Detection of SARS-CoV-2 using five primer sets
| dc.contributor.author | Karagöz, Alper | |
| dc.contributor.author | Tutun, Hidayet | |
| dc.contributor.author | Arslantaş, Tutku | |
| dc.contributor.author | Altıntaş, Özlem | |
| dc.contributor.author | Koçak, Nadir | |
| dc.contributor.author | Altıntaş, Nadir | |
| dc.contributor.department | Veteriner Fakültesi | tr_TR |
| dc.date.accessioned | 2021-10-11T12:11:36Z | |
| dc.date.available | 2021-10-11T12:11:36Z | |
| dc.date.issued | 2020-12-25 | |
| dc.description.abstract | A novel coronavirus (SARS-CoV-2) outbreak, responsible for a pneumonia-associated respiratory disorder (COVID-19), has started in early December 2019 in Wuhan, China, and has rapidly spread around the world. Rapid and accurate diagnostic testing plays a crucial role in tackling the COVID-19 pandemic. In this study, it was aimed to compare 5 primer sets designed to amplify different regions for the detection of SARS-CoV-2 and to perform sequence analysis. Conventional RT-PCR was carried out using primers targeting different regions of the virus genome including ORF1ab, Envelope (E), RNA-dependent RNA polymerase (RdRp), Spike (S) and Nucleocapsid (N) genes for the diagnosis of COVID-19. DNA sequence of ORF1ab gene from each sample were compared with the DNA sequence data of SARS-CoV-2 stored in the GenBank and ORF1ab phylogenetic tree was constructed. The amplicon sizes of ORF1ab, S, E, N and RdRp genes were 588 bp, 440 bp, 145 bp, 323 bp and 196 bp, respectively. The SARS-CoV-2 RNA was detected from 74% of total samples from RdRp gene, 87% for N gene, 74% for S gene, 61% for E gene and 82% for ORF1ab region. The ORF1ab sequences of SARS-CoV-2 from 82 patients were had 100% identity to the sequence of Wuhan isolate and among themselves. The phylogenetic analysis revealed that all isolates formed a cluster. The results of this study suggest that the N region is the best for SARS-CoV-2 identification. | tr_TR |
| dc.identifier.endpage | 75 | tr_TR |
| dc.identifier.issn/e-issn | 1308-2817 | |
| dc.identifier.issue | 1 | tr_TR |
| dc.identifier.startpage | 69 | tr_TR |
| dc.identifier.uri | https://doi.org/10.33988/auvfd.775884 | tr_TR |
| dc.identifier.uri | http://hdl.handle.net/20.500.12575/75371 | |
| dc.identifier.volume | 68 | tr_TR |
| dc.language.iso | en | tr_TR |
| dc.publisher | Ankara Üniversitesi | tr_TR |
| dc.relation.isversionof | 10.33988/auvfd.775884 | tr_TR |
| dc.relation.journal | Ankara Üniversitesi Veteriner Fakültesi Dergisi | tr_TR |
| dc.relation.publicationcategory | Makale - Uluslararası Hakemli Dergi - Kurum Öğretim Elemanı | tr_TR |
| dc.subject | Conventional RT-PCR | tr_TR |
| dc.subject | COVID-19 | tr_TR |
| dc.subject | Diagnosis | tr_TR |
| dc.title | Detection of SARS-CoV-2 using five primer sets | tr_TR |
| dc.type | Article | tr_TR |