangeland infested with spotted and diffuse knapweed

    Technology Transfer Automated Retrieval System (TEKTRAN)

    A four-year field study was conducted to test alternative control strategies for spotted knapweed and at Fort Carson, CO and diffuse knapweed at Yakima Training Center, WA. We evaluated the control of these alien invasive weeds with a combination of four manipulations to speed up restoration of des...

  18. MULTIGRID METHOD FOR A MODIFIED CURVATURE DRIVEN DIFFUSION MODEL FOR IMAGE INPAINTING

    Microsoft Academic Search

    Carlos Brito-loeza; Ke Chen

    Abstract Digital inpainting is a fundamental problem in image processing and many,variational models for this problem have appeared recently in the literature. Among them are the very successfully Total Variation (TV) model [11] designed for local inpainting and its improved version for large scale inpainting: the Curvature-Driven Diffusion (CDD) model [10]. For the above two models, their associated Euler Lagrange

  19. A posteriori error estimations of a SUPG method for anisotropic diffusion–convection–reaction problems

    Microsoft Academic Search

    Thomas Apel; Serge Nicaise

    2007-01-01

    This Note presents an a posteriori residual error estimator for diffusion–convection–reaction problems approximated by a SUPG scheme on isotropic or anisotropic meshes in Rd, d=2 or 3. This estimator is based on the jump of the flux and the interior residual of the approximated solution. It is constructed to work on anisotropic meshes which account for the eventual anisotropic behavior

  20. Optimal modified method for a fractional-diffusion inverse heat conduction problem

    Microsoft Academic Search

    Zhi Qian

    2010-01-01

    We consider the determination of the boundary temperature from one measured transient data temperature at some interior point of a one-dimensional semi-infinite conductor. Mathematically, it can be formulated as a fractional-diffusion inverse heat conduction problem where data are given at x = l and we want to determine a solution for 0 < x < l. This problem arises in

  1. An Innovative Method for Preparing Semiconductor Change Used in Crystal Growth and Shear Cell Diffusion Experiments

    NASA Technical Reports Server (NTRS)

    Anrold, William A.; Matthiesen, David; Benett, Robert J.; Jayne, Douglas T.

    1997-01-01

    An innovative technique for machining semiconductors has been developed. This technique was used to prepare semiconductor charges for crystal growth and shear cell diffusion experiments. The technique allows brittle semiconductor materials to be quickly and accurately machined. Lightly doping the semiconductor material increases the conductivity enough to allow the material to be shaped by an electrical discharge machine (EDM).

  2. Reduction methods for advection-diffusion-reaction systems: Application to atmospheric pollution.

    E-print Network

    Kern, Michel

    exports (70 ¡ of SO ¢ , 63 ¡ of NO £ ) ¤ Outside France (CEE) Directives and protocols for reduction conditions for vertical diffusion, Boundary conditions for advection : Forcing by large scale model (eg): 12-24 hours on PIV (2.8 GHZ). Chemistry 70 ¡ of global CTM CPU time. ¡£¢ ¤¦ ¥¦ #12;Impact

  3. On the properties of agar gel containing ionic and non-ionic surfactants.

    PubMed

    Prasad, Kamalesh; Siddhanta, A K; Rakshit, A K; Bhattacharya, Amit; Ghosh, Pushpito K

    2005-04-01

    Rheological and thermal properties of agar sol and gel in presence of various cationic, anionic and non-ionic surfactants are reported. The agar used was from the red seaweed Gelidiella acerosa. The gel strength, viscosity, rigidity (G'), gelling temperature and melting temperature were observed to decrease in presence of non-ionic surfactants whereas these were enhanced in presence of ionic surfactants. TGA studies showed that 1.5% agar gels containing non-ionic surfactants lose water at a lower temperature than the control agar gel whereas gels containing ionic surfactants hold on to water more tenaciously. DSC studies, on the other hand, show that the gel to sol transition occurs at lower temperatures in presence of non-ionic surfactants and at higher temperature in presence of ionic surfactants when compared with the control gel. The non-ionic surfactants, Triton X-100 and Brij 35, enabled relatively concentrated agar extractive to be filtered readily, as a result of which water usage in the process could be reduced by 50%. The surfactant was subsequently removed through freeze-thaw operations to restore the gelling capacity of the agar. The finding that 0.3-0.4% (w/v) sodium lauryl sulfate (SLS) lowers the sol-gel transition temperature from 41 to 36 degrees C without adversely affecting gel strength is another useful outcome of the study that may enable better formulations of bacteriological agar to be prepared. PMID:15811467

  4. Solution of the Nonlinear Fractional Diffusion Equation with Absorbent Term and External Force Using Optimal Homotopy-Analysis Method

    NASA Astrophysics Data System (ADS)

    Vishal, Kumar; Das, Subir

    2012-04-01

    In this article, the optimal homotopy-analysis method (HAM) is used to obtain approximate analytic solutions of the time-fractional nonlinear diffusion equation in the presence of an external force and an absorbent term. The fractional derivatives are considered in the Caputo sense to avoid nonzero derivative of constants. Unlike usual HAM this method contains at the most three convergence control parameters which determine the fast convergence of the solution through different choices of convergence control parameters. Effects of proper choice of parameters on the convergence of the approximate series solution by minimizing the averaged residual error for different particular cases are depicted through tables and graphs

  5. Polyamide-thallium selenide composite materials via temperature and pH controlled adsorption-diffusion method

    NASA Astrophysics Data System (ADS)

    Ivanauskas, Remigijus; Samardokas, Linas; Mikolajunas, Marius; Virzonis, Darius; Baltrusaitis, Jonas

    2014-10-01

    Composite materials based on III-VI elements are promising in designing efficient photoelectronic devices, such as thin film organic-inorganic solar cells. In this work, TlSe composite materials were synthesized on a model polymer polyamide using temperature and pH controlled adsorption-diffusion method via (a) selenization followed by (b) the exposure to the group III metal (Tl) salt solution and their surface morphological, chemical and crystalline phase information was determined with particular focus on their corresponding structure-optical property relationship. XRD analysis yielded a complex crystalline phase distribution which correlated well with the optical and surface morphological properties measured. pH 11.3 and 80 °C yielded well defined, low structural disorder composite material surface. After annealing in N2 at 100 °C, polycrystalline PA-TlxSey composite materials yielded a single TlSe phase due to the enhanced diffusion and reaction of thallium ions into the polymer. The method described here can be used to synthesize variety of binary III-VI compounds diffused into the polymer at relatively low temperatures and low overall cost, thus providing for a flexible synthesis route for novel composite solar energy harvesting materials.

  6. Diffusion Geometry Diffusion Geometry

    E-print Network

    Hirn, Matthew

    Diffusion Geometry Diffusion Geometry for High Dimensional Data Matthew J. Hirn July 3, 2013 #12;Diffusion Geometry Introduction Embedding of closed curve Figure: Left: A closed, non-self-intersecting curve in 3 dimensions. Right: Its embedding as a circle. #12;Diffusion Geometry Introduction Cartoon

  7. Speckle contrast optical spectroscopy, a non-invasive, diffuse optical method for measuring microvascular blood flow in tissue.

    PubMed

    Valdes, Claudia P; Varma, Hari M; Kristoffersen, Anna K; Dragojevic, Tanja; Culver, Joseph P; Durduran, Turgut

    2014-08-01

    We introduce a new, non-invasive, diffuse optical technique, speckle contrast optical spectroscopy (SCOS), for probing deep tissue blood flow using the statistical properties of laser speckle contrast and the photon diffusion model for a point source. The feasibility of the method is tested using liquid phantoms which demonstrate that SCOS is capable of measuring the dynamic properties of turbid media non-invasively. We further present an in vivo measurement in a human forearm muscle using SCOS in two modalities: one with the dependence of the speckle contrast on the source-detector separation and another on the exposure time. In doing so, we also introduce crucial corrections to the speckle contrast that account for the variance of the shot and sensor dark noises. PMID:25136500

  8. Speckle contrast optical spectroscopy, a non-invasive, diffuse optical method for measuring microvascular blood flow in tissue

    PubMed Central

    Valdes, Claudia P.; Varma, Hari M.; Kristoffersen, Anna K.; Dragojevic, Tanja; Culver, Joseph P.; Durduran, Turgut

    2014-01-01

    We introduce a new, non-invasive, diffuse optical technique, speckle contrast optical spectroscopy (SCOS), for probing deep tissue blood flow using the statistical properties of laser speckle contrast and the photon diffusion model for a point source. The feasibility of the method is tested using liquid phantoms which demonstrate that SCOS is capable of measuring the dynamic properties of turbid media non-invasively. We further present an in vivo measurement in a human forearm muscle using SCOS in two modalities: one with the dependence of the speckle contrast on the source-detector separation and another on the exposure time. In doing so, we also introduce crucial corrections to the speckle contrast that account for the variance of the shot and sensor dark noises. PMID:25136500

  9. Reliability of Disk Diffusion Test Results for the Antimicrobial Susceptibility Testing of Nosocomial Gram-positive Microorganisms: Is E-test Method Better?

