RSV-GenoScan: an automated pipeline for whole-genome human respiratory syncytial virus (RSV) sequence analysis
We present RSV-GenoScan, a fast and easy-to-use pipeline for WGS analysis of RSV generated by HTS on Illumina or Nanopore platforms. RSV-GenoScan automates the WGS analysis steps directly from the raw sequence data. The pipeline filters the sequence data, maps the reads to the RSV reference genome, generates a consensus sequence, identifies the RSV subgroup, and lists amino acid mutations, insertions and deletions in the F and G viral genes. This enables the rapid identification of mutations in these coding genes that are known to confer resistance to monoclonal antibodies.AVAILABILITY: RSV-GenoScan is freely available at ...
Source: Journal of Virological Methods - April 8, 2024 Category: Virology Authors: Alexandre Dosbaa Romane Guilbaud Anna-Maria Franco Yusti Valentine Marie Ferr é Charlotte Charpentier Diane Descamps Quentin Le Hingrat Romain Copp ée Source Type: research
RSV-GenoScan: an automated pipeline for whole-genome human respiratory syncytial virus (RSV) sequence analysis
We present RSV-GenoScan, a fast and easy-to-use pipeline for WGS analysis of RSV generated by HTS on Illumina or Nanopore platforms. RSV-GenoScan automates the WGS analysis steps directly from the raw sequence data. The pipeline filters the sequence data, maps the reads to the RSV reference genome, generates a consensus sequence, identifies the RSV subgroup, and lists amino acid mutations, insertions and deletions in the F and G viral genes. This enables the rapid identification of mutations in these coding genes that are known to confer resistance to monoclonal antibodies.AVAILABILITY: RSV-GenoScan is freely available at ...
Source: Journal of Virological Methods - April 8, 2024 Category: Virology Authors: Alexandre Dosbaa Romane Guilbaud Anna-Maria Franco Yusti Valentine Marie Ferr é Charlotte Charpentier Diane Descamps Quentin Le Hingrat Romain Copp ée Source Type: research
Insertion of foreign genes into the simian varicella virus genome by Tn7-mediated site-specific transposition
J Virol Methods. 2024 Apr 5:114936. doi: 10.1016/j.jviromet.2024.114936. Online ahead of print.ABSTRACTA Tn7-transposition approach was utilized for site-specific insertion of foreign genes into the genome of simian varicella virus (SVV), the causative agent of simian varicella in nonhuman primates. The severe acute respiratory syndrome coronavirus (SARS-CoV-2) nucleocapsid (N) gene and receptor binding domain (RBD) of the spike gene were inserted into the ORF 14 region of the SVV genome cloned into a bacterial artificial chromosome and then transfected into Vero cells to generate the infectious recombinant SVV (rSVV). The...
Source: Journal of Virological Methods - April 7, 2024 Category: Virology Authors: Wayne L Gray Source Type: research
Intracellular localized heterogeneous protein franking by a transmembrane domain of GP64 is sufficient to be assembled on budded virions of Bombyx mori nucleopolyhedrovirus
In this study, we further investigate and develop this BV surface displaying strategy. We constructed stable insect cell lines to express the target protein flanking with different regions of signal peptide (SP) and GP64 transmembrane domain (TMD). Subsequently, recombinant BmNPV was used to infect the cell, and the integration of heterogeneous protein into BV was detected. The results indicated that deletion of the n-region of SP (SPΔn) decreased the incorporation rate more than that of the full-length SP. However, the incorporation rate of the protein fused with h and c-region deletion of SP (SPΔh-c) was significantly ...
Source: Journal of Virological Methods - April 6, 2024 Category: Virology Authors: Yufeng Hao Na Liu Jingfeng Li Stephen Baffour Gyawu Ogone Emeldah Setshogo Jinshan Huang Bifang Hao Source Type: research
Construction and characterization of recombinant senecavirus A expressing secreted luciferase for antiviral screening
In this study, we successfully constructed a recombinant SVA expressing Gaussia Luciferase (Gluc), termed rSVA-Gluc. The growth kinetics of rSVA-Gluc in BHK-21 cells were found to be comparable to those of the parental virus, and Gluc activity paralleled the virus growth curve. Genetic analysis revealed stable inheritance of the inserted reporter protein genes for at least six generations. We evaluated the utility of rSVA-Gluc in antiviral drug screening, and the results highlighted its potential as an effective tool for such purposes against SVA. DATA AVAILABILITY STATEMENT: The data that support the findings of this stud...
