The Prevalence of RT-PCR Positivity of SARS-CoV-2 on 10,000 Patients from Three Cities Located on the Eastern of Turkey

ABSTRACTCOVID-19, is caused by SARS-CoV-2, has been started on December/2019 in Wuhan/China and spread all over the world. We analyzed RT-PCR results of 10,000 cases from April-2 to May-30, 2020 in three neighbor cities located on the Eastern of Turkey. The final study population was 7853 cases after excluded screening tests. RT-PCR were performed to detect the SARS-CoV-2-specific RdRp (RNA-dependent-RNA-polymerase) gene fragment. The number of total positive samples out of 7853 were 487; however, the number of non-repeating positive patient was 373 (4.8%). The cough and fever were the most common symptoms in positive cases. The epidemiologic studies should be performed about the prevalence of SARS-CoV-2 infection to better understand the effect of the virus all over the world.

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Prevalence of COVID-19 in 10,000 samples from 7853 patients in Eastern Turkey by positive real-time PCR

Future Microbiology ◽

10.2217/fmb-2020-0134 ◽

2021 ◽

Author(s):

Murat Karamese ◽

Didem Ozgur ◽

Ceyda Tarhan ◽

Susamber D Altintas ◽

Okan Caliskan ◽

...

Keyword(s):

Real Time ◽

Real Time Pcr ◽

Epidemiologic Studies ◽

Screening Tests ◽

Polymerase Gene ◽

Positive Real ◽

Final Study ◽

The World ◽

Study Population ◽

Rna Polymerase Gene

Aim: COVID-19, caused by SARS-CoV-2, started in December 2019 and has spread across the world. Materials & methods: We analyzed real-time PCR results of 10,000 samples from 2 April to 30 May 2020 in three neighbor cities located in the East of Turkey. The final study population was 7853 cases, after excluding screening tests. Results: Real-time PCR was performed to detect the SARS-CoV-2-specific RNA-dependent-RNA-polymerase gene fragment. The number of total positive samples out of 7853 were 487; however, the number of nonrepeating positive patient was 373 (4.8%). Cough and fever were the most common symptoms in positive cases. Conclusion: Epidemiologic studies should be performed about the prevalence of SARS-CoV-2 infection to better understand the effect of the virus across the world.

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Extensive genetic diversity and host range of rodent-borne coronaviruses

Virus Evolution ◽

10.1093/ve/veaa078 ◽

2020 ◽

Vol 6 (2) ◽

Author(s):

Wen Wang ◽

Xian-Dan Lin ◽

Hai-Lin Zhang ◽

Miao-Ruo Wang ◽

Xiao-Qing Guan ◽

...

Keyword(s):

Genetic Diversity ◽

Rodent Species ◽

Polymerase Gene ◽

Rna Dependent Rna Polymerase ◽

Reading Frame ◽

Genome Recombination ◽

Genomic Complexity ◽

Viral Subtype ◽

Rna Polymerase Gene ◽

Eothenomys Miletus

Abstract To better understand the genetic diversity, host associations and evolution of coronaviruses (CoVs) in China we analyzed a total of 696 rodents encompassing 16 different species sampled from Zhejiang and Yunnan provinces. Based on reverse transcriptase PCR-based CoV screening of fecal samples and subsequent sequence analysis of the RNA-dependent RNA polymerase gene, we identified CoVs in diverse rodent species, comprising Apodemus agrarius, Apodemus chevrieri, Apodemus latronum, Bandicota indica, Eothenomys cachinus, Eothenomys miletus, Rattus andamanensis, Rattus norvegicus, and Rattus tanezumi. CoVs were particularly commonplace in A. chevrieri, with a detection rate of 12.44 per cent (24/193). Genetic and phylogenetic analysis revealed the presence of three groups of CoVs carried by a range of rodents that were closely related to the Lucheng Rn rat CoV (LRNV), China Rattus CoV HKU24 (ChRCoV_HKU24), and Longquan Rl rat CoV (LRLV) identified previously. One newly identified A. chevrieri-associated virus closely related to LRNV lacked an NS2 gene. This virus had a similar genetic organization to AcCoV-JC34, recently discovered in the same rodent species in Yunnan, suggesting that it represents a new viral subtype. Notably, additional variants of LRNV were identified that contained putative non-structural (NS)2b genes located downstream of the NS2 gene that were likely derived from the host genome. Recombination events were also identified in the open reading frame (ORF) 1a gene of Lijiang-71. In sum, these data reveal the substantial genetic diversity and genomic complexity of rodent-borne CoVs, and extend our knowledge of these major wildlife virus reservoirs.

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Extreme Reduction of Disease in Oats Transformed with the 5′ Half of the Barley Yellow Dwarf Virus-PAV Genome

Phytopathology ◽

10.1094/phyto.1998.88.10.1013 ◽

1998 ◽

Vol 88 (10) ◽

pp. 1013-1019 ◽

Cited By ~ 27

Author(s):

Gennadiy Koev ◽

B. R. Mohan ◽

S. P. Dinesh-Kumar ◽

Kimberly A. Torbert ◽

David A. Somers ◽

...

