Assessment of SARS-CoV-2 viral loads in combined nasal-and-throat swabs collected from COVID-19 individuals under the Universal Community Testing Programme in Hong Kong
CONCLUSIONS: This study demonstrated that CNTS could be a specimen of choice for diagnosis of SARS-CoV-2.PMID:34856306 | DOI:10.1016/j.jviromet.2021.114396 (Source: Journal of Virological Methods)
Source: Journal of Virological Methods - December 2, 2021 Category: Virology Authors: Gannon C K Mak Anita Y Y Ng Edman T K Lam Rickjason C W Chan Dominic N C Tsang Source Type: research

Development of an RT-LAMP assay for the detection of maize yellow mosaic virus in maize
In conclusion, the RT-LAMP assay developed was a rapid, specific, sensitive and low-cost method for the detection of MaYMV in field samples of maize.PMID:34856307 | DOI:10.1016/j.jviromet.2021.114384 (Source: Journal of Virological Methods)
Source: Journal of Virological Methods - December 2, 2021 Category: Virology Authors: Xiaoqin Li Wenli Hu Yu Li Yan Li Suiyun Chen Jianguang Wang Source Type: research

The screening value of RT-LAMP and RT-PCR in the diagnosis of COVID-19: systematic review and meta-analysis
J Virol Methods. 2021 Nov 29:114392. doi: 10.1016/j.jviromet.2021.114392. Online ahead of print.ABSTRACTThe purpose of this systematic review is to evaluate the test accuracy of reverse-transcription loop-mediated isothermal amplification (RT-LAMP) and reverse transcription-PCR (RT-PCR) for the diagnosis of coronavirus disease 2019 (COVID-19). We comprehensively searched PUBMED, Web of Science, the Cochrane Library, the Chinese National Knowledge Infrastructure, and the Chinese biomedical Literature Service System until September 1, 2021. We included clinical studies assessing the sensitivity and specificity of RT-PCR and ...
Source: Journal of Virological Methods - December 2, 2021 Category: Virology Authors: Ruiyang Pu Sha Liu Xiaoyu Ren Dian Shi Yupei Ba Yanbei Huo Wenling Zhang Lingling Ma Yanyan Liu Yan Yang Ning Cheng Source Type: research

Nucleotide amplification and sequencing of the GC-rich region between matrix and fusion protein genes of peste des petits ruminants virus
J Virol Methods. 2021 Nov 27:114390. doi: 10.1016/j.jviromet.2021.114390. Online ahead of print.ABSTRACTPeste des petits ruminants virus (PPRV) causes a highly contagious viral disease of sheep and goats and threatens small ruminant production and the conservation of small wild ruminants. The high guanine-cytosine (GC) content between matrix (M) and fusion (F) protein genes of PPRV poses difficulty for both primer design and nucleotide amplification. In turn, this has led into absence or low nucleotide sequence coverage in this region. This poses a risk of missing important part of the genome that could help to infer viral...
Source: Journal of Virological Methods - December 1, 2021 Category: Virology Authors: Edson Kinimi Jean N épomuscène Hakizimana Gerald Misinzo Source Type: research

A SYBR Green-based real-time RT-PCR assay to differentiate the H1N1 influenza virus lineages
In this study, four pairs of primers, based on the relatively conserved HA nucleotide regions of each H1N1 genetic lineage, were designed to establish an SYBR Green-based real-time quantitative RT-PCR (qPCR) assay to differentiate between the H1N1 genetic lineages. The results of qPCR assay showed that the lineage-specific primers designed for each H1N1 lineage were intra-lineage-specific, without mismatch of inter-lineage or inter-subtype and there appeared specific amplification curves when the concentrations of H1N1 plasmids were greater than or equal to 1.0 × 101 copies/reaction. Thus, this qPCR assay can specifi...
Source: Journal of Virological Methods - December 1, 2021 Category: Virology Authors: Yulin Cong Yixue Sun Xiaoyu Deng Haiying Yu Xiaohuan Lian Yanlong Cong Source Type: research

Development of simplex and multiplex RT-qPCR assays for the detection of three cryptic viruses of black-grass (Alopecurus myosuroides)
J Virol Methods. 2021 Nov 27:114389. doi: 10.1016/j.jviromet.2021.114389. Online ahead of print.ABSTRACTSimplex and multiplex RT-qPCR assays were developed for Alopecurus myosuroides partitivirus 1 (AMPV1), Alopecurus myosuroides partitivirus 2 (AMPV2) and Alopecurus myosuroides varicosavirus 1 (AMVV1), and compared to the existing conventional PCR assays. All assays had a high specificity and their sensitivity was increased compared to the conventional RT-PCR assays. As viral quantification is an important element in comparative experiments, the effect of high- and low-temperature drying treatments, prior to RNA extractio...
Source: Journal of Virological Methods - December 1, 2021 Category: Virology Authors: Jone Sant ín Azcona Adrian Fox Neil Boonham Source Type: research

Reverse transcription recombinase polymerase amplification assay for rapid detection of the cucurbit chlorotic yellows virus
J Virol Methods. 2021 Nov 27:114388. doi: 10.1016/j.jviromet.2021.114388. Online ahead of print.ABSTRACTThe cucurbit chlorotic yellows virus (CCYV) causes severe economic losses in cucurbit plants. Although it has been widely known in various countries for several years, CCYV is rarely recognized due to the lack of rapid and effective detection methods in the early stage of the disease. Recombinase polymerase amplification (RPA) is a new, efficient, and simple technology for nucleic acid detection. In the present study, reverse transcription (RT)-RPA and quantitative RT-RPA were developed and utilized for fast detection of...
Source: Journal of Virological Methods - December 1, 2021 Category: Virology Authors: Lianyi Zang Ning Qiao Xiaohui Sun Xianping Zhang Dan Zhao Jintang Li Xiaoping Zhu Source Type: research

