scholarly journals Detection of Seoul virus in wild brown rats (Rattus norvegicus) from pig farms in Northern England

2019 ◽  
Vol 184 (17) ◽  
pp. 525-525 ◽  
Author(s):  
Ellen G Murphy ◽  
Nicola J Williams ◽  
Malcolm Bennett ◽  
Daisy Jennings ◽  
Julian Chantrey ◽  
...  
Keyword(s):  
Age Differences ◽  
Rattus Norvegicus ◽  
Sanger Sequencing ◽  
Reservoir Host ◽  
Rt Pcr ◽  
Pcr Assay ◽  
Seoul Virus ◽  
Pig Farms ◽  
Wild Rats ◽  
Globally Distributed

IntroductionHantaviruses are maintained by mammalian hosts, such as rodents, and are shed in their excretions. Clinical disease can occur in humans from spillover infection. Brown rats (Rattus norvegicus) are the globally distributed reservoir host of Seoul virus (SEOV). Human cases of SEOV-associated haemorrhagic fever with renal syndrome (SEOV-HFRS)have been reported in Great Britain (GB) since 1977.MethodsBrown rats (n=68) were trapped from a variety of peridomestic locations, with a focus on pig farms. Kidney and lung tissues were tested for viral RNA using a pan-hantavirus RT-PCR assay followed by Sanger sequencing and analysis.ResultsSEOV RNA was detected in 19 per cent (13/68, 95% CI 11 to 30) of rats and all sequences fell within SEOV lineage 9. Twelve sequences were highly similar to each other and to the previously reported GB Humber strain of SEOV (98 per cent). One rat SEOV sequence was more distant. The SEOV prevalence in rats from pig farms was significantly greater (p=0.047) than other sites sampled. No significant sex or age differences were observed among positive and negative rats.DiscussionThe results from this study suggest that SEOV could be widespread in wild rats in GB and therefore pose a potential risk to public health.

scholarly journals Retrieval of the Complete Coding Sequence of the UK-Endemic Tatenale Orthohantavirus Reveals Extensive Strain Variation and Supports Its Classification as a Novel Species

Viruses ◽  
2020 ◽  
Vol 12 (4) ◽  
pp. 454 ◽  
Author(s):  
Joseph G. Chappell ◽  
Theocharis Tsoleridis ◽  
Okechukwu Onianwa ◽  
Gabby Drake ◽  
Ian Ashpole ◽  
...  
Keyword(s):  
High Throughput Sequencing ◽  
Novel Species ◽  
Single Species ◽  
Rt Pcr ◽  
Pcr Assay ◽  
Coding Sequence ◽  
The United Kingdom ◽  
Single Field ◽  
The Uk ◽  
Globally Distributed

Orthohantaviruses are globally distributed viruses, associated with rodents and other small mammals. However, data on the circulation of orthohantaviruses within the UK, particularly the UK-endemic Tatenale virus, is sparse. In this study, 531 animals from five rodent species were collected from two locations in northern and central England and screened using a degenerate, pan- orthohantavirus RT-PCR assay. Tatenale virus was detected in a single field vole (Microtus agrestis) from central England and twelve field voles from northern England. Unbiased high-throughput sequencing of the central English strain resulted in the recovery of the complete coding sequence of a novel strain of Tatenale virus, whilst PCR-primer walking of the northern English strain recovered almost complete coding sequence of a previously identified strain. These findings represented the detection of a third lineage of Tatenale virus in the United Kingdom and extended the known geographic distribution of these viruses from northern to central England. Furthermore, the recovery of the complete coding sequence revealed that Tatenale virus was sufficiently related to the recently identified Traemersee virus, to meet the accepted criteria for classification as a single species of orthohantavirus.

Analysis of Genetic Subtypes and Distribution of Hantavirus in Jilin Area

2013 ◽  
Vol 749 ◽  
pp. 362-365
Author(s):  
Chen Zhao ◽  
Yang Zhao ◽  
Zhong Hai Yuan ◽  
Ke Xin Sun ◽  
Yan Li
Keyword(s):  
Phylogenetic Analysis ◽  
Indirect Immunofluorescence ◽  
Rattus Norvegicus ◽  
Immunofluorescence Assay ◽  
Indirect Immunofluorescence Assay ◽  
Rt Pcr ◽  
Seoul Virus ◽  
Genetic Subtypes ◽  
Endemic Areas

To investigate the subtypes and distribution of hantavirus in Jilin area. Rattus norvegicus were collected from the main endemic areas of Jilin area and hantavirus in the lung were identified by indirect immunofluorescence assay. M segments of positive samples were partially amplified with Nested RT-PCR and sequenced. Phylogenetic analysis was used for genotyping. All hantaviruses from R. norvegicus were Seoul virus in Jilin area. Phylogenetic analysis of M segments showed that Seoul hantaviruses carried by R. norvegicus in Jilin city were the S3 subtype,and there was no HTNV and PUUV found. The results showed that the subtype of Seoul hantaviruses in Jilin area was S3.

scholarly journals Simultaneous Detection of Group A Rotavirus in Swine and Rat on a Pig Farm in Brazil

