DNA barcoding as an identification tool for selected EU-regulated plant pests: an international collaborative test performance study among 14 laboratories

EPPO Bulletin ◽  
2013 ◽  
Vol 43 (2) ◽  
pp. 216-228 ◽  
Author(s):  
B. T. L. H. van de Vossenberg ◽  
M. Westenberg ◽  
P. J. M. Bonants
Keyword(s):  
Dna Barcoding ◽  
Test Performance ◽  
Performance Study ◽  
Plant Pests ◽  
Collaborative Test ◽  
International Collaborative ◽  
Identification Tool

scholarly journals Development of a loop-mediated isothermal amplification assay for the detection of Tilletia controversa based on genome comparison

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Somayyeh Sedaghatjoo ◽  
Monika K. Forster ◽  
Ludwig Niessen ◽  
Petr Karlovsky ◽  
Berta Killermann ◽  
...  
Keyword(s):  
Test Performance ◽  
Genomic Dna ◽  
Lamp Assay ◽  
Fungal Species ◽  
Isothermal Amplification ◽  
Genome Comparison ◽  
Performance Study ◽  
Loop Mediated Isothermal Amplification ◽  
Tilletia Controversa ◽  
Genomic Regions

AbstractTilletia controversa causing dwarf bunt of wheat is a quarantine pathogen in several countries. Therefore, its specific detection is of great phytosanitary importance. Genomic regions routinely used for phylogenetic inferences lack suitable polymorphisms for the development of species-specific markers. We therefore compared 21 genomes of six Tilletia species to identify DNA regions that were unique and conserved in all T. controversa isolates and had no or limited homology to other Tilletia species. A loop-mediated isothermal amplification (LAMP) assay for T. controversa was developed based on one of these DNA regions. The specificity of the assay was verified using 223 fungal samples comprising 43 fungal species including 11 Tilletia species, in particular 39 specimens of T. controversa, 92 of T. caries and 40 of T. laevis, respectively. The assay specifically amplified genomic DNA of T. controversa from pure cultures and teliospores. Only Tilletia trabutii generated false positive signals. The detection limit of the LAMP assay was 5 pg of genomic DNA per reaction. A test performance study that included five laboratories in Germany resulted in 100% sensitivity and 97.7% specificity of the assay. Genomic regions, specific to common bunt (Tilletia caries and Tilletia laevis together) are also provided.

scholarly journals PM 7/129 (1) DNA barcoding as an identification tool for a number of regulated pests

EPPO Bulletin ◽  
2016 ◽  
Vol 46 (3) ◽  
pp. 501-537 ◽  
Keyword(s):  
Dna Barcoding ◽  
Identification Tool

The influence of anxiety and quality of interaction on collaborative test performance

2011 ◽  
Vol 12 (3) ◽  
pp. 163-174 ◽  
Author(s):  
Carol Pandey ◽  
Susan Kapitanoff
Keyword(s):  
College Students ◽  
Test Anxiety ◽  
Test Performance ◽  
Performance Anxiety ◽  
Anxiety Reduction ◽  
Collaborative Testing ◽  
Collaborative Test

This research investigated the relationships among test performance, anxiety, and the quality of interaction during collaborative testing of college students. It also explored which students are most likely to benefit from collaborative testing. It was randomly determined whether a student would take each of six examinations alone or with a partner. Collaborative testing resulted in higher scores than individual testing for a significant number of students, conferring an advantage of 3.83%. Test performance was positively correlated with quality of interaction. Students with higher levels of test anxiety were most likely to benefit from collaborative testing and to experience the greatest test anxiety reduction.

scholarly journals Point of Care Testing using rapid automated Antigen Testing for SARS-COV-2 in Care Homes – an exploratory safety, usability and diagnostic agreement evaluation

2021 ◽  
Author(s):  
Massimo Micocci ◽  
Peter Buckle ◽  
Gail Hayward ◽  
A. Joy Allen ◽  
Kerrie Davies ◽  
...  
Keyword(s):  
Test Performance ◽  
Point Of Care ◽  
Care Home ◽  
Immunofluorescence Assay ◽  
Careful Consideration ◽  
Care Homes ◽  
Performance Study ◽  
Mixed Methods Evaluation ◽  
Point Of Care Tests ◽  
Positive Agreement