The non-monotonic dose dependence of protein expression in cells transfected with self-amplifying RNA
In this report, we demonstrate a non-monotonic dependence of protein expression on the mass of transfected replicon, in contrast to the usual, monotonic case of non-sa RNA transfections. We lipotransfected a variety of cell lines with increasing masses of enhanced yellow fluorescent protein (eYFP) as a reporter gene in sa form and found that there is a "sweet spot" at which protein expression and cell viability are optimum. To control the varying mass of transfected replicon RNA for a given mass of lipofectamine, the replicons were mixed with a "carrier" RNA that is neither replicated nor translated; th...
Source: Journal of Virological Methods - December 1, 2021 Category: Virology Authors: Cheylene R Tanimoto Abby R Thurm Devin S Brandt Charles M Knobler William M Gelbart Source Type: research

Nucleotide amplification and sequencing of the GC-rich region between matrix and fusion protein genes of peste des petits ruminants virus
J Virol Methods. 2021 Nov 27:114390. doi: 10.1016/j.jviromet.2021.114390. Online ahead of print.ABSTRACTPeste des petits ruminants virus (PPRV) causes a highly contagious viral disease of sheep and goats and threatens small ruminant production and the conservation of small wild ruminants. The high guanine-cytosine (GC) content between matrix (M) and fusion (F) protein genes of PPRV poses difficulty for both primer design and nucleotide amplification. In turn, this has led into absence or low nucleotide sequence coverage in this region. This poses a risk of missing important part of the genome that could help to infer viral...
Source: Journal of Virological Methods - December 1, 2021 Category: Virology Authors: Edson Kinimi Jean N épomuscène Hakizimana Gerald Misinzo Source Type: research

A SYBR Green-based real-time RT-PCR assay to differentiate the H1N1 influenza virus lineages
In this study, four pairs of primers, based on the relatively conserved HA nucleotide regions of each H1N1 genetic lineage, were designed to establish an SYBR Green-based real-time quantitative RT-PCR (qPCR) assay to differentiate between the H1N1 genetic lineages. The results of qPCR assay showed that the lineage-specific primers designed for each H1N1 lineage were intra-lineage-specific, without mismatch of inter-lineage or inter-subtype and there appeared specific amplification curves when the concentrations of H1N1 plasmids were greater than or equal to 1.0 × 101 copies/reaction. Thus, this qPCR assay can specifi...
Source: Journal of Virological Methods - December 1, 2021 Category: Virology Authors: Yulin Cong Yixue Sun Xiaoyu Deng Haiying Yu Xiaohuan Lian Yanlong Cong Source Type: research

Development of simplex and multiplex RT-qPCR assays for the detection of three cryptic viruses of black-grass (Alopecurus myosuroides)
J Virol Methods. 2021 Nov 27:114389. doi: 10.1016/j.jviromet.2021.114389. Online ahead of print.ABSTRACTSimplex and multiplex RT-qPCR assays were developed for Alopecurus myosuroides partitivirus 1 (AMPV1), Alopecurus myosuroides partitivirus 2 (AMPV2) and Alopecurus myosuroides varicosavirus 1 (AMVV1), and compared to the existing conventional PCR assays. All assays had a high specificity and their sensitivity was increased compared to the conventional RT-PCR assays. As viral quantification is an important element in comparative experiments, the effect of high- and low-temperature drying treatments, prior to RNA extractio...
Source: Journal of Virological Methods - December 1, 2021 Category: Virology Authors: Jone Sant ín Azcona Adrian Fox Neil Boonham Source Type: research

Reverse transcription recombinase polymerase amplification assay for rapid detection of the cucurbit chlorotic yellows virus
J Virol Methods. 2021 Nov 27:114388. doi: 10.1016/j.jviromet.2021.114388. Online ahead of print.ABSTRACTThe cucurbit chlorotic yellows virus (CCYV) causes severe economic losses in cucurbit plants. Although it has been widely known in various countries for several years, CCYV is rarely recognized due to the lack of rapid and effective detection methods in the early stage of the disease. Recombinase polymerase amplification (RPA) is a new, efficient, and simple technology for nucleic acid detection. In the present study, reverse transcription (RT)-RPA and quantitative RT-RPA were developed and utilized for fast detection of...
Source: Journal of Virological Methods - December 1, 2021 Category: Virology Authors: Lianyi Zang Ning Qiao Xiaohui Sun Xianping Zhang Dan Zhao Jintang Li Xiaoping Zhu Source Type: research

Alternative SARS-CoV-2 detection protocol from self-collected saliva for mass diagnosis and epidemiological studies in low-incoming regions
J Virol Methods. 2021 Nov 26:114382. doi: 10.1016/j.jviromet.2021.114382. Online ahead of print.ABSTRACTUntil mass vaccination befalls, control of the new betacoronavirus-associated severe acute respiratory syndrome pandemic (SARS-CoV-2) is based on decreasing virus circulation by social distancing and blocking transmission foci after diagnosis. Globally adopted SARS-CoV-2 diagnostic criteria embrace viral RNA detection by quantitative reverse-transcription polymerase chain reaction (qRT-PCR) on nasopharynx secretions, which requires healthcare facilities and specialized personnel for sample collection. To develop an alter...
Source: Journal of Virological Methods - November 29, 2021 Category: Virology Authors: Luana Prado Rolim de Oliveira Aline Diniz Cabral Andreia Moreira Dos Santos Carmo Adriana Feliciano Duran Diego Marin Fermino Glaucia Raquel Luciano Veiga Beatriz da Costa Aguiar Alves Carla Moreira Santana Felipe Baena Garcia Edmar Silva Santos Felipe Tr Source Type: research

