scholarly journals Pooled testing with replication as a mass testing strategy for the COVID-19 pandemics

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Julius Žilinskas ◽  
Algirdas Lančinskas ◽  
Mario R. Guarracino
Keyword(s):  
Real Time ◽  
Real Time Pcr ◽  
Group Testing ◽  
Testing Strategy ◽  
Testing Technique ◽  
Testing Procedures ◽  
Pooled Testing ◽  
Replication Scheme ◽  
Speed Up ◽  
Multiple Patients

AbstractDuring the COVID-19 pandemic it is essential to test as many people as possible, in order to detect early outbreaks of the infection. Present testing solutions are based on the extraction of RNA from patients using oropharyngeal and nasopharyngeal swabs, and then testing with real-time PCR for the presence of specific RNA filaments identifying the virus. This approach is limited by the availability of reactants, trained technicians and laboratories. One of the ways to speed up the testing procedures is a group testing, where the swabs of multiple patients are grouped together and tested. In this paper we propose to use the group testing technique in conjunction with an advanced replication scheme in which each patient is allocated in two or more groups to reduce the total numbers of tests and to allow testing of even larger numbers of people. Under mild assumptions, a 13 ×  average reduction of tests can be achieved compared to individual testing without delay in time.

scholarly journals Pooled testing with replication: a mass testing strategy for the COVID-19 pandemics

2020 ◽  
Author(s):  
Julius Žilinskas ◽  
Algirdas Lančinskas ◽  
Mario R. Guarracino
Keyword(s):  
Real Time ◽  
Real Time Pcr ◽  
Group Testing ◽  
Antiviral Drugs ◽  
Testing Strategy ◽  
Testing Procedures ◽  
Pooled Testing ◽  
Replication Scheme ◽  
Speed Up ◽  
Multiple Patients

AbstractIn absence of a vaccine or antiviral drugs for the COVID-19 pandemic, it becomes urgent to test for positiveness to the virus as many people as possible, in order to detect early outbreaks of the infection. Present testing solutions are based on the extraction of RNA from patients using oropharyngeal (OP) and nasopharyngeal (NP) swabs, and then testing with real-time PCR for the presence of specific RNA filaments identifying the virus. This approach is limited by the availability of reactants, trained technicians and laboratories. To speed up the testing procedures, some attempts have been done on group testing, which means that the swabs of multiple patients are grouped together and tested. Here we propose to use this technique in conjunction with a combinatorial replication scheme in which each patient is allocated in two or more groups to reduce total numbers of tests and to allow testing of even larger numbers of people. Under mild assumptions, a 13× average reduction of tests can be achieved.

scholarly journals Multiple Cross Displacement Amplification Combined With Real-Time Polymerase Chain Reaction Platform: A Rapid, Sensitive Method to Detect Mycobacterium tuberculosis

2021 ◽  
Vol 12 ◽  
Author(s):  
Wei-wei Jiao ◽  
Gui-rong Wang ◽  
Lin Sun ◽  
Jing Xiao ◽  
Jie-qiong Li ◽  
...  
Keyword(s):  
Real Time ◽  
Real Time Pcr ◽  
Sputum Sample ◽  
Solid Culture ◽  
Chain Reaction ◽  
Tb Treatment ◽  
Multiple Cross ◽  
Speed Up ◽  
Polymerase Chain ◽  
Multiple Samples

In this study, we evaluated the diagnostic accuracy of multiple cross displacement amplification (MCDA) combined with real-time PCR platform in pulmonary tuberculosis (PTB) patients. Total 228 PTB patients and 141 non-TB cases were enrolled. Based on the analysis of the first available sample of all participants, MCDA assay showed a higher overall sensitivity (64.0%), with a difference of more than 10% compared with Xpert MTB/RIF (Xpert) assay (51.8%, P < 0.05) and combined liquid and solid culture (47.8%, P < 0.001) for PTB diagnosis. In particular, MCDA assay detected 31 probable TB patients, which notably increased the percentage of confirmed TB from 57.9% (132/228) to 71.5% (163/228). The specificities of microscopy, culture, Xpert and MCDA assay were 100% (141/141), 100% (141/141), 100% (141/141), and 98.6% (139/141), respectively. Among the patients with multiple samples, per patient sensitivity of MCDA assay was 60.5% (52/86) when only the first available sputum sample was taken into account, and the sensitivity increased to 75.6% (65/86) when all samples tested by MCDA assay were included into the analysis. Therefore, MCDA assay established in this study is rapid, accurate and affordable, which has the potential in assisting the accurate and rapid diagnosis of PTB and speed up initiation of TB treatment in settings equipped with real-time PCR platform.