AbstractIntroductionSuccessful adoption of POCTs (Point-of-Care tests) for COVID-19 in care homes requires the identification of ideal use cases and a full understanding of contextual and usability factors that affect test results and minimise biosafety risks. This paper presents findings from a scoping-usability and test performance study of a microfluidic immunofluorescence assay for COVID-19 in care homes.MethodsA mixed-methods evaluation was conducted in four UK care homes to scope usability and to assess the agreement with qRT-PCR. A dry run with luminescent dye was carried out to explore biosafety issues.ResultsThe agreement analysis was carried out on 227 asymptomatic participants (159 staff and 68 residents) and 14 symptomatic participants (5 staff and 9 residents). Asymptomatic specimens showed 50% (95% CI: 1.3%-98.7%) positive agreement and 96% (95% CI: 92.5%-98.1%) negative agreement with overall prevalence and bias-adjusted Kappa (PABAK) of 0.911 (95% CI: 0.857-0.965). Symptomatic specimens showed 83.3% (95% CI: 35.9%-99.6%) positive agreement and 100% (95% CI: 63.1%-100%) negative agreement with overall prevalence and bias-adjusted Kappa (PABAK) of 0.857 (95% CI: 0.549-1).The dry run showed four main sources of contamination that led to the modification of the standard operating procedures. Simulation after modification showed no further evidence of contamination.ConclusionCareful consideration of biosafety issues and contextual factors associated with care home are mandatory for safe use the POCT. Whilst POCT may have some utility for ruling out COVID-19, further diagnostic accuracy evaluations are needed to promote effective adoption.

DNA barcoding of invertebrate plant pests.

2016 ◽  
pp. 98-124 ◽  
Author(s):  
S. Kiewnick ◽  
A. Bühlmann ◽  
J. E. Frey
Keyword(s):  
Dna Barcoding ◽  
Plant Pests

Test performance study of diagnostic procedures for identification and detection ofGibberella circinatain pine seeds in the framework of a EUPHRESCO project

EPPO Bulletin ◽  
2013 ◽  
Vol 43 (2) ◽  
pp. 267-275 ◽  
Author(s):  
R. Ioos ◽  
T. Annesi ◽  
C. Fourrier ◽  
C. Saurat ◽  
A. Chandelier ◽  
...  
Keyword(s):  
Test Performance ◽  
Diagnostic Procedures ◽  
Performance Study

Diagnostic and phylogenetic utility of the first DNA barcode library for longhorn beetles (Coleoptera: Cerambycidae) from the Russian Far East

Zootaxa ◽  
2017 ◽  
Vol 4276 (3) ◽  
pp. 441 ◽  
Author(s):  
VASILY V. GREBENNIKOV ◽  
EDUARD JENDEK ◽  
MAXIM ED. SMIRNOV
Keyword(s):  
Dna Barcoding ◽  
Phylogenetic Signal ◽  
Russian Far East ◽  
Far East ◽  
Dna Barcode ◽  
Longhorn Beetles ◽  
Gene Coi ◽  
Online Library ◽  
Identification Tool ◽  
The Russian Far East

One hundred forty two specimens representing 56 species of longhorn beetles (Cerambycidae) from the Russian Far East were sequenced for a 658 bp fragment of the 5' end of the mitochondrial cytochrome oxidase subunit I gene (COI, =DNA barcode). The data are publicly available in an open access online library (dx.doi.org/10.5883/DS-CERRF). All analysed species could be differentiated using the standard online DNA barcode identification tool, except for a group of three sympatric colour-defined Menesia species. Seven Menesia records share the same Barcode Identification Number (=BIN), while the single specimen of M. flavotecta shares the same haplotype as some of M. sulphurata. Excluding the Menesia case, the Barcode Index Numbers (BINs) uniquely correspond to the analysed species, in all but the four specimens of Chlorophorus simillimus where they share two BINs. Although DNA barcoding aims to develop species identification systems, some phylogenetic signal was apparent in the data and in the Maximum Likelihood analysis, all four subfamilies were recovered as monophyletic. Notwithstanding the few detected deviations from the absolute taxonomic/phylogenetic match, DNA barcoding is a powerful identification tool with a capacity to place an undocumented record among its closest relatives. 

scholarly journals Comparison of test configurations for determination of mode II interlaminar fracture toughness results from international collaborative test programme

1999 ◽  
Vol 28 (9) ◽  
pp. 432-437 ◽  
Author(s):  
P. Davies ◽  
G.D. Sims ◽  
B.R.K. Blackman ◽  
A.J. Brunner ◽  
K. Kageyama ◽  
...  
Keyword(s):  
Fracture Toughness ◽  
Mode Ii ◽  
Interlaminar Fracture Toughness ◽  
Interlaminar Fracture ◽  
Test Programme ◽  
Collaborative Test ◽  
International Collaborative

scholarly journals Introduction to the QBOL-EPPO Conference on DNA barcoding and diagnostic methods for plant pests

EPPO Bulletin ◽  
2013 ◽  
Vol 43 (2) ◽  
pp. 209-210
Author(s):  
F. Petter ◽  
M. McMullen
Keyword(s):  
Dna Barcoding ◽  
Diagnostic Methods ◽  
Plant Pests
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