Generation of duck Tembusu virus using a simple reverse genetic system in duck embryo fibroblast cells
This study provided a valuable reverse genetic tool for the further study DTMUV pathogenesis.PMID:34843824 | DOI:10.1016/j.jviromet.2021.114385 (Source: Journal of Virological Methods)
Source: Journal of Virological Methods - November 29, 2021 Category: Virology Authors: Feng Hu Tong Zhu Xiaozhen Guo Kexiang Yu Xiuli Ma Cunxia Liu Liping Liu Yuehua Gao Minxun Song Jiaqiang Wu Bing Huang Yufeng Li Source Type: research

Rapid detection of Potato leafroll virus and Potato virus Y by reverse transcription loop-mediated isothermal amplification method in north-east India
In conclusion, the results highlighted the efficacy of the RT-LAMP method in quickly detecting PLRV and PVY in infected plants.PMID:34843825 | DOI:10.1016/j.jviromet.2021.114363 (Source: Journal of Virological Methods)
Source: Journal of Virological Methods - November 29, 2021 Category: Virology Authors: Mohamad H Halabi John O Oladokun Palash D Nath Source Type: research

The Evolving Direct and Indirect platforms for the Detection of SARS-CoV-2
J Virol Methods. 2021 Nov 26:114381. doi: 10.1016/j.jviromet.2021.114381. Online ahead of print.ABSTRACTDiagnosis of SARS-CoV-2 by standard screening measures can reduce the chance of COVID-19 spread before the symptoms become severe. Detecting viral RNA and antigens, anti-viral antibodies, and CT-scan are the most routine diagnostic methods. Accordingly, several diagnostic platforms including thermal and isothermal amplifications, CRISPR/Cas‑based approaches, digital PCR, ELISA, NGS, and point-of-care testing methods with variable sensitivities, have been developed that may facilitate managing and preventing the further...
Source: Journal of Virological Methods - November 29, 2021 Category: Virology Authors: Sonia Fathi Karkan Reza Maleki Baladi Mehdi Shahgolzari Monireh Gholizadeh Fahimeh Shayegh Arash Arashkia Source Type: research

Evaluation of sensitivity and specificity in RNA-Seq-based detection of grapevine viral pathogens
J Virol Methods. 2021 Nov 26:114383. doi: 10.1016/j.jviromet.2021.114383. Online ahead of print.ABSTRACTVirus detection is a crucial step for the implementation of clean stock programs that preserve healthy crop species. Viral infections in grapevine, a vegetatively propagated perennial crop, cannot be eradicated from the vineyards by the application of agrochemicals and must be curtailed at the stage of nursery production during the propagation of planting material. Viral detection is routinely performed using enzyme-linked immunosorbent assays (ELISA) or Reverse Transcription-quantitative Polymerase Chain Reactions (RT-q...
Source: Journal of Virological Methods - November 29, 2021 Category: Virology Authors: Gabriele Di Gaspero Slobodanka Radovic Elisa De Luca Alessandro Spadotto Gabriele Magris Luigi Falginella Federica Cattonaro Fabio Marroni Source Type: research

Alternative SARS-CoV-2 detection protocol from self-collected saliva for mass diagnosis and epidemiological studies in low-incoming regions
J Virol Methods. 2021 Nov 26:114382. doi: 10.1016/j.jviromet.2021.114382. Online ahead of print.ABSTRACTUntil mass vaccination befalls, control of the new betacoronavirus-associated severe acute respiratory syndrome pandemic (SARS-CoV-2) is based on decreasing virus circulation by social distancing and blocking transmission foci after diagnosis. Globally adopted SARS-CoV-2 diagnostic criteria embrace viral RNA detection by quantitative reverse-transcription polymerase chain reaction (qRT-PCR) on nasopharynx secretions, which requires healthcare facilities and specialized personnel for sample collection. To develop an alter...
Source: Journal of Virological Methods - November 29, 2021 Category: Virology Authors: Luana Prado Rolim de Oliveira Aline Diniz Cabral Andreia Moreira Dos Santos Carmo Adriana Feliciano Duran Diego Marin Fermino Glaucia Raquel Luciano Veiga Beatriz da Costa Aguiar Alves Carla Moreira Santana Felipe Baena Garcia Edmar Silva Santos Felipe Tr Source Type: research

Generation of duck Tembusu virus using a simple reverse genetic system in duck embryo fibroblast cells
This study provided a valuable reverse genetic tool for the further study DTMUV pathogenesis.PMID:34843824 | DOI:10.1016/j.jviromet.2021.114385 (Source: Journal of Virological Methods)
Source: Journal of Virological Methods - November 29, 2021 Category: Virology Authors: Feng Hu Tong Zhu Xiaozhen Guo Kexiang Yu Xiuli Ma Cunxia Liu Liping Liu Yuehua Gao Minxun Song Jiaqiang Wu Bing Huang Yufeng Li Source Type: research

Rapid detection of Potato leafroll virus and Potato virus Y by reverse transcription loop-mediated isothermal amplification method in north-east India
In conclusion, the results highlighted the efficacy of the RT-LAMP method in quickly detecting PLRV and PVY in infected plants.PMID:34843825 | DOI:10.1016/j.jviromet.2021.114363 (Source: Journal of Virological Methods)
Source: Journal of Virological Methods - November 29, 2021 Category: Virology Authors: Mohamad H Halabi John O Oladokun Palash D Nath Source Type: research

