First Evidence of Powassan Virus (Flaviviridae) in Ixodes Scapularis in Appalachian Virginia, USA

2021 ◽  
Author(s):  
Alexandra N. Cumbie ◽  
Amanda M. Whitlow ◽  
Gillian Eastwood
Keyword(s):  
Real Time ◽  
Adult Male ◽  
Sanger Sequencing ◽  
Ixodes Scapularis ◽  
Rt Pcr ◽  
Tick Vector ◽  
Powassan Virus ◽  
Floyd County

Here we report the first detection and confirmation of Powassan virus (POWV) (family: Flaviridae) in Ixodes scapularis ticks collected from Appalachian Virginia. Ixodes scapularis ticks were collected from vegetation across field sites in eight counties of western Virginia from June 2019 to April 2021. From these collections, one nymph and one adult male I. scapularis were determined to be positive for POWV using real-time RT-PCR and Sanger sequencing. Both positive ticks were collected from Floyd county, VA, at residential sites; the nymph in June 2020 and the adult male in April 2021. The presence of POWV in Virginia in its natural tick vector is crucial knowledge in beginning to understand the movement and transmission of this pathogen into new geographical areas and the risk it poses to medical and veterinary health.

scholarly journals SARS-CoV-2 variants in Paraguay: Detection and surveillance with a readily modifiable, multiplex real-time RT-PCR

2021 ◽  
Author(s):  
Magaly Martinez ◽  
Phuong-Vi Nguyen ◽  
Maxwell Su ◽  
Fatima Cardozo ◽  
Adriana Valenzuela ◽  
...  
Keyword(s):  
Real Time ◽  
Sanger Sequencing ◽  
Lower Cost ◽  
Population Level ◽  
Nanopore Sequencing ◽  
Receptor Binding Domain ◽  
Rt Pcr ◽  
High Quality ◽  
Rna Detection ◽  
Detection Of Mutations

Objectives The objective of the current study was to develop a lower-cost and scalable protocol to identify and monitor SARS-CoV-2 variants in Paraguay by pairing real-time RT-PCR detection of spike mutations with amplicon Sanger sequencing and whole-genome Nanopore sequencing. Methods 201 acute-phase nasopharyngeal samples from SARS-CoV-2-positive individuals were tested with two rRT-PCRs: 1) N2RP assay to confirm SARS-CoV-2 RNA detection (CDC N2 target), and 2) the Spike SNP assay to detect mutations in the spike receptor binding domain. The assay was performed with probes to identify mutations associated with the following variants: alpha (501Y), beta/gamma (417variant/484K/501Y), delta (452R/478K), and lambda (452Q/490S). Results All samples were positive for SARS-CoV-2 in the N2RP assay (mean Ct, 20.8; SD 5.6); 198/201 (98.5%) tested positive in the Spike SNP assay. The most common genotype was 417variant/484K/501Y, detected in 102/198 samples (51.5%) and most consistent with P.1 lineage (gamma variant) in Paraguay. No mutations (K417 only) were found in 64/198 (32.3%); and K417/484K was identified in 22/198 (11.1%), consistent with P.2 (zeta). Seven samples (3.5%) tested positive for 452R without 478K, and one sample with genotype K417/501Y was confirmed as B.1.1.7 (alpha). Results were confirmed by Sanger sequencing in 181/181 samples (100%) with high-quality amplicon sequences, and variant calls were consistent with Nanopore sequencing in 29/29 samples. Conclusions The Spike SNP assay provides accurate detection of mutations associated with SARS-CoV-2 variants. This can be implemented in laboratories performing rRT-PCR to improve population-level surveillance for these mutations and inform the judicious use of scarce sequencing resources.

531: Quantitative Real-Time RT-PCR for AMACR Distinguishes Prostate Cancer with High Specificity From Benign Lesions

2005 ◽  
Vol 173 (4S) ◽  
pp. 145-145 ◽  
Author(s):  
Martin Schostak ◽  
Hans Krause ◽  
Jens Köllermann ◽  
Mark Schrader ◽  
Bernd Straub ◽  
...  
Keyword(s):  
Prostate Cancer ◽  
Real Time ◽  
High Specificity ◽  
Rt Pcr ◽  
Benign Lesions

1504: Molecular Diagnosis and Staging of Prostate Cancer Using Clusterin in Real Time Reverse Transcription Polymerase Chain Reaction (RT-PCR)

2006 ◽  
Vol 175 (4S) ◽  
pp. 485-486
Author(s):  
Sabarinath B. Nair ◽  
Christodoulos Pipinikas ◽  
Roger Kirby ◽  
Nick Carter ◽  
Christiane Fenske
Keyword(s):  
Prostate Cancer ◽  
Polymerase Chain Reaction ◽  
Real Time ◽  
Molecular Diagnosis ◽  
Reverse Transcription ◽  
Rt Pcr ◽  
Chain Reaction ◽  
Polymerase Chain

scholarly journals Detecting PML-RARα transcript in acute promyelocytic leukemia using real-time quantitative RT-PCR

2007 ◽  
Vol 120 (20) ◽  
pp. 1803-1808 ◽  
Author(s):  
Hong-hu ZHU ◽  
Yan-rong LIU ◽  
Ya-zhen QIN ◽  
Bin JIANG ◽  
Fu-xiang SHAN ◽  
...  
Keyword(s):  
Real Time ◽  
Acute Promyelocytic Leukemia ◽  
Promyelocytic Leukemia ◽  
Rt Pcr

scholarly journals Investigations, actions and learning from an outbreak of SARS-CoV-2 infection among healthcare workers in the United Kingdom

2020 ◽  
pp. 175717742097679
Author(s):  
Kordo Saeed ◽  
Emanuela Pelosi ◽  
Nitin Mahobia ◽  
Nicola White ◽  
Christopher Labdon ◽  
...  
Keyword(s):  
Real Time ◽  
Healthcare Workers ◽  
Healthcare Facility ◽  
Rt Pcr ◽  
Serum Samples ◽  
The United Kingdom ◽  
Key Issues ◽  
Current Infection ◽  
Polymerase Chain ◽  
A Current

Background: We report an outbreak of SARS coronavirus-2 (SARS-CoV-2) infection among healthcare workers (HCW) in an NHS elective healthcare facility. Methodology: A narrative chronological account of events after declaring an outbreak of SARS-CoV-2 among HCWs. As part of the investigations, HCWs were offered testing during the outbreak. These were: (1) screening by real-time reverse transcriptase polymerase chain reaction (RT- PCR) to detect a current infection; and (2) serum samples to determine seroprevalence. Results: Over 180 HCWs were tested by real-time RT-PCR for SARS-CoV-2 infection. The rate of infection was 15.2% (23.7% for clinical or directly patient-facing HCWs vs. 4.8% in non-clinical non-patient-facing HCWs). Of the infected HCWs, 57% were asymptomatic. Seroprevalence (SARS-CoV-2 IgG) among HCWs was 13%. It was challenging to establish an exact source for the outbreak. The importance of education, training, social distancing and infection prevention practices were emphasised. Additionally, avoidance of unnecessary transfer of patients and minimising cross-site working for staff and early escalation were highlighted. Establishing mass and regular screening for HCWs are also crucial to enabling the best care for patients while maintaining the wellbeing of staff. Conclusion: To our knowledge, this is the first UK outbreak report among HCWs and we hope to have highlighted some key issues and learnings that can be considered by other NHS staff and HCWs globally when dealing with such a task in future.

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