scholarly journals OnePetri: accelerating common bacteriophage Petri dish assays with computer vision

2021 ◽  
Author(s):  
Michael Shamash ◽  
Corinne F. Maurice
Keyword(s):  
Gold Standard ◽  
Mobile Application ◽  
Human Error ◽  
Petri Dish ◽  
Countable Number ◽  
Current Gold Standard ◽  
Minimal Error ◽  
Manual Counting ◽  
Rapid Enumeration ◽  
Petri Dishes

AbstractIntroductionBacteriophage plaque enumeration is a critical step in a wide array of protocols. The current gold standard for plaque enumeration on Petri dishes is through manual counting. This approach is time-intensive, has low-throughput, is limited to Petri dishes which have a countable number of plaques, and can have variable results upon recount due to human error.MethodsWe present OnePetri, a collection of trained machine learning models and open-source mobile application for the rapid enumeration of bacteriophage plaques on circular Petri dishes.ResultsWhen compared against the current gold standard of manual counting, OnePetri was significantly faster, with minimal error. Compared against two other similar tools, Plaque Size Tool and CFU.AI, OnePetri had higher plaque recall and reduced detection times on most test images.ConclusionsThe OnePetri application can rapidly enumerate phage plaques on circular Petri dishes with high precision and recall.

scholarly journals Response of Mexican Corn Rootworm to Insecticides, 1991

1995 ◽  
Vol 20 (1) ◽  
pp. 329-329
Author(s):  
E. Guerrero-Rodriguez ◽  
S. Davalos-Luna ◽  
J. Corrales-Reynaga
Keyword(s):  
Petri Dish ◽  
Mortality Data ◽  
Corn Rootworm ◽  
Field Corn ◽  
Paper Towel ◽  
Percent Mortality ◽  
Petri Dishes ◽  
Mexican Corn Rootworm ◽  
Corn Plants ◽  
Commercial Field

Abstract Populations of MCR of commercial field corn from Arenal, Jalisco were exposed to nine insecticides of organophosphorous (OP), cabamate, organo chlorinated and pyrethroid groups. Larvae were collected from the roots of corn plants daily, and confined in polyethylene black bags of two kg capacity with humidity and germinated corn as food for larvae. Insects were taken to the laboratory of Sanidad Vegetal in Guadalajara, Jalisco. Dilutions of the insecticides tested were prepared using acetone from 500 to 5000 ppm (6 to 9 dosage/product). For this study 20 larvae of last instar were selected and 1 u, liter of the solution was placed topically on the thorax, after this, each larva was placed in a petri dish with a moistened paper towel and the petri dishes confined in a cardboard box to eliminate light. Mortality counts were carried out at 24 hours. Percent mortality was corrected by Abbott’s formula. The mortality data were analyzed by probit to obtain LC50 and LC,5 values for each insecticide.

scholarly journals Laboratory Bioassay of Beauveria Bassiana, Spinosad, Garlic, and Neem-Derived Products for Control of Grasshoppers

1998 ◽  
Vol 23 (1) ◽  
pp. 372-372
Author(s):  
Nihat Demirel ◽  
Whitney Cranshaw
Keyword(s):  
Beauveria Bassiana ◽  
Petri Dish ◽  
Neem Oil ◽  
Laboratory Bioassay ◽  
Neem Extract ◽  
Late Instar ◽  
Petri Dishes

Abstract Trials were conducted with adult, field collected migratory grasshoppers to determine susceptibility to ingestion expo sure to Beauveria bassiana Strain GHA (BotaniGard WP), spinosad (Conserve SC) a garlic-derived insecticide/repellent (Garlic Barrier), neem oil (Tril ogy) and a neem extract (BioNeem). Field collected late instar grasshoppers were confined, 8 per petri dish (100 mm X 15 mm), with 6 petri dishes usetl per treatment. Treatments involved dipping alfalfa leaves into the insecticide solutions and allowing them to air dry before feeding these to the grasshop pers. After the originally treated foliage were consumed, untreated foliage was used to maintain grasshoppers in all treatments. Mortality was assessed a 24, 48, 96, and 192 h after exposure.