The Evolving Direct and Indirect platforms for the Detection of SARS-CoV-2
J Virol Methods. 2021 Nov 26:114381. doi: 10.1016/j.jviromet.2021.114381. Online ahead of print.ABSTRACTDiagnosis of SARS-CoV-2 by standard screening measures can reduce the chance of COVID-19 spread before the symptoms become severe. Detecting viral RNA and antigens, anti-viral antibodies, and CT-scan are the most routine diagnostic methods. Accordingly, several diagnostic platforms including thermal and isothermal amplifications, CRISPR/Cas‑based approaches, digital PCR, ELISA, NGS, and point-of-care testing methods with variable sensitivities, have been developed that may facilitate managing and preventing the further...
Source: Journal of Virological Methods - November 29, 2021 Category: Virology Authors: Sonia Fathi Karkan Reza Maleki Baladi Mehdi Shahgolzari Monireh Gholizadeh Fahimeh Shayegh Arash Arashkia Source Type: research

Evaluation of sensitivity and specificity in RNA-Seq-based detection of grapevine viral pathogens
J Virol Methods. 2021 Nov 26:114383. doi: 10.1016/j.jviromet.2021.114383. Online ahead of print.ABSTRACTVirus detection is a crucial step for the implementation of clean stock programs that preserve healthy crop species. Viral infections in grapevine, a vegetatively propagated perennial crop, cannot be eradicated from the vineyards by the application of agrochemicals and must be curtailed at the stage of nursery production during the propagation of planting material. Viral detection is routinely performed using enzyme-linked immunosorbent assays (ELISA) or Reverse Transcription-quantitative Polymerase Chain Reactions (RT-q...
Source: Journal of Virological Methods - November 29, 2021 Category: Virology Authors: Gabriele Di Gaspero Slobodanka Radovic Elisa De Luca Alessandro Spadotto Gabriele Magris Luigi Falginella Federica Cattonaro Fabio Marroni Source Type: research

Validation and Verification of the GeneFinder < sup > TM < /sup > COVID-19 Plus RealAmp kit on the ELITe InGenius ® instrument
CONCLUSION: The GeneFinderTM COVID-19 PLUS RealAmp kit on the ELITe InGenius® instrument had an appropriate sensitivity and specificity that could be used in small scale laboratories or during night shifts where accurate diagnostics are crucial.PMID:34838535 | DOI:10.1016/j.jviromet.2021.114378 (Source: Journal of Virological Methods)
Source: Journal of Virological Methods - November 28, 2021 Category: Virology Authors: L Gard M A Fliss F Bosma D Ter Veen H G M Niesters Source Type: research

Insights into the evolutionary and prophylactic analysis of SARS-CoV-2: A review
J Virol Methods. 2021 Nov 24;300:114375. doi: 10.1016/j.jviromet.2021.114375. Online ahead of print.ABSTRACTIn late 2019, following the emergence of a β-originated SARS-CoV-2, phylogenetic and evolutionary approaches have been demonstrated to strengthen the diagnostic and prophylactic stratagem of COVID-19 at an unprecedented level. Despite its clinical prominence, the SARS-CoV-2 gene set remains largely irrefutable by impeding the dissection of COVID-19 biology. However, many pieces of molecular and serological evidence have predicted that SARS-CoV-2 related viruses carry their roots from bats and pangolins of South ...
Source: Journal of Virological Methods - November 28, 2021 Category: Virology Authors: Fatima Akram Ikram Ul Haq Amna Aqeel Zeeshan Ahmed Fatima Iftikhar Shah Ali Nawaz Javaria Zafar Rukhma Sattar Source Type: research

Production and use of encapsidated RNA mimics as positive control reagents for SARS-CoV-2 RT-qPCR diagnostics
J Virol Methods. 2021 Nov 24:114372. doi: 10.1016/j.jviromet.2021.114372. Online ahead of print.ABSTRACTThe current gold standard technique for SARS-CoV-2 diagnostics is hydrolysis probe-based RT-qPCR. Reliable testing requires reliable control reagents to monitor the efficiency of RNA extraction, reverse transcription and PCR amplification. Here we describe a custom RNA packaging system from the plant virus cowpea mosaic virus to produce virus-like particles that encapsidate specifically designed portions of the genome of SARS-CoV-2, the causative agent of COVID-19. These encapsidated mimics are highly stable particles wh...
Source: Journal of Virological Methods - November 28, 2021 Category: Virology Authors: Hadrien Peyret Elisabetta Groppelli David Clark Nicholas Eckersley Tim Planche Julian Ma George P Lomonossoff Source Type: research

Genome-based identification of Beet Curly Top Iran Virus Infecting Sugar Beet in Turkey and Investigation of Its Pathogenicity by Agroinfection
In this study, 628 sugar beet plants exhibiting BCTD symptoms were collected from fourteen cities in central Anatolia, the major sugar beet production areas in Turkey. PCR assays of these samples using the respective Curtovirus and Becurtovirus genus-specific primers indicated that the Turkish sugar beet samples' viral sequences belong only to the genus Becurtovirus. The results of sequencing and phylogenetic analysis of the partial genome of the virus obtained from fourteen cities confirmed that BCTD-associated virus in Turkish sugar beet fields is beet curly top Iran virus (BCTIV-Becurtovirus) species. The whole genome o...
Source: Journal of Virological Methods - November 28, 2021 Category: Virology Authors: Kubilay Y ıldırım Musa Kavas R ıza Kaya Zafer Se çgin Cansu Can Ilkay Sevgen Çiğdem Gökçek Saraç Vahid Tahan Source Type: research