    PubMed Central

    Khalili, Hossein; Soltani, Rasool; Negahban, Sorrosh; Abdollahi, Alireza; Gholami, Keirollah

    2012-01-01

    Disk diffusion test is the usual applicable method for assessing the antimicrobial susceptibility pattern in most institutions and hospitals. The aim of this study was to determine the reliability of resistant-reported results of disk diffusion test for 6 routinely used antibiotics against Gram-positive microorganisms of nosocomial origin, using E-test method. Over a 1-year period, clinical specimens (e.g. blood, tracheal secretions, wound secretions, urine, etc.) were obtained from hospitalized patients with defined nosocomial infection and were cultured. Isolated Gram-positive bacteria underwent disk diffusion test for cephalothin, oxacillin, clindamycin, ciprofloxacin, vancomycin, teicoplanin (only for Enterococci), and meropenem antibiotics. E-test method was performed for all isolates resistant or intermediately sensitive to the disks of any mentioned antibiotics. Data showed compatible results of disk diffusion test with the results of E-test method for cephalothin, oxacillin, ciprofloxacin, vancomycin, and teicoplanin. None of ciprofloxacin- and vancomycin-resistant isolates in disk diffusion test showed sensitivity in E-test method. Significant differences between the results of disk diffusion and E-test methods were observed for clindamycin and meropenem against S.aureus (p = 0.01 and 0.04, respectively) and Enterococcus spp (p = 0.03 and 0.02, respectively). In order to increase the reliability of antimicrobial susceptibility results, it is recommended to perform E-test for nosocomial Gram-positive microorganisms that show antibiotic resistance by disk diffusion test and it is more important for clindamycin and meropenem. PMID:24250479

  10. Intrauterine device for laser light diffusion and method of using the same

    DOEpatents

    Tadir, Y.; Berns, M.W.; Svaasand, L.O.; Tromberg, B.J.

    1995-12-26

    An improved device for delivery of photoenergy from a light source, such as a laser, into a uterine cavity for photodynamic therapy is comprised of a plurality of optic fibers, which are bundled together and inserted into the uterine cavity by means of a uterine cannula. The cannula is positioned within the uterine cavity at a preferred location and then withdrawn thereby allowing the plurality of optic fibers to splay or diverge one from the other within the cavity. Different portions of the distal tip of the optic fiber is provided with a light diffusing tip, the remainder being provided with a nondiffusing tip portion. The fiber optic shape, as well as the segment which is permitted to actively diffuse light through the tip, is selected in order to provide a more uniform exposure intensity of the photo energy or at least sufficient radiation directed to each segment of the uterine walls. 5 figs.

  11. Intrauterine device for laser light diffusion and method of using the same

    DOEpatents

    Tadir, Yona (Irvine, CA); Berns, Michael W. (Trabuco Canyon, CA); Svaasand, Lars O. (Trondheim, NO); Tromberg, Bruce J. (Irvine, CA)

    1995-01-01

    An improved device for delivery of photoenergy from a light source, such as a laser, into a uterine cavity for photodynamic therapy is comprised of a plurality of optic fibers, which are bundled together and inserted into the uterine cavity by means of a uterine cannula. The cannula is positioned within the uterine cavity at a preferred location and then withdrawn thereby allowing the plurality of optic fibers to splay or diverge one from the other within the cavity. Different portions of the distal tip of the optic fiber is provided with a light diffusing tip, the remainder being provided with a nondiffusing tip portion. The fiber optic shape, as well as the segment which is permitted to actively diffuse light through the tip, is selected in order to provide a more uniform exposure intensity of the photo energy or at least sufficient radiation directed to each segment of the uterine walls.

  12. High internal phase agar hydrogel dispersions in cocoa butter and chocolate as a route towards reducing fat content.

    PubMed

    Skelhon, Thomas S; Olsson, Patrik K A; Morgan, Adam R; Bon, Stefan A F

    2013-09-01

    Reducing the fat content of chocolate formulations is a major challenge for the confectionery industry. We report the suspension of aqueous microgel agar particles of up to 80% v/v within sunflower oil, cocoa butter, and ultimately chocolate. The optimised emulsification process involves a shear-cooling step. We demonstrate the versatility of our method when applied to white, milk, and dark chocolate formulations, whilst preserving the desired polymorph V of the cocoa butter matrix. In addition, we show that this technology can be used as a strategy to disperse alcoholic beverages into chocolate confectionery. PMID:23799607

  13. Enumerating actinomycetes in compost bioaerosols at source—Use of soil compost agar to address plate 'masking'

    NASA Astrophysics Data System (ADS)

    Taha, M. P. M.; Drew, G. H.; Tamer Vestlund, A.; Aldred, D.; Longhurst, P. J.; Pollard, S. J. T.

    Actinomycetes are the dominant bacteria isolated from bioaerosols sampled at composting facilities. Here, a novel method for the isolation of actinomycetes is reported, overcoming masking of conventional agar plates, as well as reducing analysis time and costs. Repeatable and reliable actinomycetes growth was best achieved using a soil compost media at an incubation temperature of 44 °C and 7 days' incubation. The results are of particular value to waste management operators and their advisors undertaking regulatory risk assessments that support environmental approvals for compost facilities.

  14. Direct integral-equation method for three-point bounds on diffusion-limited reactions

    Microsoft Academic Search

    James A. Given; George Stell

    1992-01-01

    Bounds on diffusion-limited processes, including chemical reactions in two-phase media and permeation of fluid through porous media, depend in general upon the entire set of correlation functions of the material. We show that the three-point bounds of this kind are expressed economically by writing them in terms of a set of material correlation functions defined previously [J. Given and G.

  15. Study on diffusion and recombination of minority carriers by the method of photoconductive decay

    NASA Astrophysics Data System (ADS)

    Chow, R. H.

    1984-09-01

    This paper describes an experiment relating to the diffusion of charge carriers in homogeneous semiconductor material. Diffusion theory, as outlined in this paper, is applied to deduce from measurements a quantity called the bulk lifetime of excess minority carriers: a quantity which is independent of the size, shape, and surface condition of the semiconductor sample. Because of this independence, the bulk lifetime is used as one of the characterizing quantities of semiconductor material. In performing this experiment, the student will gain a working knowledge of diffusion theory as applied to semiconductor carriers, and at the same time become acquainted with an important technique for the characterization of semiconductor material. The actual duration of involvement will depend upon the amount of setting up of equipment, sample preparation, etc., that is expected of the student. An oscilloscope of fast rise time (200-MHz bandwidth), and a xenon flash tube with pulse duration of a few microseconds (General Radio 1542-B electronic stroboscope is a proven possibility), are the major items of equipment needed.

  16. Investigation of a diffuse optical measurements-assisted quantitative photoacoustic tomographic method in reflection geometry.

    PubMed

    Xu, Chen; Kumavor, Patrick D; Aguirre, Andres; Zhu, Quing

    2012-06-01

    Photoacoustic tomography provides the distribution of absorbed optical energy density, which is the product of optical absorption coefficient and optical fluence distribution. We report the experimental investigation of a novel fitting procedure that quantitatively determines the optical absorption coefficient of chromophores. The experimental setup consisted of a hybrid system of a 64-channel photoacoustic imaging system with a frequency-domain diffused optical measurement system. The fitting procedure included a complete photoacoustic forward model and an analytical solution of a target chromophore using the diffusion approximation. The fitting procedure combines the information from the photoacoustic image and the background information from the diffuse optical measurements to minimize the photoacoustic measurements and forward model data and recover the target absorption coefficient quantitatively. 1-cm-cube phantom absorbers of high and low contrasts were imaged at depths of up to 3.0 cm. The fitted absorption coefficient results were at least 80% of their true values. The sensitivities of this fitting procedure to target location, target radius, and background optical properties were also investigated. We found that this fitting procedure was most sensitive to the accurate determination of the target radius and depth. Blood sample in a thin tube of radius 0.58 mm, simulating a blood vessel, was also studied. The photoacoustic images and fitted absorption coefficients are presented. These results demonstrate the clinical potential of this fitting procedure to quantitatively characterize small lesions in breast imaging. PMID:22734743

  17. Growth of erythroid colonies in agar cultures of normal human bone marrow.

    PubMed

    Barr, R D; Koekebakker, M; Rand, C A

    1985-03-01

    The use of methylcellulose (MC) gels or plasma clots, for the support of human erythropoiesis in vitro, is associated with several technical disadvantages. Substitution of soft agar offers the prospect of overcoming these difficulties. In comparative studies, normal human bone marrow cells were cultured with erythropoietin (Epo) in agar (0.1%-0.3%) and MC. Concentrations of 0.175% and 0.2% agar proved to be optimal with respect to the combination of cloning efficiency and colony density. Further morphological examination revealed that subcolony formation in erythroid 'bursts' was influenced by gel viscosity. In additional experiments, miniaturising the assay system, to 0.25 ml culture volumes, increased cloning efficiency and reduced Epo utilization. These results confirm and expand earlier observations, and support a preference for the general use of agar in human erythroid cell cultures. PMID:3978242