scholarly journals Bioassay, Laboratory Tests of Beauveria Bassiana, Bacillus Thuringiensis, and a Feeding Stimulant on Leafroller Larvae, 1994

1995 ◽  
Vol 20 (1) ◽  
pp. 349-349
Author(s):  
J. F. Brunner ◽  
M. D. Doerr ◽  
L. O. Smith
Keyword(s):  
Beauveria Bassiana ◽  
Petri Dish ◽  
Larval Survival ◽  
Wetting Agent ◽  
Food Storage ◽  
Storage Container ◽  
Feeding Stimulant ◽  
Petri Dishes ◽  
Extension Center ◽  
Leaf Disks

Abstract Beauveria bassiana (Naturalis-L), two B. thuringiensis products (Dipel and Troy Bt), and a feeding stimulant (Konsume) combined with a B. thuringiensis product were evaluated using a leaf-dip bioassay method for their effect on PLR and OBLR larvae. Treatments were prepared by diluting the appropriate amt of product (see table) in 500 ml water in a glass beaker. The Konsume treatments received a constant 1X rate of Dipel and 4X-0.25X rates of Konsume. A small amt (about 2 ml) of wetting agent, X-77®, was added to each treatment. An untreated control was prepared using water plus the wetting agent only. Untreated apple leaves were collected from ‘Red Delicious’ trees at the WSU Tree Fruit Research and Extension Center, Wenatchee. Leaves were dipped, then allowed to dry. Two punches (2.3 cm diameter) were taken from each leaf. Four punches were placed in a petri dish (Falcon 1006, 50 × 9 mm). Petri dishes were chosen randomly, and five 1- to 2-d-old leafroller larvae were placed on the leaf disks. The petri dish lid was put in place and dishes were placed inside a food storage container and kept at 75°F (± 2°F) constant temperature and a photoperiod of 16:8 (L:D) h. Petri dishes were examined after 7 d and larval survival recorded. Ten dishes were used for each treatment (50 larvae per treatment).

scholarly journals Apple, Insecticide DIP Test (Tabm vs. Insecticides), 1993

1994 ◽  
Vol 19 (1) ◽  
pp. 369-369
Author(s):  
R. L. Horsburgh ◽  
J. R. Warren
Keyword(s):  
Filter Paper ◽  
Room Temperature ◽  
Petri Dish ◽  
Spray Application ◽  
Water Control ◽  
Poor Control ◽  
Laboratory Bioassay ◽  
The Third ◽  
Petri Dishes ◽  
Dip Test

Abstract A large commercial apple grower reported failure in attempts to control TABM with airblast applications of Penncap M (2 pt/acre) combined with methomyl (3 pt/acre). At the time of the grower applications larval hatch had begun and most larvae were in the first or second instar. By the time larvae were entering the third instar (10 days after spray application) it was apparent that commercially acceptable control had not been achieved. In 1992 this grower also had poor control when Penncap M was applied to suppress redbanded leafroller and experiments showed that tolerance of Penncap M was present in the resident RBLR population (Horsburgh et al. 1992). This laboratory bioassay was begun on 3 Sep to determine tolerance of the TABM population to Penncap M and other insecticides. Seven treatments (including a water control) were selected and rates calculated on the basis of 300 gal of spray being applied per acre. The appropriate dosage of pesticide for each treatment was mixed with 1 gallon of 77°F water in clean 1 gallon battery jars. Twenty plastic petri dishes containing moistened filter paper were prepared and served as individual cages for twenty 3rd instars per treatment. The larvae, on single leaves, were immersed in the appropriate solutions for five seconds and the leaf placed on the moist filter paper. The petri dish cover was put in place and the cages held at room temperature (80°F) for the duration of the test. All larvae were examined at 24 hour intervals and mortality was recorded. Death of larvae was assumed when no movement was observed when the larvae were gently prodded with a blunt steel probe.