Effect of cell density on the biological titer and yield of 146S fraction of foot-and-mouth disease virus O in cell suspension
J Virol Methods. 2021 Nov 23:114379. doi: 10.1016/j.jviromet.2021.114379. Online ahead of print.ABSTRACTFoot-and-mouth disease (FMD) is a highly infectious disease of cattle and other cloven-hoofed animals, causing huge economic losses annually worldwide. This disease is endemic in Pakistan where the serotypes of the foot-and-mouth disease virus (FMDV) are A, O and ASIA-1. At present, trivalent FMDV vaccines are being used to prevent FMD but the current production process is laborious and is unable to fulfill the needs of the meat and dairy industries. To meet the vaccine needs of Pakistan, the conventional method of using...
Source: Journal of Virological Methods - November 26, 2021 Category: Virology Authors: Azka Rizvi Nadir Hussain Aftab Ahmed Anjum Naveed Ahmed Ayesha Naeem Madiha Khan Imran Altaf Source Type: research

A multi-center study comparing the analytical sensitivity and clinical concordance of three HIV-1 viral load assays
CONCLUSIONS: The cobas HIV-1 assay is highly sensitive, accurate and suitable for use in clinical practice.PMID:34826517 | DOI:10.1016/j.jviromet.2021.114373 (Source: Journal of Virological Methods)
Source: Journal of Virological Methods - November 26, 2021 Category: Virology Authors: Sergio Carmona Lucia Hans Merlin Njoya Christian O Simon Ed G Marins V éronique Michel-Treil Philip Cunningham Source Type: research

Establishment of a real-time Recombinase Polymerase Amplification (RPA) for the detection of decapod iridescent virus 1 (DIV1)
J Virol Methods. 2021 Nov 23;300:114377. doi: 10.1016/j.jviromet.2021.114377. Online ahead of print.ABSTRACTA rapid and simple real-time recombinase polymerase amplification (RPA) assay was developed to detect decapod iridescent virus 1 (DIV1). The assay was developed using optimized primers and probes designed from the conserved sequence of the DIV1 major capsid protein (MCP) gene. Using the optimized RPA assay, the DIV1 test was completed within 20 min at 39 ℃. The RPA assay was specific to DIV1 with a detection limit of 2.3 × 101 copies/reaction and there was no cross-reactivity with the other aquatic pathogens ...
Source: Journal of Virological Methods - November 26, 2021 Category: Virology Authors: Qian-Jun Huang Yu Chen Hong Liu Sophie St-Hilaire Shuai Gao Brett MacKinnon Song-Qi Zhu Zhi-Qing Wen Peng Jia Xiao-Cong Zheng Source Type: research

Comparison of the neutralizing activities of antibodies in clinical sera against both Sabin and wild-type polio pseudoviruses
J Virol Methods. 2021 Nov 23:114376. doi: 10.1016/j.jviromet.2021.114376. Online ahead of print.ABSTRACTThe cost-effectiveness of the Sabin inactivated poliovirus vaccine derived from the Sabin strains (S-IPV) and its reduced biosecurity risks during its manufacture make it the vaccine of choice over the IPVs derived from wild-type polioviruses. However, it is difficult to evaluate whether S-IPVs can achieve wild-type poliovirus containment in China, making its development there less attractive. To facilitate the development and adoption of S-IPVs in China, the aim of this study was to develop an alternative neutralizing a...
Source: Journal of Virological Methods - November 26, 2021 Category: Virology Authors: Shaohua Liu Weiwei Lu Shuhua Ma Huijie Guo Zhongyang Zhang Xiuling Li Source Type: research

Effect of cell density on the biological titer and yield of 146S fraction of foot-and-mouth disease virus O in cell suspension
J Virol Methods. 2021 Nov 23:114379. doi: 10.1016/j.jviromet.2021.114379. Online ahead of print.ABSTRACTFoot-and-mouth disease (FMD) is a highly infectious disease of cattle and other cloven-hoofed animals, causing huge economic losses annually worldwide. This disease is endemic in Pakistan where the serotypes of the foot-and-mouth disease virus (FMDV) are A, O and ASIA-1. At present, trivalent FMDV vaccines are being used to prevent FMD but the current production process is laborious and is unable to fulfill the needs of the meat and dairy industries. To meet the vaccine needs of Pakistan, the conventional method of using...
Source: Journal of Virological Methods - November 26, 2021 Category: Virology Authors: Azka Rizvi Nadir Hussain Aftab Ahmed Anjum Naveed Ahmed Ayesha Naeem Madiha Khan Imran Altaf Source Type: research

A multi-center study comparing the analytical sensitivity and clinical concordance of three HIV-1 viral load assays
CONCLUSIONS: The cobas HIV-1 assay is highly sensitive, accurate and suitable for use in clinical practice.PMID:34826517 | DOI:10.1016/j.jviromet.2021.114373 (Source: Journal of Virological Methods)
Source: Journal of Virological Methods - November 26, 2021 Category: Virology Authors: Sergio Carmona Lucia Hans Merlin Njoya Christian O Simon Ed G Marins V éronique Michel-Treil Philip Cunningham Source Type: research