2013 ◽  
Vol 2013 ◽  
pp. 1-4 ◽  
Author(s):  
Paloma de Oliveira Tonietti ◽  
Aline Santana da Hora ◽  
Fernanda Dornellas F. Silva ◽  
Karen Linares Ferrari ◽  
Paulo Eduardo Brandão ◽  
...  
Keyword(s):  
Rattus Norvegicus ◽  
Simultaneous Detection ◽  
Rt Pcr ◽  
Pcr Assay ◽  
Genetic Sequencing ◽  
Gene Phylogeny ◽  
Group A ◽  
Pig Farm ◽  
Nsp5 Gene ◽  
The City

This study investigated the occurrence of rotavirus in porcine andRattus norvegicus, at the same time, on a pig farm in the city of Jaguariúna, São Paulo, Brazil. Swine (n=21) and rat (n=6) fecal samples were analyzed by nested RT-PCR assay. Rotavirus occurred in seven porcine and two rat samples. A total of three pig and one rat samples were further submitted to genetic sequencing. The partial NSP5 gene phylogeny showed that all strains were segregated in the genotype H1. These results point toward a cross-species transmission between rats and pigs on the surveyed farm and represent the first detection of rotavirus inRattus norvegicusin Brazil.

Establishment of a multiplex RT-PCR assay for identification of atmospheric virus contamination in pig farms

2019 ◽  
Vol 253 ◽  
pp. 358-364 ◽  
Author(s):  
Han Li ◽  
Xiaobing Wei ◽  
Xiulin Zhang ◽  
Hao Xu ◽  
Xuesong Zhao ◽  
...  
Keyword(s):  
Rt Pcr ◽  
Pcr Assay ◽  
Virus Contamination ◽  
Pig Farms

1089: Prognostic Value of Molecular Staging of Bladder Cancer with RT -PCR Assay for KRT20: Results at 5 Year-Follow-up

2007 ◽  
Vol 177 (4S) ◽  
pp. 360-360
Author(s):  
Ana Agud ◽  
Maria J. Ribal ◽  
Lourdes Mengual ◽  
Mercedes Marin-Aguilera ◽  
Laura Izquierdo ◽  
...  
Keyword(s):  
Bladder Cancer ◽  
Prognostic Value ◽  
Rt Pcr ◽  
Pcr Assay ◽  
Molecular Staging

Polymerase chain reaction amplification and typing of rotavirus in environmental samples

1995 ◽  
Vol 31 (5-6) ◽  
pp. 371-374 ◽  
Author(s):  
R. Gajardo ◽  
R. M. Pintó ◽  
A. Bosch
Keyword(s):  
Polymerase Chain Reaction ◽  
Environmental Samples ◽  
Polymerase Chain Reaction Amplification ◽  
Rt Pcr ◽  
Chain Reaction ◽  
Pcr Assay ◽  
Group A ◽  
Reaction Amplification ◽  
Stool Specimens ◽  
Polymerase Chain

A reverse transcription polymerase chain reaction (RT-PCR) assay is described that has been developed for the detection and serotyping of group A rotavirus in stool specimens and concentrated and non-concentrated sewage specimens.

Scoring System for the Diagnosis of COVID-19

2020 ◽  
Vol 13 (1) ◽  
pp. 413-414 ◽  
Author(s):  
Mohamed Farouk Allam
Keyword(s):  
Scoring System ◽  
Clinical Symptoms ◽  
False Negative ◽  
Nasopharyngeal Swab ◽  
Rt Pcr ◽  
Pcr Assay ◽  
Negative Results ◽  
False Negative Results ◽  
Symptoms And Signs

Due to the international spread of COVID-19, the difficulty of collecting nasopharyngeal swab specimen from all suspected patients, the costs of RT-PCR and CT, and the false negative results of RT-PCR assay in 41% of COVID-19 patients, a scoring system is needed to classify the suspected patients in order to determine the need for follow-up, home isolation, quarantine or the conduction of further investigations. A scoring system is proposed as a diagnostic tool for suspected patients. It includes Epidemiological Evidence of Exposure, Clinical Symptoms and Signs, and Investigations (if available). This scoring system is simple, could be calculated in a few minutes, and incorporates the main possible data/findings of any patient.

Effective optimization of SARS-CoV-2 laboratory testing variables in an era of supply chain constraints

2020 ◽  
Vol 15 (15) ◽  
pp. 1483-1487
Author(s):  
Nikhil S Sahajpal ◽  
Ashis K Mondal ◽  
Allan Njau ◽  
Sudha Ananth ◽  
Kimya Jones ◽  
...  
Keyword(s):  
Supply Chain ◽  
Rna Extraction ◽  
Nasopharyngeal Swab ◽  
Sample Collection ◽  
Rt Pcr ◽  
Pcr Assay ◽  
Short Supply ◽  
Viral Transport ◽  
3D Printed ◽  
Bridging Studies

RT-PCR-based assays for the detection of SARS-CoV-2 have played an essential role in the current COVID-19 pandemic. However, the sample collection and test reagents are in short supply, primarily due to supply chain issues. Thus, to eliminate testing constraints, we have optimized three key process variables: RNA extraction and RT-PCR reactions, different sample types and media to facilitate SARS-CoV-2 testing. By performing various validation and bridging studies, we have shown that various sample types such as nasopharyngeal swab, bronchioalveolar lavage and saliva, collected using conventional nasopharyngeal swabs, ESwab or 3D-printed swabs and, preserved in viral transport media, universal transport media, 0.9% sodium chloride or Amies media are compatible with RT-PCR assay for COVID-19. Besides, the reduction of PCR reagents by up to fourfold also produces reliable results.

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