Source: Journal of Virological Methods - April 6, 2024 Category: Virology Authors: Hao Wang Yongfang Mo Wenbo Liu Qijie He Tongwei Ren Kang Ouyang Ying Chen Weijian Huang Zuzhang Wei Source Type: research
Intracellular localized heterogeneous protein franking by a transmembrane domain of GP64 is sufficient to be assembled on budded virions of Bombyx mori nucleopolyhedrovirus
In this study, we further investigate and develop this BV surface displaying strategy. We constructed stable insect cell lines to express the target protein flanking with different regions of signal peptide (SP) and GP64 transmembrane domain (TMD). Subsequently, recombinant BmNPV was used to infect the cell, and the integration of heterogeneous protein into BV was detected. The results indicated that deletion of the n-region of SP (SPΔn) decreased the incorporation rate more than that of the full-length SP. However, the incorporation rate of the protein fused with h and c-region deletion of SP (SPΔh-c) was significantly ...
Source: Journal of Virological Methods - April 6, 2024 Category: Virology Authors: Yufeng Hao Na Liu Jingfeng Li Stephen Baffour Gyawu Ogone Emeldah Setshogo Jinshan Huang Bifang Hao Source Type: research
Construction and characterization of Recombinant Senecavirus A Expressing Secreted Luciferase for antiviral screening
In this study, we successfully constructed a recombinant SVA expressing Gaussia Luciferase (Gluc), termed rSVA-Gluc. The growth kinetics of rSVA-Gluc in BHK-21 cells were found to be comparable to those of the parental virus, and Gluc activity paralleled the virus growth curve. Genetic analysis revealed stable inheritance of the inserted reporter protein genes for at least six generations. We evaluated the utility of rSVA-Gluc in antiviral drug screening, and the results highlighted its potential as an effective tool for such purposes against SVA. DATA AVAILABILITY STATEMENT: The data that support the findings of this stud...
Source: Journal of Virological Methods - April 6, 2024 Category: Virology Authors: Hao Wang Yongfang Mo Wenbo Liu Qijie He Tongwei Ren Kang Ouyang Ying Chen Weijian Huang Zuzhang Wei Source Type: research
Evaluation of an automated platform for the detection of HEV RNA in plasma and stool
CONCLUSIONS: The Altostar platform enables highly accurate testing for the detection of HEV RNA in stool and the quantification of HEV RNA in plasma. This allowed us to shorten turnaround times and to save time for the technical staff.PMID:38574772 | DOI:10.1016/j.jviromet.2024.114920 (Source: Journal of Virological Methods)
Source: Journal of Virological Methods - April 4, 2024 Category: Virology Authors: Pauline Sottil S ébastien Lhomme Karine Saune Soheil El Hayani K évin Oliveira-Mendes Jean-Marie Peron Nassim Kamar Jacques Izopet Florence Abravanel Source Type: research
Profiling of Groundnut bud necrosis orthotospovirus-responsive microRNA and their targets in tomato based on deep sequencing
J Virol Methods. 2024 Apr 2:114924. doi: 10.1016/j.jviromet.2024.114924. Online ahead of print.ABSTRACTTomato, an extensively cultivated vegetable crop produces miRNAs in response to infection with Groundnut bud necrosis orthotospovirus, a viral pathogen causing significant economic losses. High-throughput miRNA sequencing was performed on tomato leaves inoculated with GBNV and mock-inoculated leaves as controls. Analysis revealed 73 known miRNAs belonging to 24 miRNA families, with variable expression levels. Interestingly, 39 miRNAs were upregulated, and 34 were downregulated in response to GBNV infection. Stem-loop quan...
Source: Journal of Virological Methods - April 4, 2024 Category: Virology Authors: M Nivedha S Harish K Angappan G Karthikeyan K K Kumar M Murugan J Infant Richard Source Type: research
Evaluation of an automated platform for the detection of HEV RNA in plasma and stool
CONCLUSIONS: The Altostar platform enables highly accurate testing for the detection of HEV RNA in stool and the quantification of HEV RNA in plasma. This allowed us to shorten turnaround times and to save time for the technical staff.PMID:38574772 | DOI:10.1016/j.jviromet.2024.114920 (Source: Journal of Virological Methods)
Source: Journal of Virological Methods - April 4, 2024 Category: Virology Authors: Pauline Sottil S ébastien Lhomme Karine Saune Soheil El Hayani K évin Oliveira-Mendes Jean-Marie Peron Nassim Kamar Jacques Izopet Florence Abravanel Source Type: research
Profiling of Groundnut bud necrosis orthotospovirus-responsive microRNA and their targets in tomato based on deep sequencing
J Virol Methods. 2024 Apr 2:114924. doi: 10.1016/j.jviromet.2024.114924. Online ahead of print.ABSTRACTTomato, an extensively cultivated vegetable crop produces miRNAs in response to infection with Groundnut bud necrosis orthotospovirus, a viral pathogen causing significant economic losses. High-throughput miRNA sequencing was performed on tomato leaves inoculated with GBNV and mock-inoculated leaves as controls. Analysis revealed 73 known miRNAs belonging to 24 miRNA families, with variable expression levels. Interestingly, 39 miRNAs were upregulated, and 34 were downregulated in response to GBNV infection. Stem-loop quan...