Establishment of a real-time Recombinase Polymerase Amplification (RPA) for the detection of decapod iridescent virus 1 (DIV1)
J Virol Methods. 2021 Nov 23:114377. doi: 10.1016/j.jviromet.2021.114377. Online ahead of print.ABSTRACTA rapid and simple real-time recombinase polymerase amplification (RPA) assay was developed to detect decapod iridescent virus 1 (DIV1). The assay was developed using optimized primers and probes designed from the conserved sequence of the DIV1 major capsid protein (MCP) gene. Using the optimized RPA assay, the DIV1 test was completed within 20 min at 39 ℃. The RPA assay was specific to DIV1 with a detection limit of 2.3 × 101 copies/reaction and there was no cross-reactivity with the other aquatic pathogens (WSS...
Source: Journal of Virological Methods - November 26, 2021 Category: Virology Authors: Qian-Jun Huang Yu Chen Hong Liu Sophie St-Hilaire Shuai Gao Brett MacKinnon Song-Qi Zhu Zhi-Qing Wen Peng Jia Xiao-Cong Zheng Source Type: research

Comparison of the neutralizing activities of antibodies in clinical sera against both Sabin and wild-type polio pseudoviruses
J Virol Methods. 2021 Nov 23:114376. doi: 10.1016/j.jviromet.2021.114376. Online ahead of print.ABSTRACTThe cost-effectiveness of the Sabin inactivated poliovirus vaccine derived from the Sabin strains (S-IPV) and its reduced biosecurity risks during its manufacture make it the vaccine of choice over the IPVs derived from wild-type polioviruses. However, it is difficult to evaluate whether S-IPVs can achieve wild-type poliovirus containment in China, making its development there less attractive. To facilitate the development and adoption of S-IPVs in China, the aim of this study was to develop an alternative neutralizing a...
Source: Journal of Virological Methods - November 26, 2021 Category: Virology Authors: Shaohua Liu Weiwei Lu Shuhua Ma Huijie Guo Zhongyang Zhang Xiuling Li Source Type: research

Effect of cell density on the biological titer and yield of 146S fraction of foot-and-mouth disease virus O in cell suspension
J Virol Methods. 2021 Nov 23:114379. doi: 10.1016/j.jviromet.2021.114379. Online ahead of print.ABSTRACTFoot-and-mouth disease (FMD) is a highly infectious disease of cattle and other cloven-hoofed animals, causing huge economic losses annually worldwide. This disease is endemic in Pakistan where the serotypes of the foot-and-mouth disease virus (FMDV) are A, O and ASIA-1. At present, trivalent FMDV vaccines are being used to prevent FMD but the current production process is laborious and is unable to fulfill the needs of the meat and dairy industries. To meet the vaccine needs of Pakistan, the conventional method of using...
Source: Journal of Virological Methods - November 26, 2021 Category: Virology Authors: Azka Rizvi Nadir Hussain Aftab Ahmed Anjum Naveed Ahmed Ayesha Naeem Madiha Khan Imran Altaf Source Type: research

A multi-center study comparing the analytical sensitivity and clinical concordance of three HIV-1 viral load assays
CONCLUSIONS: The cobas HIV-1 assay is highly sensitive, accurate and suitable for use in clinical practice.PMID:34826517 | DOI:10.1016/j.jviromet.2021.114373 (Source: Journal of Virological Methods)
Source: Journal of Virological Methods - November 26, 2021 Category: Virology Authors: Sergio Carmona Lucia Hans Merlin Njoya Christian O Simon Ed G Marins V éronique Michel-Treil Philip Cunningham Source Type: research

Establishment of a real-time Recombinase Polymerase Amplification (RPA) for the detection of decapod iridescent virus 1 (DIV1)
J Virol Methods. 2021 Nov 23:114377. doi: 10.1016/j.jviromet.2021.114377. Online ahead of print.ABSTRACTA rapid and simple real-time recombinase polymerase amplification (RPA) assay was developed to detect decapod iridescent virus 1 (DIV1). The assay was developed using optimized primers and probes designed from the conserved sequence of the DIV1 major capsid protein (MCP) gene. Using the optimized RPA assay, the DIV1 test was completed within 20 min at 39 ℃. The RPA assay was specific to DIV1 with a detection limit of 2.3 × 101 copies/reaction and there was no cross-reactivity with the other aquatic pathogens (WSS...
Source: Journal of Virological Methods - November 26, 2021 Category: Virology Authors: Qian-Jun Huang Yu Chen Hong Liu Sophie St-Hilaire Shuai Gao Brett MacKinnon Song-Qi Zhu Zhi-Qing Wen Peng Jia Xiao-Cong Zheng Source Type: research

Comparison of the neutralizing activities of antibodies in clinical sera against both Sabin and wild-type polio pseudoviruses
J Virol Methods. 2021 Nov 23:114376. doi: 10.1016/j.jviromet.2021.114376. Online ahead of print.ABSTRACTThe cost-effectiveness of the Sabin inactivated poliovirus vaccine derived from the Sabin strains (S-IPV) and its reduced biosecurity risks during its manufacture make it the vaccine of choice over the IPVs derived from wild-type polioviruses. However, it is difficult to evaluate whether S-IPVs can achieve wild-type poliovirus containment in China, making its development there less attractive. To facilitate the development and adoption of S-IPVs in China, the aim of this study was to develop an alternative neutralizing a...
Source: Journal of Virological Methods - November 26, 2021 Category: Virology Authors: Shaohua Liu Weiwei Lu Shuhua Ma Huijie Guo Zhongyang Zhang Xiuling Li Source Type: research

Elimination of BBTV via a systemic in vitro electrotherapy approach
This study attempted BBTV elimination by traditional shoot-tip culture (control) and alternative shoot-tip + electrotherapy (treated) techniques. Shoot-tip culture from Musa acuminata cv. 'Grand Naine' infected sources were exposed to 100 mA electric current for different time intervals (20-60 min). Virus indexing (via PCR) and genetic fidelity (by ISSR assay) from the cultures were tested, alongside the physio-biochemical parameters. Exposure of electric current for less than 50 min was ineffective for BBTV elimination. Still, a rise in the duration from 50 min or more led to eradicating the virus from some explants. Elim...
Source: Journal of Virological Methods - November 25, 2021 Category: Virology Authors: Vikram Singh Smriti Adil Afaque Quraishi Source Type: research