scholarly journals Quantifying Drosophila adults with the use of a smartphone

Biology Open ◽  
2020 ◽  
Vol 9 (10) ◽  
pp. bio054452 ◽  
Author(s):  
Evgenia K. Karpova ◽  
Evgenii G. Komyshev ◽  
Mikhail A. Genaev ◽  
Natalya V. Adonyeva ◽  
Dmitry A. Afonnikov ◽  
...  
Keyword(s):  
Mobile Application ◽  
Quantitative Estimate ◽  
Large Scale ◽  
High Accuracy ◽  
Mobile App ◽  
Average Error ◽  
Lighting Conditions ◽  
Manual Counting ◽  
Long Time ◽  
Imaging Conditions

ABSTRACTA method for automation of imago quantifying and fecundity assessment in Drosophila with the use of mobile devices running Android operating system is proposed. The traditional manual method of counting the progeny takes a long time and limits the opportunity of making large-scale experiments. Thus, the development of computerized methods that would allow us to automatically make a quantitative estimate of Drosophilamelanogaster fecundity is an urgent requirement. We offer a modification of the mobile application SeedCounter that analyzes images of objects placed on a standard sheet of paper for an automatic calculation of D. melanogaster offspring or quantification of adult flies in any other kind of experiment. The relative average error in estimates of the number of flies by mobile app is about 2% in comparison with the manual counting and the processing time is six times shorter. Study of the effects of imaging conditions on accuracy of flies counting showed that lighting conditions do not significantly affect this parameter, and higher accuracy can be achieved using high-resolution smartphone cameras (8 Mpx and more). These results indicate the high accuracy and efficiency of the method suggested.This article has an associated First Person interview with the first author of the paper.

scholarly journals Isolated Arthroscopic Radial Styloidectomy: The Three-Portal Approach

2020 ◽  
Vol 09 (04) ◽  
pp. 353-356
Author(s):  
Guillaume Herzberg ◽  
Marion Burnier
Keyword(s):  
Gold Standard ◽  
Standard Technique ◽  
New Technique ◽  
Clear Definition ◽  
Current Gold Standard ◽  
Clear View ◽  
A New Technique ◽  
Portal Technique ◽  
Gold Standard Technique ◽  
Technical Trick

Abstract Background The current gold-standard technique for radial styloidectomy is arthroscopic. The use of only two dorsal portals may not allow a crystal-clear view of the dorsal arthritic rim of the radius because of the dorsal capsule synovitis. Objectives To propose a new technique for isolated arthroscopic radial styloidectomy. The addition of a volar radial portal and a sequential procedure are presented. Patients and Methods Two trochars for alternatively viewing from volar radial or 3–4 are used. A 1–2 portal is used for instrumentation with a motorized burr. We have been using the three-portal technique in 34 cases (26 isolated). Results This modification of the classic arthroscopic radial styloidectomy is technically easy and the view of the dorsal rim of the radius provides a clear definition and treatment of the dorso-radial arthritic pathology. Conclusions The authors recommend this technical trick to perform an easy and comprehensive isolated palliative or curative arthroscopic radial styloidectomy.

scholarly journals Prediction of rifampicin resistance beyond the RRDR using structure-based machine learning approaches

2020 ◽  
Vol 10 (1) ◽  
Author(s):  
Stephanie Portelli ◽  
Yoochan Myung ◽  
Nicholas Furnham ◽  
Sundeep Chaitanya Vedithi ◽  
Douglas E. V. Pires ◽  
...  
Keyword(s):  
Machine Learning ◽  
Nucleic Acid ◽  
Rna Polymerase ◽  
Gold Standard ◽  
Rifampicin Resistance ◽  
Missense Mutations ◽  
Learning Approaches ◽  
Current Gold Standard ◽  
Sequence Identity ◽  
Protein Affinities