Source: Journal of Virological Methods - April 4, 2024 Category: Virology Authors: M Nivedha S Harish K Angappan G Karthikeyan K K Kumar M Murugan J Infant Richard Source Type: research
Development and preliminary validation of a MERS-CoV ELISA for serological testing of camels and alpacas
This study describes the development and preliminary validation of a new serological assay using MERS-CoV S1 protein in an indirect enzyme-linked immunosorbent assay (ELISA) format. This assay has the advantage of being able to test MERS-CoV serum samples in a PC2 laboratory without the need for a high-level biocontainment laboratory (PC3 or PC4), which requires highly trained and skilled staff and a high level of resources and equipment. Furthermore, this MERS-CoV S1 ELISA enables a larger number of samples to be tested quickly, with results obtained in approximately five hours. The MERS-CoV S1 ELISA demonstrated high ana...
Source: Journal of Virological Methods - April 1, 2024 Category: Virology Authors: Leanne McNabb Peter A Durr Ross Lunt Jennifer Barr Timothy E Adams Lesley Pearce Leo L M Poon Ranawaka Ap M Perera Getnet Fekadu Demissie Timothy R Bowden Source Type: research
Development and preliminary validation of a MERS-CoV ELISA for serological testing of camels and alpacas
This study describes the development and preliminary validation of a new serological assay using MERS-CoV S1 protein in an indirect enzyme-linked immunosorbent assay (ELISA) format. This assay has the advantage of being able to test MERS-CoV serum samples in a PC2 laboratory without the need for a high-level biocontainment laboratory (PC3 or PC4), which requires highly trained and skilled staff and a high level of resources and equipment. Furthermore, this MERS-CoV S1 ELISA enables a larger number of samples to be tested quickly, with results obtained in approximately five hours. The MERS-CoV S1 ELISA demonstrated high ana...
Source: Journal of Virological Methods - April 1, 2024 Category: Virology Authors: Leanne McNabb Peter A Durr Ross Lunt Jennifer Barr Timothy E Adams Lesley Pearce Leo L M Poon Ranawaka Ap M Perera Getnet Fekadu Demissie Timothy R Bowden Source Type: research
Development and preliminary validation of a MERS-CoV ELISA for serological testing of camels and alpacas
This study describes the development and preliminary validation of a new serological assay using MERS-CoV S1 protein in an indirect enzyme-linked immunosorbent assay (ELISA) format. This assay has the advantage of being able to test MERS-CoV serum samples in a PC2 laboratory without the need for a high-level biocontainment laboratory (PC3 or PC4), which requires highly trained and skilled staff and a high level of resources and equipment. Furthermore, this MERS-CoV S1 ELISA enables a larger number of samples to be tested quickly, with results obtained in approximately five hours. The MERS-CoV S1 ELISA demonstrated high ana...
Source: Journal of Virological Methods - April 1, 2024 Category: Virology Authors: Leanne McNabb Peter A Durr Ross Lunt Jennifer Barr Timothy E Adams Lesley Pearce Leo L M Poon Ranawaka A P M Perera Getnet Fekadu Demissie Timothy R Bowden Source Type: research
Development and preliminary validation of a MERS-CoV ELISA for serological testing of camels and alpacas
This study describes the development and preliminary validation of a new serological assay using MERS-CoV S1 protein in an indirect enzyme-linked immunosorbent assay (ELISA) format. This assay has the advantage of being able to test MERS-CoV serum samples in a PC2 laboratory without the need for a high-level biocontainment laboratory (PC3 or PC4), which requires highly trained and skilled staff and a high level of resources and equipment. Furthermore, this MERS-CoV S1 ELISA enables a larger number of samples to be tested quickly, with results obtained in approximately five hours. The MERS-CoV S1 ELISA demonstrated high ana...
Source: Journal of Virological Methods - April 1, 2024 Category: Virology Authors: Leanne McNabb Peter A Durr Ross Lunt Jennifer Barr Timothy E Adams Lesley Pearce Leo L M Poon Ranawaka A P M Perera Getnet Fekadu Demissie Timothy R Bowden Source Type: research