Surveillance of SARS-CoV-2 variants of concern by identification of single nucleotide polymorphisms in the spike protein by a multiplex real-time PCR
CONCLUSIONS: This multiplex real-time qRT-PCR which identifies certain SNPs specific to the VOCs appears to be a fast, cheaper and less technically demanding method to generate data regarding the spread of different SARS-CoV-2 variants, and is a suitable method for lower income countries, to supplement the data generated by genomic sequencing.PMID:34822912 | PMC:PMC8607739 | DOI:10.1016/j.jviromet.2021.114374 (Source: Journal of Virological Methods)
Source: Journal of Virological Methods - November 25, 2021 Category: Virology Authors: Laksiri Gomes Chandima Jeewandara Tibutius Pramanayagam Jayadas Osanda Dissanayake Michael Harvie Dinuka Guruge Vigeetha Withanage Pasyodun Koralage Buddhika Mahesh Wajira Rajapakse Rajanthi Ramachandran Venoden Dharmarajan Indika Pathiraja Anusha Sanjeew Source Type: research

A multiplex polymerase chain reaction for the simultaneous detection of the virus and satellite components associated with cotton leaf curl begomovirus disease complex
This report identified three viral component-specific pairs of primers which, in all combinations, amplified simultaneously the CP gene (780 nts) of the begomovirus, the βC1gene (375 nts) of the betasatellite and the Rep gene (452 nts) of the alphasatellite associated with CLCuD in the mPCR assays. The amplified products specific to each component produced by these assays were identified based on their amplicon sizes, and the identities of the viral components amplified were confirmed by cloning and sequencing the amplicons obtained in the mPCR. The mPCR assay was validated using naturally CLCuD-affected cotton plants...
Source: Journal of Virological Methods - November 23, 2021 Category: Virology Authors: S Palchoudhury V K Khare N Balram U K Bhattacharyya S Das P Shukla P Chakraborty K K Biswas Source Type: research

Curing two predominant viruses occurring in Lentinula edodes by chemotherapy and mycelial fragmentation methods
J Virol Methods. 2021 Nov 20:114370. doi: 10.1016/j.jviromet.2021.114370. Online ahead of print.ABSTRACTPrevious research has established that Lentinula edodes mycovirus HKB (LeV-HKB) and L. edodes partitivirus 1(LePV1) are major mycoviruses identified in L.edodes germplasm. In this paper, two different methods for curing these two dsRNA mycoviruses, ribavirin treatment and mycelial fragmentation, were evaluated for the first time. Mycelial fragmentation was found to resulted in LeV-HKB- and LePV1-cured fungal strains, whereas ribavirin treatment could eliminate LeV-HKB only. Although no LePV1-cured strain was obtained via...
Source: Journal of Virological Methods - November 23, 2021 Category: Virology Authors: Yijia Sun Mengpei Guo Jinjie Wang Yinbing Bian Zhangyi Xu Source Type: research

A multiplex polymerase chain reaction for the simultaneous detection of the virus and satellite components associated with cotton leaf curl begomovirus disease complex
This report identified three viral component-specific pairs of primers which, in all combinations, amplified simultaneously the CP gene (780 nts) of the begomovirus, the βC1gene (375 nts) of the betasatellite and the Rep gene (452 nts) of the alphasatellite associated with CLCuD in the mPCR assays. The amplified products specific to each component produced by these assays were identified based on their amplicon sizes, and the identities of the viral components amplified were confirmed by cloning and sequencing the amplicons obtained in the mPCR. The mPCR assay was validated using naturally CLCuD-affected cotton plants...
Source: Journal of Virological Methods - November 23, 2021 Category: Virology Authors: S Palchoudhury V K Khare N Balram U K Bhattacharyya S Das P Shukla P Chakraborty K K Biswas Source Type: research

Curing two predominant viruses occurring in Lentinula edodes by chemotherapy and mycelial fragmentation methods
J Virol Methods. 2021 Nov 20:114370. doi: 10.1016/j.jviromet.2021.114370. Online ahead of print.ABSTRACTPrevious research has established that Lentinula edodes mycovirus HKB (LeV-HKB) and L. edodes partitivirus 1(LePV1) are major mycoviruses identified in L.edodes germplasm. In this paper, two different methods for curing these two dsRNA mycoviruses, ribavirin treatment and mycelial fragmentation, were evaluated for the first time. Mycelial fragmentation was found to resulted in LeV-HKB- and LePV1-cured fungal strains, whereas ribavirin treatment could eliminate LeV-HKB only. Although no LePV1-cured strain was obtained via...
Source: Journal of Virological Methods - November 23, 2021 Category: Virology Authors: Yijia Sun Mengpei Guo Jinjie Wang Yinbing Bian Zhangyi Xu Source Type: research

A multiplex polymerase chain reaction for the simultaneous detection of the virus and satellite components associated with cotton leaf curl begomovirus disease complex
This report identified three viral component-specific pairs of primers which, in all combinations, amplified simultaneously the CP gene (780 nts) of the begomovirus, the βC1gene (375 nts) of the betasatellite and the Rep gene (452 nts) of the alphasatellite associated with CLCuD in the mPCR assays. The amplified products specific to each component produced by these assays were identified based on their amplicon sizes, and the identities of the viral components amplified were confirmed by cloning and sequencing the amplicons obtained in the mPCR. The mPCR assay was validated using naturally CLCuD-affected cotton plants...
Source: Journal of Virological Methods - November 23, 2021 Category: Virology Authors: S Palchoudhury V K Khare N Balram U K Bhattacharyya S Das P Shukla P Chakraborty K K Biswas Source Type: research