  18. Multiparameter Screening on SlipChip Used for Nanoliter Protein Crystallization Combining Free Interface Diffusion and Microbatch Methods

    SciTech Connect

    Li, Liang; Du, Wenbin; Ismagilov, Rustem F. (UC)

    2010-08-04

    This paper describes two SlipChip-based approaches to protein crystallization: a SlipChip-based free interface diffusion (FID) method and a SlipChip-based composite method that simultaneously performs microbatch and FID crystallization methods in a single device. The FID SlipChip was designed to screen multiple reagents, each at multiple diffusion equilibration times, and was validated by screening conditions for crystallization of two proteins, enoyl-CoA hydratase from Mycobacterium tuberculosis and dihydrofolate reductase/thymidylate synthase from Babesia bovis, against 48 different reagents at five different equilibration times each, consuming 12 {micro}L of each protein for a total of 480 experiments using three SlipChips. The composite SlipChip was designed to screen multiple reagents, each at multiple mixing ratios and multiple equilibration times, and was validated by screening conditions for crystallization of two proteins, enoyl-CoA hydratase from Mycobacterium tuberculosis and dihydrofolate reductase/thymidylate synthase from Babesia bovis. To prevent cross-contamination while keeping the solution in the neck channels for FID stable, the plates of the SlipChip were etched with a pattern of nanowells. This nanopattern was used to increase the contact angle of aqueous solutions on the surface of the silanized glass. The composite SlipChip increased the number of successful crystallization conditions and identified more conditions for crystallization than separate FID and microbatch screenings. Crystallization experiments were scaled up in well plates using conditions identified during the SlipChip screenings, and X-ray diffraction data were obtained to yield the protein structure of dihydrofolate reductase/thymidylate synthase at 1.95 {angstrom} resolution. This free-interface diffusion approach provides a convenient and high-throughput method of setting up gradients in microfluidic devices and may find additional applications in cell-based assays.

  19. Comparison of laboratory methodologies for evaluating radiostrontium diffusion in soils: planar-source versus half-cell methods.

    PubMed

    Aldaba, D; García-Gutiérrez, M; Rigol, A; Vidal, M

    2010-11-01

    A planar-source method, initially designed to obtain diffusion coefficients in compacted clay, is adapted here to determine the apparent diffusion coefficient (D(a)) of radiostrontium in soils representative of the Spanish territory. Experiments were carried out by varying the moisture content (F(moist)), and bulk dry density (?(bulk)) of the soil samples, in order to study the influence of these soil packing parameters on D(a) values. The moisture in the soil samples was established as the percentage of occupancy of each soil's field capacity (OFC). For a similar OFC, D(a) values in the examined soils ranged by approximately one order of magnitude (e.g. from 6.2 × 10(-)(11) to 6.5 × 10(-)(12)m(2)s(-)(1), at 100% of OFC; from 3.0 × 10(-)(11) to 3.8 × 10(-)(12)m(2)s(-)(1), at 60% of OFC). For a given soil, D(a) values increased when water content was increased. F(moist), and tortuosity (?) explained D(a) variability, with R(2) values usually over 0.9. However, no good simple or multiple regressions between the soil packing parameters and D(a) were obtained with the whole dataset of all soils, which indicated that soil sorption capacity affects the diffusion of reactive radionuclides in soils. The inclusion of calculated K(d) values in the multiple regressions improved the correlations in all cases. Finally, D(a) values were compared with those obtained by the application of a half-cell method. The values of D(a) obtained by the planar-source methods were systematically lower than the half-cell ones, with a good correlation between the D(a) derived from both methods (R(2)=0.98). PMID:20850167

  20. Method for producing components with internal architectures, such as micro-channel reactors, via diffusion bonding sheets

    DOEpatents

    Alman, David E. (Corvallis, OR); Wilson, Rick D. (Corvallis, OR); Davis, Daniel L. (Albany, OR)

    2011-03-08

    This invention relates to a method for producing components with internal architectures, and more particularly, this invention relates to a method for producing structures with microchannels via the use of diffusion bonding of stacked laminates. Specifically, the method involves weakly bonding a stack of laminates forming internal voids and channels with a first generally low uniaxial pressure and first temperature such that bonding at least between the asperites of opposing laminates occurs and pores are isolated in interfacial contact areas, followed by a second generally higher isostatic pressure and second temperature for final bonding. The method thereby allows fabrication of micro-channel devices such as heat exchangers, recuperators, heat-pumps, chemical separators, chemical reactors, fuel processing units, and combustors without limitation on the fin aspect ratio.

  1. Optimization of modified Middlebrook 7H11 agar for isolation of Mycobacterium bovis from raw milk cheese.

    PubMed

    Forgrave, R; Donaghy, J A; Fisher, A; Rowe, M T

    2014-10-01

    Reports have highlighted the absence of contemporary peer reviewed publications pertaining to Mycobacterium bovis culture from raw milk and cheese. By replicating traditional methods, cheese-making methodology and equipment were devised to produce Cheddar (n = 6) and Caerphilly (n = 3) artificially contaminated with M. bovis (three genotypes) under stringent laboratory-containment guidelines for handling hazardous microbiological material. Middlebrook 7H11, modified for M. bovis isolation, was assessed for capacity to enumerate M. bovis despite changing cheese microflora and prolonged M. bovis exposure to the cheese matrix using maturing cheese test portions (n = 63; up to 16 weeks). Malachite green (MG) containing media isolated M. bovis at significantly (P < 0·05) lower levels than unmodified Middlebrook 7H11 agar despite MG being a common adjunct of Middlebrook 7H11 agar modified for M. bovis growth. Subsequently, a selective MG-free Middlebrook 7H11 agar modified using haemolysed red cells and calf serum was demonstrated as the best performing (P < 0·05) medium for recovery of M. bovis from typical UK cheese types, Cheddar and Caerphilly. Significance and impact of the study: Following increased M. bovis infection of UK cattle, the risk posed to consumers from consumption of unpasteurized milk and dairy products has changed. Furthermore, published methods for the culture and molecular detection of M. bovis in raw milk products are limited. Cheese-making protocols and M. bovis culture media reported here provide tools for further investigation of M. bovis survival during all stages of cheese manufacture and could inform future assessment of the risk to consumers from M. bovis contamination of unpasteurized dairy products. PMID:24888395

  2. Influence of agar gel properties on the in vitro micropropagation of different clones of Thuja plicata.

    PubMed

    Pochet, B; Scoman, V; Mestdagh, M M; Moreau, B; Andre, P

    1991-10-01

    The influence of four agar-type polysaccharides, used as solidifying agents for culture media and differing in their sulfate content (0.14 to 10.95 % w/w), was tested on the budding and the elongation of five clones of Thuja plicata. Budding is reduced on the most sulfated polysaccharide and the differences observed between clones in elongation are as important as those observed between agar types. PMID:24221734

  3. Transparent submicrometer grains alumina formed by gel casting using agar as gelling additive

    Microsoft Academic Search

    Soontorn Tansungnoen; Pavadee Aungkavattana; Shigetaka Wada

    In the present work, transparent submicrometer grains alumina formed by gel casting using agar as gelling additive was investigated. Green bodies were obtained by mixing well- dispersed alumina slurries (65-75 wt.%) with agar solution (0.1-0.3 wt%) at 45°C and changed to gel on cooling. The density of green bodies ranging from 51-57 % was obtained. The density of bodies sintered

  4. Antioxidation of agar oligosaccharides produced by agarase from a marine bacterium

    Microsoft Academic Search

    Jingxue Wang; Xiaolu Jiang; Haijin Mou; Huashi Guan

    2004-01-01

    In order to prepare the active agar oligosaccharide, agarase extracted from a strain of unidentified marine bacterium from the South China Sea coast was selected for the agar depolymerization. The optimum decomposing conditions were determined to be pH 7.0, 35 °C and halophilic properties 2%. Three main degraded products, AOS-1, AOS-2 and AOS-3, were separated by ethanol fractionation and anion

  5. A Posteriori Error Estimates and Mesh Adaptation Strategy for Discontinuous Galerkin Methods Applied to Diffusion Problems

    Microsoft Academic Search

    Béatrice Rivière; Mary F. Wheeler

    . A posteriori error estimates for locally mass conservative methods forsubsurface ow are presented. These methods are based on discontinuous approximationspaces and referred as Discontinuous Galerkin methods. In the case wherepenalty terms are added to the bilinear form, one obtain the Non-symmetric InteriorPenalty Galerkin methods. In a previous work, we proved a priori exponentialrates of convergence of the methods applied

  6. Obtaining new composite biomaterials by means of mineralization of methacrylate hydrogels using the reaction-diffusion method.