Keyword(s):

Barley Yellow Dwarf Virus ◽

Yellow Dwarf ◽

Natural Resistance ◽

Polymerase Gene ◽

Transgenic Resistance ◽

Rna Dependent Rna Polymerase ◽

Disease Symptoms ◽

Barley Yellow Dwarf ◽

Yellow Dwarf Virus ◽

Rna Polymerase Gene

Barley yellow dwarf viruses (BYDVs) are the most serious and widespread viruses of oats, barley, and wheat worldwide. Natural resistance is inadequate. Toward overcoming this limitation, we engineered virus-derived transgenic resistance in oat. Oat plants were transformed with the 5′ half of the BYDV strain PAV genome, which includes the RNA-dependent RNA polymerase gene. In experiments on T2- and T3-generation plants descended from the same transformation event, all BYDV-inoculated plants containing the transgene showed disease symptoms initially, but recovered, flowered, and produced seed. In contrast, all but one of the BYDV-PAV-inoculated nontransgenic segregants died before reaching 25 cm in height. Although all of the recovered transgenic plants looked similar, the amount of virus and viral RNA ranged from substantial to undetectable levels. Thus, the transgene may act either by restricting virus accumulation or by a novel transgenic tolerance phenomenon. This work demonstrates a strategy for genetically stable transgenic resistance to BYDVs that should apply to all hosts of the virus.

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The Dicer-like, Argonaute and RNA-dependent RNA polymerase gene families in Populus trichocarpa: gene structure, gene expression, phylogenetic analysis and evolution

Journal of Genetics ◽

10.1007/s12041-015-0508-y ◽

2015 ◽

Vol 94 (2) ◽

pp. 317-321 ◽

Cited By ~ 9

Author(s):

KANG ZHAO ◽

HUALIN ZHAO ◽

ZHU CHEN ◽

LIN FENG ◽

JIE REN ◽

...

Keyword(s):

Gene Expression ◽

Phylogenetic Analysis ◽

Rna Polymerase ◽

Gene Structure ◽

Populus Trichocarpa ◽

Gene Families ◽

Polymerase Gene ◽

Rna Dependent Rna Polymerase ◽

Rna Polymerase Gene

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Incidence of and Factors Associated with False Positives in Laboratory Diagnosis of Norovirus Infection by Amplification of the RNA-Dependent RNA Polymerase Gene

PLoS ONE ◽

10.1371/journal.pone.0109876 ◽

2014 ◽

Vol 9 (9) ◽

pp. e109876 ◽

Cited By ~ 8

Author(s):

Fang-Ru Lin ◽

Yu-Hua Shen ◽

Chun-Wan Fang ◽

Shian-Sen Shie ◽

Chung-Guei Huang ◽

...

Keyword(s):

Rna Polymerase ◽

Laboratory Diagnosis ◽

False Positives ◽

Polymerase Gene ◽

Rna Dependent Rna Polymerase ◽

Factors Associated ◽

Rna Polymerase Gene

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Effective inhibition of porcine transmissible gastroenteritis virus replication in ST cells by shRNAs targeting RNA-dependent RNA polymerase gene

Antiviral Research ◽

10.1016/j.antiviral.2006.12.007 ◽

2007 ◽

Vol 74 (1) ◽

pp. 36-42 ◽

Cited By ~ 13

Author(s):

Jun-fang Zhou ◽

Xiu-guo Hua ◽

Li Cui ◽

Jian-guo Zhu ◽

De-nian Miao ◽

...

Keyword(s):

Rna Polymerase ◽

Virus Replication ◽

Transmissible Gastroenteritis Virus ◽

Polymerase Gene ◽

Rna Dependent Rna Polymerase ◽

Gastroenteritis Virus ◽

Porcine Transmissible Gastroenteritis Virus ◽

Effective Inhibition ◽

Transmissible Gastroenteritis ◽

Rna Polymerase Gene

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Genetic Characterisation and Comparison of Three Human Coronaviruses (HKU1, OC43, 229E) from Patients and Bovine Coronavirus (BCoV) from Cattle with Respiratory Disease in Slovenia

Viruses ◽

10.3390/v13040676 ◽

2021 ◽

Vol 13 (4) ◽

pp. 676

Author(s):

Monika Jevšnik Virant ◽

Danijela Černe ◽

Miroslav Petrovec ◽

Tomislav Paller ◽

Ivan Toplak

Keyword(s):

Respiratory Disease ◽

Genetic Similarity ◽

Gastrointestinal Disease ◽

Amino Acid Identity ◽

Polymerase Gene ◽

Rna Dependent Rna Polymerase ◽

Acid Identity ◽

Human Coronaviruses ◽

First Time ◽

Rna Polymerase Gene

Coronaviruses (CoV) are widely distributed pathogens of human and animals and can cause mild or severe respiratory and gastrointestinal disease. Antigenic and genetic similarity of some CoVs within the Betacoronavirus genus is evident. Therefore, for the first time in Slovenia, we investigated the genetic diversity of partial 390-nucleotides of RNA-dependent-RNA polymerase gene (RdRp) for 66 human (HCoV) and 24 bovine CoV (BCoV) positive samples, collected between 2010 and 2016 from human patients and cattle with respiratory disease. The characterized CoV strains belong to four different clusters, in three separate human clusters HCoV-HKU1 (n = 34), HCoV-OC43 (n = 31) and HCoV 229E (n = 1) and bovine grouping only as BCoVs (n = 24). BCoVs from cattle and HCoV-OC43 were genetically the most closely related and share 96.4–97.1% nucleotide and 96.9–98.5% amino acid identity.

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