Curing two predominant viruses occurring in Lentinula edodes by chemotherapy and mycelial fragmentation methods
J Virol Methods. 2021 Nov 20:114370. doi: 10.1016/j.jviromet.2021.114370. Online ahead of print.ABSTRACTPrevious research has established that Lentinula edodes mycovirus HKB (LeV-HKB) and L. edodes partitivirus 1(LePV1) are major mycoviruses identified in L.edodes germplasm. In this paper, two different methods for curing these two dsRNA mycoviruses, ribavirin treatment and mycelial fragmentation, were evaluated for the first time. Mycelial fragmentation was found to resulted in LeV-HKB- and LePV1-cured fungal strains, whereas ribavirin treatment could eliminate LeV-HKB only. Although no LePV1-cured strain was obtained via...
Source: Journal of Virological Methods - November 23, 2021 Category: Virology Authors: Yijia Sun Mengpei Guo Jinjie Wang Yinbing Bian Zhangyi Xu Source Type: research

Development of a protocol for the elimination of Cyrtanthus elatus virus-A from Narcissus tazetta by in vitro chemotherapy in combination with electrotherapy
J Virol Methods. 2021 Nov 19:114368. doi: 10.1016/j.jviromet.2021.114368. Online ahead of print.ABSTRACTNarcissus (Narcissus tazetta) is a bulbous ornamental plant propagated vegetatively from bulbs. The Cyrtanthus elatus virus-A (CyEV-A) had been reported to cause a severe mosaic and yellow stripe disease in narcissus. Therefore, this study aimed to develop a protocol for the elimination of CyEV-A from infected bulblets by in vitro chemotherapy (30-50 mg/L ribavirin for 30 days) and electrotherapy (10-30 mA for 20 min), individually and in combination, to produce virus-free plants. The regenerated plants obtained from the...
Source: Journal of Virological Methods - November 22, 2021 Category: Virology Authors: Rashmi Raj Charanjeet Kaur Lalit Agrawal Susheel Kumar P S Chauhan S K Raj Source Type: research

Development and application of a visual microarray for synchronously detecting H5N1, H7N9 and H9N2 avian influenza virus RNA
J Virol Methods. 2021 Nov 19:114371. doi: 10.1016/j.jviromet.2021.114371. Online ahead of print.ABSTRACTThe aim of this study was to develop a microarray assay for the simultaneous detection of the H5, H7, H9, N1, N9 and N2 genes of the avian influenza virus (AIV) using a Nanogold-streptavidin and silver-stain-enhanced nucleic acid dot-blot hybridisation system. The conserved sequences of H5 genes from H5N1, H7 genes from H7N9, H9 genes from H9N2, N9 genes from H7N9 and N2 genes from H9N2 AIV were cloned, together with that of N1 obtained commercially, and were used as templates for generating the probes using biotin-label...
Source: Journal of Virological Methods - November 22, 2021 Category: Virology Authors: Hua Xiang Xintian Wen Yiping Wen Huanrong Zhang Sanjie Cao Xiaobo Huang Rui Wu Qin Zhao Source Type: research

The Coris BioConcept COVID 19 Ag Respi-Strip, a field experience feedback
J Virol Methods. 2021 Nov 18;300:114366. doi: 10.1016/j.jviromet.2021.114366. Online ahead of print.ABSTRACTThis communication described how the Coris BioConcept COVID-19 Ag Respi-Strip test (Coris-Ag) was implemented in the workflow of our clinical microbiology laboratory for COVID-19 diagnosis. The diagnostic performance statistics (sensitivity, specificity) of the Coris-Ag were evaluated against a gold standard, the RealStar SARS-CoV-2 RT-PCR kit 1.0. Additionally, the effect of reading the Coris-Ag results at 30 min was compared to reading at 15 min. The Coris-Ag was performed on a total of 294 patients during two peri...
Source: Journal of Virological Methods - November 21, 2021 Category: Virology Authors: Assaf Mizrahi Jean-Claude Nguyen Van Najoua El Helali Julie Lourtet-Hascoet Ines Jabnoune Marie Liesse Pacreau Yasmina Talb Jacques Fourgeaud Marianne Leruez-Ville Beno ît Pilmis V éronique Avettand-Fenoel Alban Le Monnier Source Type: research

Rapid detection of Decapod iridescent virus 1 (DIV1) by recombinase polymerase amplification
J Virol Methods. 2021 Nov 18:114362. doi: 10.1016/j.jviromet.2021.114362. Online ahead of print.ABSTRACTA recombinase polymerase amplification (RPA) assay was established for the rapid detection of Decapod iridescent virus 1 using primers targeted to the virus's ATPase gene (ORF114R). Optimization experiments showed that the optimal amplification temperature of the RPA assay was 37 °C and that the reaction could be completed within only 15 minutes. The target band of 15 min. is bright enough. In order to shorten the operational reaction time, consequently, 15 min was the optimal amplification time for our new RPA assay...
Source: Journal of Virological Methods - November 21, 2021 Category: Virology Authors: Guixiang Tong Weili Yin Xiangqing Wu Yong Lin Guanghua Huang Xiuli Chen Xiaoyu Chen Luanyu Huang Tao Sun Xinxian Wei Xiaozheng Li Source Type: research