    PubMed

    Ramadan, Yousof; González-Sánchez, M Isabel; Hawkins, Karl; Rubio-Retama, Jorge; Valero, Edelmira; Perni, Stefano; Prokopovich, Polina; López-Cabarcos, Enrique

    2014-09-01

    The present paper describes the synthesis and characterization of a new polymeric biomaterial mineralized with calcium phosphate using the reaction-diffusion method. The scaffold of this biomaterial was a hydrogel constituted by biocompatible polyethylene glycol methyl ether methacrylate (PEGMEM) and 2-(dimethylamino)ethyl methacrylate (DMAEM), which were cross-linked with N-N'-methylenebisacrylamide (BIS). The cross-linking content of the hydrogels was varied from 0.25% to 15% (w/w). The gels were used as matrix where two reactants (Na2HPO4 and CaCl2) diffused from both ends of the gel and upon encountering produced calcium phosphate crystals that precipitated within the polymer matrix forming bands. The shape of the crystals was tuned by modifying the matrix porosity in such a way that when the polymer matrix was slightly reticulated the diffusion reaction produced round calcium phosphate microcrystals, whilst when the polymer matrix was highly reticulated the reaction yielded flat calcium phosphate crystals. Selected area electron diffraction performed on the nanocrystals that constitute the microcrystals showed that they were formed by Brushite (CaHPO4.2H2O). This new composite material could be useful in medical and dentistry applications such as bone regeneration, bone repair or tissue engineering. PMID:25063171

  7. Thermal-Diffusivity and Heat-Capacity Measurements of Sandstone at High Temperatures Using Laser Flash and DSC Methods

    NASA Astrophysics Data System (ADS)

    Abdulagatov, I. M.; Abdulagatova, Z. Z.; Kallaev, S. N.; Bakmaev, A. G.; Ranjith, P. G.

    2015-04-01

    The well-known contact-free, laser-flash method was used for measurement of the thermal diffusivity of natural sandstone samples. The experimental procedure was conducted using the microflash apparatus (LFA 457). The measurements have been made over the temperature range from (302.9 to 774.3) K. The isobaric heat capacities of the same sample were measured over the temperature range from (308 to 763) K using DSC 204 F1. Uncertainties are 3 % and 1 % for and , respectively. Measured values of and together with density data were used to calculate the thermal conductivity of sandstone. Theoretically based correlations for the thermal diffusivity (damped harmonic oscillator, DHO) and heat capacity (Debye and Einstein theories) were adopted to accurately represent the measured data. Correlation equations for the thermal diffusivity and heat capacity have been developed using the well-known theoretical asymptotic behavior of and for various temperature ranges (low- and high-temperature limits). The microscopic nature of the effect of temperature on and behavior of sandstone is discussed. Detailed interpretation and testing of the measured property data for sandstone using various existing theoretical and empirical models, in order to check their accuracy, predictive capability, and applicability, are provided.

  8. Nonequilibrium scheme for computing the flux of the convection-diffusion equation in the framework of the lattice Boltzmann method.

    PubMed

    Chai, Zhenhua; Zhao, T S

    2014-07-01

    In this paper, we propose a local nonequilibrium scheme for computing the flux of the convection-diffusion equation with a source term in the framework of the multiple-relaxation-time (MRT) lattice Boltzmann method (LBM). Both the Chapman-Enskog analysis and the numerical results show that, at the diffusive scaling, the present nonequilibrium scheme has a second-order convergence rate in space. A comparison between the nonequilibrium scheme and the conventional second-order central-difference scheme indicates that, although both schemes have a second-order convergence rate in space, the present nonequilibrium scheme is more accurate than the central-difference scheme. In addition, the flux computation rendered by the present scheme also preserves the parallel computation feature of the LBM, making the scheme more efficient than conventional finite-difference schemes in the study of large-scale problems. Finally, a comparison between the single-relaxation-time model and the MRT model is also conducted, and the results show that the MRT model is more accurate than the single-relaxation-time model, both in solving the convection-diffusion equation and in computing the flux. PMID:25122408

  9. Preparation, characterization, and in vitro gastrointestinal digestibility of oil-in-water emulsion-agar gels.

    PubMed

    Wang, Zheng; Neves, Marcos A; Kobayashi, Isao; Uemura, Kunihiko; Nakajima, Mitsutoshi

    2013-01-01

    Soybean oil-in-water (O/W) emulsion-agar gel samples were prepared and their digestibility evaluated by using an in vitro gastrointestinal digestion model. Emulsion-agar sols were obtained by mixing the prepared O/W emulsions with a 1.5 wt % agar solution at 60 °C, and their subsequent cooling at 5 °C for 1 h formed emulsion-agar gels. Their gel strength values increased with increasing degree of polymerization of the emulsifiers, and the relative gel strength increased in the case of droplets with an average diameter smaller than 700 nm. Flocculation and coalescence of the released emulsion droplets depended strongly on the emulsifier type; however, the emulsifier type hardly affected the ?-potential of emulsion droplets released from the emulsion-agar gels during in vitro digestion. The total FFA content released from each emulsion towards the end of the digestion period was nearly twice that released from the emulsion-agar gel, indicating that gelation of the O/W emulsion may have delayed lipid hydrolysis. PMID:23470750

  10. Complex impedance and conductivity of agar-based ion-conducting polymer electrolytes

    NASA Astrophysics Data System (ADS)

    Nwanya, A. C.; Amaechi, C. I.; Udounwa, A. E.; Osuji, R. U.; Maaza, M.; Ezema, F. I.

    2015-04-01

    Agar-based electrolyte standing films with different salts and weak acids as ion and proton conductors were prepared and characterized by X-ray diffraction, UV-visible spectrophotometry, photoluminescence emission spectroscopy and electrochemical impedance spectroscopy. The salts used are lithium perchlorate (LiClO4) and potassium perchlorate (KClO4), while the weak acids used are acetic acid (CH3COOH) and lactic acid (C3H6O3). The values of the ion conductivity obtained for the agar-based polymer films are 6.54 × 10-8, 9.12 × 10-8, 3.53 × 10-8, 2.24 × 10-8 S/cm for the agar/acetic acid, agar/lactic acid, agar/LiClO4 and agar/KClO4 polymer films, respectively. As a function of temperature, the ion conductivity exhibits an Arrhenius behavior and the estimated activation energy is ?0.1 eV for all the samples. The samples depicted high values of dielectric permittivity toward low frequencies which is due mostly to electrode polarization effect. The samples showed very high transparency (85-98 %) in the visible region, and this high transparency is one of the major requirements for application in electrochromic devices (ECD). The values of conductivity and activation energy obtained indicate that the electrolytes are good materials for application in ECD.

  11. Iterative Local Solvers for Distributed KrylovSchwarz Method Applied to ConvectionDiffusion Problems

    E-print Network

    Coutinho, Alvaro L. G. A.

    , as first proposed with the SUPG Method (Stream­ line Upwind Petrov Galerkin Method) [1] to the scalar, the SUPG method is used to solve convection dominated problems to verify the behavior of the proposed

  12. A posteriori optimization of parameters in stabilized methods for convection-diffusion

    E-print Network

    John, Volker

    . Exemplarily, this framework is applied to the SUPG finite element method and the minimization of a residual: Stabilized finite element methods, parameter optimization by minimizing a target functional, SUPG method 1

  13. Gas diffusion liquid storage bag and method of use for storing blood

    NASA Technical Reports Server (NTRS)

    Bank, H.; Cleland, E. L. (inventors)

    1979-01-01

    The shelf life of stored whole blood may be doubled by adding a buffer which maintains a desired pH level. However, this buffer causes the generation of CO2 which, if not removed at a controlled rate, causes the pH value of the blood to decrease, which shortens the useful life of the blood. A blood storage bag is described which permits the CO2 to be diffused out at a controlled rate into the atmosphere, thereby maintaining the desired pH value and providing a bag strong enough to permit handling.

  14. A novel improved method for analysis of 2D diffusion relaxation data—2D PARAFAC-Laplace decomposition

    NASA Astrophysics Data System (ADS)

    Tønning, Erik; Polders, Daniel; Callaghan, Paul T.; Engelsen, Søren B.

