Test performance study for detection of Ralstonia solanacearum and Clavibacter sepedonicus in potato tubers with TaqMan PCR

EPPO Bulletin ◽  
2020 ◽  
Vol 50 (1) ◽  
pp. 177-185
Author(s):  
R. A. M. Vreeburg ◽  
M. Nas ◽  
B. De Paepe ◽  
T. Dreo ◽  
R. A. Gottsberger ◽  
...  
Keyword(s):  
Ralstonia Solanacearum ◽  
Test Performance ◽  
Potato Tubers ◽  
Performance Study ◽  
Taqman Pcr

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 Interactions with Hosts at Cool Temperatures, Not Cold Tolerance, Explain the Unique Epidemiology of Ralstonia solanacearum Race 3 Biovar 2

2009 ◽  
Vol 99 (10) ◽  
pp. 1127-1134 ◽  
Author(s):  
Annett Milling ◽  
Fanhong Meng ◽  
Timothy P. Denny ◽  
Caitilyn Allen
Keyword(s):  
North American ◽  
Ralstonia Solanacearum ◽  
Potato Tubers ◽  
In Planta ◽  
Plant Host ◽  
Tomato Plants ◽  
North American Strain ◽  
Tropical Highlands ◽  
American Strain ◽  
Warm Temperate

Most strains of the bacterial wilt pathogen Ralstonia solanacearum are tropical, but race 3 biovar 2 (R3bv2) strains can attack plants in temperate zones and tropical highlands. The basis of this distinctive ecological trait is not understood. We compared the survival of tropical, R3bv2, and warm-temperate North American strains of R. solanacearum under different conditions. In water at 4°C, North American strains remained culturable the longest (up to 90 days), whereas tropical strains remained culturable for the shortest time (≈40 days). However, live/dead staining indicated that cells of representative strains remained viable for >160 days. In contrast, inside potato tubers, R3bv2 strain UW551 survived >4 months at 4°C, whereas North American strain K60 and tropical strain GMI1000 were undetectable after <70 days in tubers. GMI1000 and UW551 grew similarly in minimal medium at 20 and 28°C and, although both strains wilted tomato plants rapidly at 28°C, UW551 was much more virulent at 20°C, killing all inoculated plants under conditions where GMI100 killed just over half. Thus, differences among the strains in the absence of a plant host were not predictive of their behavior in planta at cooler temperatures. These data indicate that interaction with plants is required for expression of the temperate epidemiological trait of R3bv2.

Detection of Ralstonia solanacearum in Potato Tubers, Solanum dulcamara and Associated Irrigation Water

1998 ◽  
pp. 133-139 ◽  
Author(s):  
J. G. Elphinstone ◽  
H. M. Stanford ◽  
D. E. Stead
Keyword(s):  
Irrigation Water ◽  
Ralstonia Solanacearum ◽  
Potato Tubers ◽  
Solanum Dulcamara

Development of a TaqMan PCR assay for specific detection and quantification of Pectobacterium brasiliense in potato tubers and soil

2020 ◽  
Vol 158 (2) ◽  
pp. 521-532 ◽  
Author(s):  
N. Muzhinji ◽  
J. P. Dube ◽  
E. G. de Haan ◽  
J. W. Woodhall ◽  
J. E. van der Waals
Keyword(s):  
Potato Tubers ◽  
Specific Detection ◽  
Pcr Assay ◽  
Taqman Pcr ◽  
Detection And Quantification

scholarly journals Genetic Diversity and Aggressiveness of Ralstonia solanacearum Strains Causing Bacterial Wilt of Potato in Uruguay

Plant Disease ◽  
2011 ◽  
Vol 95 (10) ◽  
pp. 1292-1301 ◽  
Author(s):  
M. I. Siri ◽  
A. Sanabria ◽  
M. J. Pianzzola
Keyword(s):  
Genetic Diversity ◽  
Bacterial Wilt ◽  
Ralstonia Solanacearum ◽  
Potato Tubers ◽  
Bacterial Strains ◽  
Potato Plants ◽  
Polymerase Chain ◽  
First Time ◽  
Different Levels

Bacterial wilt, caused by Ralstonia solanacearum, is a major disease affecting potato (Solanum tuberosum) production worldwide. Although local reports suggest that the disease is widespread in Uruguay, characterization of prevalent R. solanacearum strains in that country has not been done. In all, 28 strains of R. solanacearum isolated from major potato-growing areas in Uruguay were evaluated, including 26 strains isolated from potato tubers and 2 from soil samples. All strains belonged to phylotype IIB, sequevar 1 (race 3, biovar 2). Genetic diversity of strains was assessed by repetitive-sequence polymerase chain reaction, which showed that the Uruguayan strains constituted a homogeneous group. In contrast, inoculation of the strains on tomato and potato plants showed, for the first time, different levels of aggressiveness among R. solanacearum strains belonging to phylotype IIB, sequevar 1. Aggressiveness assays were also performed on accessions of S. commersonii, a wild species native to Uruguay that is a source of resistance for potato breeding. No significant interactions were found between bacterial strains and potato and S. commersonii genotypes, and differences in aggressiveness among R. solanacearum strains were consistent with previously identified groups based on tomato and potato inoculations. Moreover, variation in responses to R. solanacearum was observed among the S. commersonii accessions tested.

scholarly journals EFFECT OF EXPOSURE OF POTATO TUBERS TO VOLATILE COMPOUNDS ON Rhizoctonia solani AND Ralstonia solanacearum TRANSMITTED BY TUBERS

2007 ◽  
Vol 32 (5) ◽  
pp. 3515-3522
Author(s):  
M. Abd El-Aziz ◽  
N. Abd El-Ghafar ◽  
F. Abo El-Abbas ◽  
M. Mostafa
Keyword(s):  
Rhizoctonia Solani ◽  
Volatile Compounds ◽  
Ralstonia Solanacearum ◽  
Potato Tubers

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.

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

Sensitivity of methods for the detection of Ralstonia solanacearum in potato tubers

EPPO Bulletin ◽  
1998 ◽  
Vol 28 (1-2) ◽  
pp. 69-70 ◽  
Author(s):  
J. G. ELPHINSTONE ◽  
H. STANFORD
Keyword(s):  
Ralstonia Solanacearum ◽  
Potato Tubers

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 ◽  
pp. 251604352110542
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 ◽  
Post Modification ◽  
Point Of Care Tests ◽  
Positive Agreement

Introduction Successful 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 the contextual and usability factors that affect test results and minimise biosafety risks. This paper presents a scoping-usability and test performance study of a microfluidic immunofluorescence assay for COVID-19 in care homes. Methods A 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 conducted to explore biosafety issues. Results The agreement analysis was conducted 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 highlighted four main sources of contamination that led to the modification of the standard operating procedures. Simulation post-modification showed no further evidence of contamination. Conclusion Careful 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.

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