Abstract Rifampicin resistance is a major therapeutic challenge, particularly in tuberculosis, leprosy, P. aeruginosa and S. aureus infections, where it develops via missense mutations in gene rpoB. Previously we have highlighted that these mutations reduce protein affinities within the RNA polymerase complex, subsequently reducing nucleic acid affinity. Here, we have used these insights to develop a computational rifampicin resistance predictor capable of identifying resistant mutations even outside the well-defined rifampicin resistance determining region (RRDR), using clinical M. tuberculosis sequencing information. Our tool successfully identified up to 90.9% of M. tuberculosis rpoB variants correctly, with sensitivity of 92.2%, specificity of 83.6% and MCC of 0.69, outperforming the current gold-standard GeneXpert-MTB/RIF. We show our model can be translated to other clinically relevant organisms: M. leprae, P. aeruginosa and S. aureus, despite weak sequence identity. Our method was implemented as an interactive tool, SUSPECT-RIF (StrUctural Susceptibility PrEdiCTion for RIFampicin), freely available at https://biosig.unimelb.edu.au/suspect_rif/.

Disinfection of selected Aspergillus spp. using ultraviolet germicidal irradiation

2004 ◽  
Vol 50 (3) ◽  
pp. 221-224 ◽  
Author(s):  
Christopher F Green ◽  
Pasquale V Scarpino ◽  
Paul Jensen ◽  
Nancy J Jensen ◽  
Shawn G Gibbs
Keyword(s):  
Aspergillus Fumigatus ◽  
Aspergillus Flavus ◽  
Fungal Spores ◽  
Petri Dish ◽  
Testing Unit ◽  
Ultraviolet Germicidal Irradiation ◽  
Airborne Fungal Spores ◽  
Agar Surface ◽  
Petri Dishes ◽  
Higher Doses

Aims: The efficacy of ultraviolet germicidal irradiation (UVGI) and the UVGI dose necessary to inactivate fungal spores on an agar surface for cultures of Aspergillus flavus and Aspergillus fumigatus were determined. Methods and results: A four-chambered UVGI testing unit with a 9-W, Phillips, low pressure, mercury UVGI lamp in each chamber was used in this study. An aperture was adjusted to provide 50, 100, 150, and 200 µW/cm2 of uniform flux to the surfaces of the Petri dish, resulting in a total UVGI dose to the surface of the Petri dishes ranging from 12 to 96 mJ/cm2. The UVGI dose necessary to inactivate 90% of the A. flavus and A. fumigatus was 35 and 54 mJ/cm2, respectively. Conclusions: UVGI can be used to inactivate culturable fungal spores. Aspergillus flavus was more susceptible than A. fumigatus to UVGI. Significance and impact of the study: These results may not be directly correlated to the effect of UVGI on airborne fungal spores, but they indicate that current technology may not be efficacious as a supplement to ventilation unless it can provide higher doses of UVGI to kill spores traveling through the irradiated zone.Key words: Aspergillus, ultraviolet germicidal irradiation, fungi.

scholarly journals Assessment of nasal resistance using computational fluid dynamics

2016 ◽  
Vol 2 (1) ◽  
pp. 617-621 ◽  
Author(s):  
Jan Osman ◽  
Friederike Großmann ◽  
Kay Brosien ◽  
Ulrich Kertzscher ◽  
Leonid Goubergrits ◽  
...  
Keyword(s):  
Fluid Dynamics ◽  
Computational Fluid Dynamics ◽  
Gold Standard ◽  
Objective Assessment ◽  
Nasal Resistance ◽  
Nasal Breathing ◽  
Current Gold Standard ◽  
Flow Parameters

AbstractAnterior rhinomanometry is the current gold standard for the objective assessment of nasal breathing by determining the nasal resistance. However, computational fluid dynamics would allow spatially and temporally well- resolved investigation of additional flow parameters. In this study, measured values of nasal resistance are compared with measured values. An unclear discrepancy between the two methods was found, suggesting further investigation.

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