    2007-09-01

    This paper demonstrates how the multi-linear PARAFAC model can with advantage be used to decompose 2D diffusion-relaxation correlation NMR spectra prior to 2D-Laplace inversion to the T2- D domain. The decomposition is advantageous for better interpretation of the complex correlation maps as well as for the quantification of extracted T2- D components. To demonstrate the new method seventeen mixtures of wheat flour, starch, gluten, oil and water were prepared and measured with a 300 MHz nuclear magnetic resonance (NMR) spectrometer using a pulsed gradient stimulated echo (PGSTE) pulse sequence followed by a Carr-Purcell-Meiboom-Gill (CPMG) pulse echo train. By varying the gradient strength, 2D diffusion-relaxation data were recorded for each sample. From these double exponentially decaying relaxation data the PARAFAC algorithm extracted two unique diffusion-relaxation components, explaining 99.8% of the variation in the data set. These two components were subsequently transformed to the T2- D domain using 2D-inverse Laplace transformation and quantitatively assigned to the oil and water components of the samples. The oil component was one distinct distribution with peak intensity at D = 3 × 10 -12 m 2 s -1 and T2 = 180 ms. The water component consisted of two broad populations of water molecules with diffusion coefficients and relaxation times centered around correlation pairs: D = 10 -9 m 2 s -1, T2 = 10 ms and D = 3 × 10 -13 m 2 s -1, T2 = 13 ms. Small spurious peaks observed in the inverse Laplace transformation of original complex data were effectively filtered by the PARAFAC decomposition and thus considered artefacts from the complex Laplace transformation. The oil-to-water ratio determined by PARAFAC followed by 2D-Laplace inversion was perfectly correlated with known oil-to-water ratio of the samples. The new method of using PARAFAC prior to the 2D-Laplace inversion proved to have superior potential in analysis of diffusion-relaxation spectra, as it improves not only the interpretation, but also the quantification.

  15. A novel method for the determination of dissolved methylmercury concentrations using diffusive gradients in thin films technique.

    PubMed

    Gao, Yue; De Craemer, Sam; Baeyens, Willy

    2014-03-01

    A novel DGT probe and analysis protocol were developed for the determination of MeHg concentrations in aquatic system. The DGT probe consisted of an agarose (AG) gel as the diffusive hydrogel and a 3-mercaptoproply functionalised silica resin gel as the resin gel. The polyacrylamide (PA) hydrogel which is commonly used in DGT probes to assess trace metal concentrations in aquatic system appeared to be unsuitable for the determination of MeHg. The affinity of the PA hydrogel for MeHg is very high reducing its accumulation by the resin. In contrast, the AG hydrogel presents a by far lower affinity towards MeHg, which makes it suitable as diffusive layer in a DGT probe for MeHg determinations. Two extraction procedures to liberate MeHg from the resin were studied: one is involving thiourea as complexing agent, the other a simple acidic extraction. The extraction step was followed by an ethylation reaction of the liberated MeHg to determine low concentrations of MeHg species by Headspace-Gas Chromatography-Atomic Fluorescence (HS-GC-AFS). With the thiourea extraction method the recovery of the adsorbed MeHg compounds was extremely low while the recovery with the acid extraction method was 100%. The reliability of the novel DGT probe and analysis protocol was studied. A linear dependency between the amount of MeHg accumulated on the resin gel and both the deployment time and the gel thickness were demonstrated. From those experiments a diffusion coefficient of MeHg in AG gel was determined: 5.1±0.20×10(-6) cm(2) s(-1). Additional experiments showed that the new DGT method can be used in most natural waters independent of the ionic strength and within a pH range of 3-8. PMID:24468398

  16. Formulation and implementation of the current filament method for the analysis of current diffusion and heating in conductors in railguns and homopolar generators

    Microsoft Academic Search

    A. Y. Wu; K. S. Sun

    1989-01-01

    The authors present the formulation of the current filament model and show how the method was applied to the diffusion problems in railguns and homopolar generators (HPGs). Some computational results are included. The method was used to investigate railgun current diffusion and heating at the gun breech as well as the proximity-effect eddy current in a self-excited air-core HPG. It

  17. Measurement of glass transition temperature by mechanical (DMTA), thermal (DSC and MDSC), water diffusion and density methods: A comparison study

    NASA Astrophysics Data System (ADS)

    Rahman, Mohammad Shafiur; Al-Marhubi, Insaaf Mohd; Al-Mahrouqi, Abdullah

    2007-06-01

    Glass transition measured by DMTA from the change in slope in storage modulus was 55 °C, which was 10.5 °C lower than the value measured by tan ? peak. Initial glass transition measured by DSC, increased exponentially and reached a constant value of 55 °C at or higher heating rate of 30 °C/min. Transition temperature, measured by MDSC, remained constant up to heating rate 15 °C/min and then decreased. The glass transition values determined from reversible heat flow was 60 °C. The break in diffusivity and density (i.e. volume) was observed at 50 °C below the glass transition temperature measured by thermal and mechanical methods.

  18. Diffuse Optical Tomography for Brain Imaging: Continuous Wave Instrumentation and Linear Analysis Methods

    NASA Astrophysics Data System (ADS)

    Giacometti, Paolo; Diamond, Solomon G.

    Diffuse optical tomography (DOT) is a functional brain imaging technique that measures cerebral blood oxygenation and blood volume changes. This technique is particularly useful in human neuroimaging measurements because of the coupling between neural and hemodynamic activity in the brain. DOT is a multichannel imaging extension of near-infrared spectroscopy (NIRS). NIRS uses laser sources and light detectors on the scalp to obtain noninvasive hemodynamic measurements from spectroscopic analysis of the remitted light. This review explains how NIRS data analysis is performed using a combination of the modified Beer-Lambert law (MBLL) and the diffusion approximation to the radiative transport equation (RTE). Laser diodes, photodiode detectors, and optical terminals that contact the scalp are the main components in most NIRS systems. Placing multiple sources and detectors over the surface of the scalp allows for tomographic reconstructions that extend the individual measurements of NIRS into DOT. Mathematically arranging the DOT measurements into a linear system of equations that can be inverted provides a way to obtain tomographic reconstructions of hemodynamics in the brain.

  19. Reaction-diffusion textures

    Microsoft Academic Search

    Andrew P. Witkin; Michael Kass

    1991-01-01

    We present a method for texture synthesis based on the simulation of a process of local nonlinear interaction, called reaction-diffusion, which has been proposed as a model of biological pattern formation. We extend traditional reaction-diffusion systems by allowing anisotropic and spatially non-uniform diffusion, as well as multiple competing directions of diffusion. We adapt reaction-diffusion system to the needs of computer

  20. Molecular Diffusion in Polysaccharide Gel Systems as Observed by NMR

    NASA Astrophysics Data System (ADS)

    Matsukawa, Shingo; Sagae, Daisuke; Mogi, Akiko

    The diffusion coefficients D of dendrimers in agar gel and pullulan in gellan gel were determined by pulsed field gradient spin-echo (PFGSE) NMR measurements. The ratio of D to D 0 (diffusion coefficient in dilute solution) was used to estimate mesh size. The mesh size increased as the temperature fell below the gelling temperature, suggesting that the solute polysaccharides are involved in aggregation. Changes in mesh size explain the experimental results of water exudation from a stored agar gel under compression and the heat resistance of gellan gel in the presence of divalent cations.

  1. Evaluation of modified dichloran 18% glycerol (DG18) agar for enumerating fungi in wheat flour: a collaborative study.

    PubMed

    Beuchat, L R; Hwang, C A

    1996-04-01

    Dichloran 18% glycerol agar base supplemented with 100 micrograms of chloramphenicol ml-1 (DG18 agar) was compared to DG18 agar supplemented with 100 micrograms of Triton X-301 ml-1 (DG18T) and DG18 agar supplemented with 1 microgram of iprodione [3-(3,5-dichlorophenyl)-N-(1-methyl-ethyl)-2,4-dioxo-1-imidazolidine- carboxamide] ml-1 (DG18I agar) for enumeration of fungi in ten brands of wheat flour. As the flours contained low fungal populations, all were inoculated with two to four strains of xerophilic fungi (Aspergillus candidus, A. penicillioides, Eurotium amstelodami, E. intermedium, E. repens, E. rubrum, E. tonophilum, E. umbrosum and Wallemia sebi), after which counts ranged from 3.87 to 6.37 log10 CFU g-1. Significantly higher populations (p < 0.05) were detected in four flours: three were on DG18T compared to DG18 and DG18I agar. A. candidus had been inoculated into all three flours. E. amstelodami, E. intermedium, E. repens or E. tonophilum had also been inoculated into at least one of the three flours showing significantly higher numbers of CFU on DG18T agar. Analysis of collapsed data from all samples showed that DG18T agar was significantly better than DG18 or DG18I agars at p < 0.10 but not at p < 0.05. Coefficients of variation for reproducibility (among-laboratory variation) were 8.4%, 7.5% and 8.6%, respectively, for DG18, DG18T and DG18I agars. DG18I agar restricted colony development most, especially for Eurotium species. Naturally occurring Penicillium species grew equally well on DG18 and DG18T agars, whereas W. sebi grew well on all three media. DG18T agar was judged to be superior to DG18 and DG18I agars for enumerating fungi in wheat flours. PMID:8796418

  2. Multiple Echo Diffusion Tensor Acquisition Technique (MEDITATE) on a 3T clinical scanner

    PubMed Central

    Baete, Steven H.; Cho, Gene; Sigmund, Eric E.