scholarly journals Evaluation of Group Testing for SARS-CoV-2 RNA

2020 ◽  
Author(s):  
Nasa Sinnott-Armstrong ◽  
Daniel L. Klein ◽  
Brendan Hickey
Keyword(s):  
Rna Extraction ◽  
Group Testing ◽  
Disease Status ◽  
Behavioral Changes ◽  
Limiting Factor ◽  
Testing Strategy ◽  
Pooled Testing ◽  
Testing Strategies ◽  
Test Kit ◽  
Testing Protocols

AbstractDuring the current COVID-19 pandemic, testing kit and RNA extraction kit availability has become a major limiting factor in the ability to determine patient disease status and accurately quantify prevalence. Current testing strategies rely on individual tests of cases matching restrictive diagnostic criteria to detect SARS-CoV-2 RNA, limiting testing of asymptomatic and mild cases. Testing these individuals is one effective way to understand and reduce the spread of COVID-19.Here, we develop a pooled testing strategy to identify these low-risk individuals. Drawing on the well-studied group testing literature, modeling suggests practical changes to testing protocols which can reduce test costs and stretch a limited test kit supply. When most tests are negative, pooling reduces the total number of tests up to four-fold at 2% prevalence and eight-fold at 0.5% prevalence. At current SARS-CoV-2 prevalence, randomized group testing optimized per country could double the number of tested individuals from 1.85M to 3.7M using only 671k more tests.This strategy is well-suited to supplement testing for asymptomatic and mild cases who would otherwise go untested, and enable them to adopt behavioral changes to slow the spread of COVID-19.

Feldvalidierung einer real-time PCR zum Nachweis von Mycoplasma hyopneumoniae in Nasentupfermaterial von lebenden Schweinen

2005 ◽  
Vol 147 (9) ◽  
pp. 373-379 ◽  
Author(s):  
F. Zeeh ◽  
P. Kuhnert ◽  
R. Miserez ◽  
M. G. Doherr ◽  
W. Zimmermann
Keyword(s):  
Real Time ◽  
Real Time Pcr ◽  
Mycoplasma Hyopneumoniae

Nutzen des hoch-sensitiven real-time-PCR HBV Tests (TaqMan) zur Prädiktion der Resistenzentwicklung bei Lamivudin-Langzeittherapie

2010 ◽  
Vol 48 (08) ◽  
Author(s):  
A Brodzinski ◽  
F van Bömmel ◽  
B Fülöp ◽  
B Schlosser ◽  
M Biermer ◽  
...  
Keyword(s):  
Real Time ◽  
Real Time Pcr

Nachweis des porzinen Circovirus Typ 2 und des Torque-Teno-Sus-Virus 1 und 2 in Samenproben von Ebern einer österreichischen Besamungsstation

2011 ◽  
Vol 39 (04) ◽  
pp. 201-204
Author(s):  
A. Griessler ◽  
E. Pirker ◽  
H. Söllner ◽  
J. Segalés ◽  
T. Kekarainen ◽  
...  
Keyword(s):  
Real Time ◽  
Real Time Pcr ◽  
Klinische Relevanz ◽  
Torque Teno Sus Virus

Zusammenfassung Gegenstand und Ziel: Das porzine Circovirus Typ 2 (PCV-2) und das Torque-teno-Sus-Virus (TTSuV) sind in schweineproduzierenden Ländern häufig nachzuweisen. Beide Erreger können sowohl horizontal als auch vertikal übertragen werden und Ebersamen könnte ein wichtiges Übertragungsmedium darstellen. Ziel der Studie war die Abklärung der Prävalenz dieser beiden Viren in Samenproben von Ebern. Material und Methoden: Von 100 Ebern einer Besamungsstation wurde jeweils eine Samenprobe mittels quantitativer Real-Time-PCR auf PCV-2 und mittels konventioneller PCR auf TTSuV-1 und TTSuV-2 untersucht. Ergebnisse: Nur bei einem Eber der Rasse Piétrain war ein positives PCV-2-Resultat festzustellen. TTSuV-1 ließ sich in vier Samenproben, TTSuV-2 in fünf Proben nachweisen. Ein Eber wies eine Koinfektion mit beiden TTSuV-Genotypen auf. Alle TTSuV-positiven Proben stammten von Piétrain-Ebern. Schlussfolgerung und klinische Relevanz: In der vorliegenden Studie wurde erstmals in Österreich TTSuV im Samen nachgewiesen. Die Prävalenz sowohl von TTSuV als auch von PCV-2 war gering. Die klinische Relevanz einer gleichzeitigen Kontamination des Samens mit beiden Viren ist nicht klar.

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