    2013-01-01

    This paper describes the concepts and implementation of an MRI method, Multiple Echo Diffusion Tensor Acquisition Technique (MEDITATE), which is capable of acquiring apparent diffusion tensor maps in two scans on a 3T clinical scanner. In each MEDITATE scan, a set of RF-pulses generates multiple echoes whose amplitudes are diffusion-weighted in both magnitude and direction by a pattern of diffusion gradients. As a result, two scans acquired with different diffusion weighting strengths suffice for accurate estimation of diffusion tensor imaging (DTI)-parameters. The MEDITATE variation presented here expands previous MEDITATE approaches to adapt to the clinical scanner platform, such as exploiting longitudinal magnetization storage to reduce T2-weighting. Fully segmented multi-shot Cartesian encoding is used for image encoding. MEDITATE was tested on isotropic (agar gel), anisotropic diffusion phantoms (asparagus), and in vivo skeletal muscle in healthy volunteers with cardiac-gating. Comparisons of accuracy were performed with standard twice-refocused spin echo (TRSE) DTI in each case and good quantitative agreement was found between diffusion eigenvalues, mean diffusivity, and fractional anisotropy derived from TRSE-DTI and from the MEDITATE sequence. Orientation patterns were correctly reproduced in both isotropic and anisotropic phantoms, and approximately so for in vivo imaging. This illustrates that the MEDITATE method of compressed diffusion encoding is feasible on the clinical scanner platform. With future development and employment of appropriate view-sharing image encoding this technique may be used in clinical applications requiring time-sensitive acquisition of DTI parameters such as dynamical DTI in muscle. PMID:23828606

  3. Peptide dynamics by molecular dynamics simulation and diffusion theory method with improved basis sets

    SciTech Connect

    Hsu, Po Jen; Lai, S. K., E-mail: sklai@coll.phy.ncu.edu.tw [Complex Liquids Laboratory, Department of Physics, National Central University, Chungli 320, Taiwan and Molecular Science and Technology Program, Taiwan International Graduate Program, Academia Sinica, Taipei 115, Taiwan (China); Rapallo, Arnaldo [Istituto per lo Studio delle Macromolecole (ISMAC) Consiglio Nazionale delle Ricerche (CNR), via E. Bassini 15, C.A.P 20133 Milano (Italy)] [Istituto per lo Studio delle Macromolecole (ISMAC) Consiglio Nazionale delle Ricerche (CNR), via E. Bassini 15, C.A.P 20133 Milano (Italy)

    2014-03-14

    Improved basis sets for the study of polymer dynamics by means of the diffusion theory, and tests on a melt of cis-1,4-polyisoprene decamers, and a toluene solution of a 71-mer syndiotactic trans-1,2-polypentadiene were presented recently [R. Gaspari and A. Rapallo, J. Chem. Phys. 128, 244109 (2008)]. The proposed hybrid basis approach (HBA) combined two techniques, the long time sorting procedure and the maximum correlation approximation. The HBA takes advantage of the strength of these two techniques, and its basis sets proved to be very effective and computationally convenient in describing both local and global dynamics in cases of flexible synthetic polymers where the repeating unit is a unique type of monomer. The question then arises if the same efficacy continues when the HBA is applied to polymers of different monomers, variable local stiffness along the chain and with longer persistence length, which have different local and global dynamical properties against the above-mentioned systems. Important examples of this kind of molecular chains are the proteins, so that a fragment of the protein transthyretin is chosen as the system of the present study. This peptide corresponds to a sequence that is structured in ?-sheets of the protein and is located on the surface of the channel with thyroxin. The protein transthyretin forms amyloid fibrils in vivo, whereas the peptide fragment has been shown [C. P. Jaroniec, C. E. MacPhee, N. S. Astrof, C. M. Dobson, and R. G. Griffin, Proc. Natl. Acad. Sci. U.S.A. 99, 16748 (2002)] to form amyloid fibrils in vitro in extended ?-sheet conformations. For these reasons the latter is given considerable attention in the literature and studied also as an isolated fragment in water solution where both experimental and theoretical efforts have indicated the propensity of the system to form ? turns or ? helices, but is otherwise predominantly unstructured. Differing from previous computational studies that employed implicit solvent, we performed in this work the classical molecular dynamics simulation on a realistic model solution with the peptide embedded in an explicit water environment, and calculated its dynamic properties both as an outcome of the simulations, and by the diffusion theory in reduced statistical-mechanical approach within HBA on the premise that the mode-coupling approach to the diffusion theory can give both the long-range and local dynamics starting from equilibrium averages which were obtained from detailed atomistic simulations.

  4. Peptide dynamics by molecular dynamics simulation and diffusion theory method with improved basis sets

    NASA Astrophysics Data System (ADS)

    Hsu, Po Jen; Lai, S. K.; Rapallo, Arnaldo

    2014-03-01

    Improved basis sets for the study of polymer dynamics by means of the diffusion theory, and tests on a melt of cis-1,4-polyisoprene decamers, and a toluene solution of a 71-mer syndiotactic trans-1,2-polypentadiene were presented recently [R. Gaspari and A. Rapallo, J. Chem. Phys. 128, 244109 (2008)]. The proposed hybrid basis approach (HBA) combined two techniques, the long time sorting procedure and the maximum correlation approximation. The HBA takes advantage of the strength of these two techniques, and its basis sets proved to be very effective and computationally convenient in describing both local and global dynamics in cases of flexible synthetic polymers where the repeating unit is a unique type of monomer. The question then arises if the same efficacy continues when the HBA is applied to polymers of different monomers, variable local stiffness along the chain and with longer persistence length, which have different local and global dynamical properties against the above-mentioned systems. Important examples of this kind of molecular chains are the proteins, so that a fragment of the protein transthyretin is chosen as the system of the present study. This peptide corresponds to a sequence that is structured in ?-sheets of the protein and is located on the surface of the channel with thyroxin. The protein transthyretin forms amyloid fibrils in vivo, whereas the peptide fragment has been shown [C. P. Jaroniec, C. E. MacPhee, N. S. Astrof, C. M. Dobson, and R. G. Griffin, Proc. Natl. Acad. Sci. U.S.A. 99, 16748 (2002)] to form amyloid fibrils in vitro in extended ?-sheet conformations. For these reasons the latter is given considerable attention in the literature and studied also as an isolated fragment in water solution where both experimental and theoretical efforts have indicated the propensity of the system to form ? turns or ? helices, but is otherwise predominantly unstructured. Differing from previous computational studies that employed implicit solvent, we performed in this work the classical molecular dynamics simulation on a realistic model solution with the peptide embedded in an explicit water environment, and calculated its dynamic properties both as an outcome of the simulations, and by the diffusion theory in reduced statistical-mechanical approach within HBA on the premise that the mode-coupling approach to the diffusion theory can give both the long-range and local dynamics starting from equilibrium averages which were obtained from detailed atomistic simulations.

  5. Determination of in vitro synergy for dual antimicrobial therapy against resistant Neisseria gonorrhoeae using Etest and agar dilution.

    PubMed

    Wind, Carolien M; de Vries, Henry J C; van Dam, Alje P

    2015-03-01

    In response to antimicrobial resistance of Neisseria gonorrhoeae to last-resort extended-spectrum cephalosporins, combination therapy of azithromycin+ceftriaxone is now recommended. Dual therapy can be effective to treat monoresistant strains as well as multidrug-resistant strains, preferably employing the effect of in vitro synergy. As reports on in vitro synergy of azithromycin+ceftriaxone in N. gonorrhoeae are conflicting, in this study an evaluation of this combination was performed using a cross-wise Etest method and agar dilution. Synergy was defined as a fractional inhibitory concentration index (FICI) of ?0.5. To identify other dual treatment options for gonorrhoea, in vitro synergy was evaluated for 65 dual antimicrobial combinations using Etest. Azithromycin, cefixime, ceftriaxone, colistin, ertapenem, fosfomycin, gentamicin, minocycline, moxifloxacin, rifampicin, spectinomycin and tigecycline were screened for synergy in all possible combinations. No synergy or antagonism was found for any of the 65 combinations. The geometric mean FICI ranged from 0.82 to 2.00. The mean FICI of azithromycin+ceftriaxone was 1.18 (Etest) and 0.55 (agar dilution). The difference between both methods did not result in a difference in interpretation of synergy. Ceftriaxone-resistant strain F89 was tested in all combinations and no synergy was found for any of them. Most importantly, the ceftriaxone minimum inhibitory concentration of F89 was not decreased below the breakpoint with any concentration of azithromycin. PMID:25532741

  6. A novel multiple headspace extraction gas chromatographic method for measuring the diffusion coefficient of methanol in water and in olive oil.

    PubMed

    Zhang, Chun-Yun; Chai, Xin-Sheng

    2015-03-13

    A novel method for the determination of the diffusion coefficient (D) of methanol in water and olive oil has been developed. Based on multiple headspace extraction gas chromatography (MHE-GC), the methanol released from the liquid sample of interest in a closed sample vial was determined in a stepwise fashion. A theoretical model was derived to establish the relationship between the diffusion coefficient and the GC signals from MHE-GC measurements. The results showed that the present method has an excellent precision (RSD<1%) in the linear fitting procedure and good accuracy for the diffusion coefficients of methanol in both water and olive oil, when compared with data reported in the literature. The present method is simple and practical and can be a valuable tool for the determination of the diffusion coefficient of volatile analyte(s) into food simulants from food and beverage packaging material, both in research studies and in actual applications. PMID:25678320

  7. A new method of measuring hydrogen diffusivity by hydrogen permeation technique . 1: Theoretical modeling

    SciTech Connect

    Zhang, T.Y.; Zheng, Y.P. [Hong Kong Univ. of Science and Technology, Kowloon (Hong Kong). Dept. of Mechanical Engineering

    1998-12-31

    A new model on hydrogen permeation is proposed, considering absorption and desorption processes on the sample surfaces. Analytical solution, satisfying the flux continuity rather than the concentration boundary conditions, is derived from the model. Drift velocity through surface and drift velocity in bulk are introduced and their ratio determines the validity of the time-lag model. When the ratio of drift velocity through surface over that in bulk approaches infinity, the proposed model is reduced to the time-lag one. The diffusivity and the drift velocity through surface can be evaluated by fitting the entire normalized permeation curve. The obtained results can predict the effects of temperature, sample thickness and energy barriers of absorption and desorption on the permeation process. The thickness effect occurred in using the time-lag model is well explained by the effects of absorption and desorption on the permeation process.

  8. Thermal Diffusivity Measurements of Oxide and Metallic Melts at High Temperature by the Laser Flash Method

    NASA Astrophysics Data System (ADS)

    Shibata, Hiroyuki; Ohta, Hiromichi; Waseda, Yoshio

    The importance of heat transfer properties such as thermal conductivity or thermal diffusivity of various materials at high temperature is strongly emphasized, in parallel with recent progress in surface technology for several electronic devices. Such importance has been well recognized in many pyrometallurgical processes related to plant design and accurate control of continuous casting in steelmaking. For example, heat transfer properties of molten salts are essential to design applications to heat transfer fluids for fusion reactors, breeder reactors, and thermal energy storage systems. Then, thermal property data of molten salts with sufficient reliability are strongly required to select an optimum composition of salt mixture for the desired condition [1]. We also need thermal property data of molten iron at elevated temperature and continuous casting powder melts consisting of various oxide components; SiO2, CaO, MgO, Al2O3, etc. for further improving the present continuous casting process for steel [2].

  9. Method for recovering quantitative broadband diffuse optical spectra from layered media

    NASA Astrophysics Data System (ADS)

    Li, Ang; Kwong, Richard; Cerussi, Albert; Merritt, Sean; Hayakawa, Carole; Tromberg, Bruce

    2007-07-01

    We report the recovery of broadband (650-1000 nm) diffuse optical absorption and reduced scattering spectra stratified by layer in a two-layer phantom. The broadband optical properties of the phantom featured top and bottom layers designed to simulate adipose and muscle, respectively. The absolute value and dynamic variation of chromophore concentrations in both layers (top layer thickness greater than 5 mm) were calculated with an average 10% error and 3% error, respectively. In addition to spectra, the algorithm recovers the top layer thickness up to 12 mm within 10% error. It is insensitive to initial guesses of both layers' optical properties as long as the layer thickness initial guess is within ±2 mm.

  10. Finite element methods for time-dependent convectiondiffusionreaction equations with small diffusion

    E-print Network

    John, Volker

    include the streamline-upwind Petrov­Galerkin (SUPG) method with different parameters, various spurious-upwind Petrov­Galerkin (SUPG) method [30,7] with the parameter from [49] was used. This approach led to computed

  11. An accurate and robust finite volume method for the advection diffusion equation

    E-print Network

    Vuik, Kees

    to coral reefs and Chinese white dolphins, two protected species that live in the sea near to Hong Kong. So method 7 3.1 Finite volume method for scalar conservation laws . . . . . . . . 7 3.1.1 Convergence

  12. A method for studying oxygen diffusion barrier in erythrocytes: effects of haemoglobin content and membrane cholesterol.

    PubMed Central

    Kon, K; Maeda, N; Sekiya, M; Shiga, T; Suda, T

    1980-01-01

    1. In order to study the kinetics os the oxygen egress from human red cells in the 50 sec-20 min time range, an apparatus for measuring the oxygen dissociation process was constructed, combining a spectrophotometer with an oxygen electrode of quick response. 2. Starting from air-saturated haemolysate or red cell suspensions, the velocity of oxygen dissociation from oxyhaemoglobin (Vdiss) and of oxygen disappearance in the medium (Vobs) after addition of bakers' yeast (consuming the dissolved oxygen at the velocity of Vconsump) were recorded. A parameter (r) was defined as the ratio of two velocities, Vegress (the velocity of oxygen egress into the medium) and Vdiss, r identical to Vegress/Vdiss = (Vconsump -Vobs)/Vdiss. Vcomsump could be calculated by the Michaelis-Menten equation as follows, Vconsump = Vmax [O2]/(Km + [O2]), where Vmax was the maximal velocity of oxygen consumption of bakers' yeast. 3. The r value was always 1.0 for the haemolysate, but it was less than 1.0 for the normal red cells. Further, the oxygen dissociation curve of red cells obtained at higher Vmax was distorted, due to the non-equilibration between intra- and extracellular oxygen concentrations. 4. The r value was (i) independent of the amounts of the allosteric effectors (2,3-diphosphoglycerate and H+) but (ii) dependent on the haemoglobin contents and (iii) dependent on the amounts of the membrane cholesterol. Therefore, the r value reflected only the process of the oxygen diffusion but not the "chemical reaction' rate. The "barrier' of the oxygen diffusion decreased at lower haemoglobin contents, but increased at higher cholesterol contents in the membrane. PMID:7019416

  13. Equilibrium and kinetic modelling of Cd(II) biosorption by algae Gelidium and agar extraction algal waste.

    PubMed

    Vilar, Vítor J P; Botelho, Cidália M S; Boaventura, Rui A R

    2006-01-01

    In this study an industrial algal waste from agar extraction has been used as an inexpensive and effective biosorbent for cadmium (II) removal from aqueous solutions. This biosorbent was compared with the algae Gelidium itself, which is the raw material for agar extraction. Equilibrium data follow both Langmuir and Redlich-Peterson models. The parameters of Langmuir equilibrium model are q(max)=18.0 mgg(-1), b=0.19 mgl(-1) and q(max)=9.7 mgg(-1), b=0.16 mgl(-1), respectively for Gelidium and the algal waste. Kinetic experiments were conducted at initial Cd(II) concentrations in the range 6-91 mgl(-1). Data were fitted to pseudo-first- and second-order Lagergren models. For an initial Cd(II) concentration of 91 mgl(-1) the parameters of the pseudo-first-order Lagergren model are k(1,ads)=0.17 and 0.87 min(-1); q(eq)=16.3 and 8.7 mgg(-1), respectively, for Gelidium and algal waste. Kinetic constants vary with the initial metal concentration. The adsorptive behaviour of biosorbent particles was modelled using a batch reactor mass transfer kinetic model. The model successfully predicts Cd(II) concentration profiles and provides significant insights on the biosorbents performance. The homogeneous diffusivity, D(h), is in the range 0.5-2.2 x10(-8) and 2.1-10.4 x10(-8)cm(2)s(-1), respectively, for Gelidium and algal waste. PMID:16380148

  14. On an improved unusual stabilized finite element method for the advective–reactive–diffusive equation

    Microsoft Academic Search

    L. P. Franca; F. Valentin

    2000-01-01

    An improved unusual finite element method is studied herein for a second-order linear scalar differential equation including a zero-order term. The method consists in subtracting from the standard Galerkin method a mesh dependent term suggested by static condensation of the bubbles. Based on this idea, a new stabilized parameter is constructed, which improves accuracy of the solution. Several numerical tests

  15. An Efficient Method of Modeling Material Properties Using a Thermal Diffusion Analogy: An Example Based on Craniofacial Bone

    PubMed Central

    Davis, Julian L.; Dumont, Elizabeth R.; Strait, David S.; Grosse, Ian R.

    2011-01-01

    The ability to incorporate detailed geometry into finite element models has allowed researchers to investigate the influence of morphology on performance aspects of skeletal components. This advance has also allowed researchers to explore the effect of different material models, ranging from simple (e.g., isotropic) to complex (e.g., orthotropic), on the response of bone. However, bone's complicated geometry makes it difficult to incorporate complex material models into finite element models of bone. This difficulty is due to variation in the spatial orientation of material properties throughout bone. Our analysis addresses this problem by taking full advantage of a finite element program's ability to solve thermal-structural problems. Using a linear relationship between temperature and modulus, we seeded specific nodes of the finite element model with temperatures. We then used thermal diffusion to propagate the modulus throughout the finite element model. Finally, we solved for the mechanical response of the finite element model to the applied loads and constraints. We found that using the thermal diffusion analogy to control the modulus of bone throughout its structure provides a simple and effective method of spatially varying modulus. Results compare favorably against both experimental data and results from an FE model that incorporated a complex (orthotropic) material model. This method presented will allow researchers the ability to easily incorporate more material property data into their finite element models in an effort to improve the model's accuracy. PMID:21347288

  16. A combined kick-out and dissociative diffusion mechanism of grown-in Be in InGaAs and InGaAsP. A new finite difference-Bairstow method for solution of the diffusion equations

    NASA Astrophysics Data System (ADS)

    Koumetz, Serge D.; Martin, Patrick; Murray, Hugues

    2014-09-01

    Experimental results on the diffusion of grown-in beryllium (Be) in indium gallium arsenide (In0.53Ga0.47As) and indium gallium arsenide phosphide (In0.73Ga0.27As0.58P0.42) gas source molecular beam epitaxy alloys lattice-matched to indium phosphide (InP) can be successfully explained in terms of a combined kick-out and dissociative diffusion mechanism, involving neutral Be interstitials (Bei0), singly positively charged gallium (Ga), indium (In) self-interstitials (IIII+) and singly positively charged Ga, In vacancies (VIII+). A new numerical method of solution to the system of diffusion equations, based on the finite difference approximations and Bairstow's method, is proposed.

  17. A combined kick-out and dissociative diffusion mechanism of grown-in Be in InGaAs and InGaAsP. A new finite difference-Bairstow method for solution of the diffusion equations

    SciTech Connect

    Koumetz, Serge D., E-mail: Serge.Koumetz@univ-rouen.fr; Martin, Patrick; Murray, Hugues [Normandie Université-Université de Rouen-ENSICAEN-UMR 6508 LaMIPS, Laboratoire commun CNRS-NXP-PRESTO-ENSICAEN-UCBN 2, rue de la Girafe BP 5120, F-14079 Caen (France)

    2014-09-14

    Experimental results on the diffusion of grown-in beryllium (Be) in indium gallium arsenide (In{sub 0.53}Ga{sub 0.47}As) and indium gallium arsenide phosphide (In{sub 0.73}Ga{sub 0.27}As{sub 0.58}P{sub 0.42}) gas source molecular beam epitaxy alloys lattice-matched to indium phosphide (InP) can be successfully explained in terms of a combined kick-out and dissociative diffusion mechanism, involving neutral Be interstitials (Be{sub i}{sup 0}), singly positively charged gallium (Ga), indium (In) self-interstitials (I{sub III}{sup +}) and singly positively charged Ga, In vacancies (V{sub III}{sup +}). A new numerical method of solution to the system of diffusion equations, based on the finite difference approximations and Bairstow's method, is proposed.

  18. A high-accuracy preserving spectral Galerkin method for the Dirichlet boundary-value problem of variable-coefficient conservative fractional diffusion equations

    NASA Astrophysics Data System (ADS)

    Wang, Hong; Zhang, Xuhao

    2015-01-01

    Fractional diffusion equations were shown to provide an adequate and accurate description of transport processes exhibiting anomalous diffusion behavior. Recently, spectral Galerkin methods were developed for space-fractional diffusion equations aiming at achieving exponential convergence. An optimal order error estimate in the fractional energy norm was proved under the assumption that the true solution to the fractional diffusion equation has the desired regularity. An optimal order error estimate in the L2 norm was proved via the well known Nitsche lifting technique under the assumption that the true solution to the corresponding boundary-value problem of the fractional diffusion equation has the required regularity for each right-hand side. In this paper we show that the true solution to the Dirichlet boundary-value problem of a conservative fractional diffusion equation of order 2 - ? with 0 < ? < 1 as well as a constant diffusivity coefficient and a constant source term is not in the fractional Sobolev space H 3 / 2 - ? in general, but is still in the Besov space B?3/ 2 - ? (L2). Hence, the provable convergence rate of a spectral Galerkin method in the L2 norm is at most of the order O (N - (3 / 2 - ?)), where N is the degree of the polynomial space in the numerical method. Numerical experiments show that the spectral Galerkin method exhibits a subquadratic convergence in the L2 norm for any 0 < ? < 1. We develop a high-accuracy preserving spectral Galerkin method for the Dirichlet boundary-value problem of one-sided variable-coefficient conservative fractional diffusion equations. The method has a proved high-order convergence rate of arbitrary order (i) without requiring the smoothness of the true solution u to the given boundary-value problem, but only assuming that the diffusivity coefficient and the right-hand source term have the desired regularity; (ii) for a variable diffusivity coefficient; and (iii) for an inhomogeneous Dirichlet boundary condition. Numerical experiments substantiate the theoretical analysis and show that the method exhibits exponential convergence provided the diffusivity coefficient and the right-hand source term have the desired regularity.

  19. Differentiation between Primary Cerebral Lymphoma and Glioblastoma Using the Apparent Diffusion Coefficient: Comparison of Three Different ROI Methods

    PubMed Central

    Ahn, Sung Jun; Shin, Hyun Joo; Chang, Jong-Hee; Lee, Seung-Koo

    2014-01-01

    Objective Apparent diffusion coefficients (ADC) can help differentiate between central nervous system (CNS) lymphoma and Glioblastoma (GBM). However, overlap between ADCs for GBM and lymphoma have been reported because of various region of interest (ROI) methods. Our aim is to explore ROI method to provide the most reproducible results for differentiation. Materials and Methods We studied 25 CNS lymphomas and 62 GBMs with three ROI methods: (1) ROI1, whole tumor volume; (2) ROI2, multiple ROIs; and (3) ROI3, a single ROI. Interobserver variability of two readers for each method was analyzed by intraclass correlation(ICC). ADCs were compared between GBM and lymphoma, using two-sample t-test. The discriminative ability was determined by ROC analysis. Results ADCs from ROI1 showed most reproducible results (ICC >0.9). For ROI1, ADCmean for lymphoma showed significantly lower values than GBM (p?=?0.03). The optimal cut-off value was 0.98×10?3 mm2/s with 85% sensitivity and 90% specificity. For ROI2, ADCmin for lymphoma was significantly lower than GBM (p?=?0.02). The cut-off value was 0.69×10?3 mm2/s with 87% sensitivity and 88% specificity. Conclusion ADC values were significantly dependent on ROI method. ADCs from the whole tumor volume had the most reproducible results. ADCmean from the whole tumor volume may aid in differentiating between lymphoma and GBM. However, multi-modal imaging approaches are recommended than ADC alone for differentiation. PMID:25393543

  20. Science in the clouds: UAVs and cloud computing methods for spatial diffuse pollution risk assessment (Invited)

    NASA Astrophysics Data System (ADS)

    Reaney, S. M.

    2010-12-01

    The processes related to diffuse pollution can be understood within a 'source -> mobilisation -> pathway -> impact' framework. Recently our ability to monitor the impact section of this framework has significantly increased. This has been achieved through the measurement of flow and water quality (e.g. Nitrogen and Phosphorus) on a continuous 10 minute basis. However, our ability to observe and understand the 'source', 'mobilisation' and 'pathway' sections has not progressed at the same rate. This lack of information of the source term is due to the larger spatial areas involved and the difficulty in performing repeat surveys. Within an agricultural catchment, there are two key, temporally dynamic factors that affect the diffuse pollution export [source-mobilisation-pathway]: 1. vegetation cover and 2. agricultural management. These factors influence the amount of bare soil, vulnerable to erosion (source) and the creation of flow pathways, for example, due to tractor wheelings (tram lines). Information on these factors could be acquired through the use of satellite remote sensing or light aircraft based aerial photography. However, to acquire images on a fine temporal scale (monthly) there are significant cost and practical barriers (e.g. cloud cover). A potential solution to the problem could be the use of small semi- autonomous helicopters (UAV) and is the approach that has been investigated in this research. The UAV helicopter that has been used in this research is a Microdrones MD4-200 and is capable of autonomously flying a pre-programmed route and acquiring images at set locations at heights of up to 120 metres. The use of the pre-programmed routes enables the acquisition of repeat images at the same locations. These images contain information on the vegetation cover that can be extracted with the use of standard image processing techniques. However, the images also contain a large amount of implicit information that may help to explain water quality trends. For example, information on changes in the direction of plough lines and the timing of canopy closure will give extra insight into the export of nutrients from the landscape. The extraction of the amount of vegetation cover from the images has been done through the use of a custom web based image processing service. Basing the analysis in a cloud computing framework enables greater collaboration within the project consortium and the effective dissemination of images and results to stakeholders. This presentation will discuss the results of the first four months of the UAV helicopter images and how the information has been extracted from the images. This work is part of the Defra Demonstration Test Catchments project and the NERC Pilot Virtual Observatory project.