Detection and differentiation of velogenic and lentogenic Newcastle disease viruses using SYBR Green I real-time PCR with nucleocapsid gene-specific primers
SYBR Green I real-time PCR was developed for detection and differentiation of Newcastle disease virus (NDV). Primers based on the nucleocapsid (NP) gene were designed to detect specific sequence of velogenic strains and lentogenic/vaccine strains, respectively. The assay was developed and tested wit...
| Main Authors: | , , , , |
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| Format: | Article |
| Language: | English |
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Elsevier
2009
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| Online Access: | http://psasir.upm.edu.my/id/eprint/13926/ http://psasir.upm.edu.my/id/eprint/13926/1/Detection%20and%20differentiation%20of%20velogenic%20and%20lentogenic%20Newcastle%20disease%20viruses%20using%20SYBR%20Green%20I%20real-time%20PCR%20with%20nucleocapsid%20gene-specific%20primers.pdf |
| _version_ | 1848842250835984384 |
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| author | Tan, Sheau Wei Ideris, Aini Omar, Abdul Rahman Mohd Yusoff, Khatijah Bejo, Mohd Hair |
| author_facet | Tan, Sheau Wei Ideris, Aini Omar, Abdul Rahman Mohd Yusoff, Khatijah Bejo, Mohd Hair |
| author_sort | Tan, Sheau Wei |
| building | UPM Institutional Repository |
| collection | Online Access |
| description | SYBR Green I real-time PCR was developed for detection and differentiation of Newcastle disease virus (NDV). Primers based on the nucleocapsid (NP) gene were designed to detect specific sequence of velogenic strains and lentogenic/vaccine strains, respectively. The assay was developed and tested with NDV strains which were characterized previously. The velogenic strains were detected only by using velogenic-specific primers with a threshold cycle (Ct) 18.19 ± 3.63 and a melting temperature (Tm) 86.0 ± 0.28 °C. All the lentogenic/vaccine strains, in contrast, were detected only when lentogenic-specific primers were used, with the Ct value 14.70 ± 2.32 and Tm 87.4 ± 0.21 °C. The assay had a dynamic detection range which spans over a 5 log10 concentration range, 109–105 copies of DNA plasmid/reaction. The velogenic and lentogenic amplifications showed high PCR efficiency of 100% and 104%, respectively. The velogenic and lentogenic amplifications were highly reproducible with assay variability 0.45 ± 0.31% and 1.30 ± 0.65%, respectively. The SYBR Green I real-time PCR assay detected successfully the virus from tissue samples and oral swabs collected from the velogenic and lentogenic NDV experimental infection, respectively. In addition, the assay detected and differentiated accurately NDV pathotypes from suspected field samples where the results were in good agreement with both virus isolation and analysis of the fusion (F) cleavage site sequence. The assay offers an attractive alternative method for the diagnosis of NDV. |
| first_indexed | 2025-11-15T07:56:09Z |
| format | Article |
| id | upm-13926 |
| institution | Universiti Putra Malaysia |
| institution_category | Local University |
| language | English |
| last_indexed | 2025-11-15T07:56:09Z |
| publishDate | 2009 |
| publisher | Elsevier |
| recordtype | eprints |
| repository_type | Digital Repository |
| spelling | upm-139262020-07-28T00:56:07Z http://psasir.upm.edu.my/id/eprint/13926/ Detection and differentiation of velogenic and lentogenic Newcastle disease viruses using SYBR Green I real-time PCR with nucleocapsid gene-specific primers Tan, Sheau Wei Ideris, Aini Omar, Abdul Rahman Mohd Yusoff, Khatijah Bejo, Mohd Hair SYBR Green I real-time PCR was developed for detection and differentiation of Newcastle disease virus (NDV). Primers based on the nucleocapsid (NP) gene were designed to detect specific sequence of velogenic strains and lentogenic/vaccine strains, respectively. The assay was developed and tested with NDV strains which were characterized previously. The velogenic strains were detected only by using velogenic-specific primers with a threshold cycle (Ct) 18.19 ± 3.63 and a melting temperature (Tm) 86.0 ± 0.28 °C. All the lentogenic/vaccine strains, in contrast, were detected only when lentogenic-specific primers were used, with the Ct value 14.70 ± 2.32 and Tm 87.4 ± 0.21 °C. The assay had a dynamic detection range which spans over a 5 log10 concentration range, 109–105 copies of DNA plasmid/reaction. The velogenic and lentogenic amplifications showed high PCR efficiency of 100% and 104%, respectively. The velogenic and lentogenic amplifications were highly reproducible with assay variability 0.45 ± 0.31% and 1.30 ± 0.65%, respectively. The SYBR Green I real-time PCR assay detected successfully the virus from tissue samples and oral swabs collected from the velogenic and lentogenic NDV experimental infection, respectively. In addition, the assay detected and differentiated accurately NDV pathotypes from suspected field samples where the results were in good agreement with both virus isolation and analysis of the fusion (F) cleavage site sequence. The assay offers an attractive alternative method for the diagnosis of NDV. Elsevier 2009 Article PeerReviewed text en http://psasir.upm.edu.my/id/eprint/13926/1/Detection%20and%20differentiation%20of%20velogenic%20and%20lentogenic%20Newcastle%20disease%20viruses%20using%20SYBR%20Green%20I%20real-time%20PCR%20with%20nucleocapsid%20gene-specific%20primers.pdf Tan, Sheau Wei and Ideris, Aini and Omar, Abdul Rahman and Mohd Yusoff, Khatijah and Bejo, Mohd Hair (2009) Detection and differentiation of velogenic and lentogenic Newcastle disease viruses using SYBR Green I real-time PCR with nucleocapsid gene-specific primers. Journal of Virological Methods, 160 (1-2). pp. 149-156. ISSN 0166-0934; ESSN: 1879-0984 https://www.sciencedirect.com/science/article/pii/S0166093409002389?via%3Dihub 10.1016/j.jviromet.2009.05.006 |
| spellingShingle | Tan, Sheau Wei Ideris, Aini Omar, Abdul Rahman Mohd Yusoff, Khatijah Bejo, Mohd Hair Detection and differentiation of velogenic and lentogenic Newcastle disease viruses using SYBR Green I real-time PCR with nucleocapsid gene-specific primers |
| title | Detection and differentiation of velogenic and lentogenic Newcastle disease viruses using SYBR Green I real-time PCR with nucleocapsid gene-specific primers |
| title_full | Detection and differentiation of velogenic and lentogenic Newcastle disease viruses using SYBR Green I real-time PCR with nucleocapsid gene-specific primers |
| title_fullStr | Detection and differentiation of velogenic and lentogenic Newcastle disease viruses using SYBR Green I real-time PCR with nucleocapsid gene-specific primers |
| title_full_unstemmed | Detection and differentiation of velogenic and lentogenic Newcastle disease viruses using SYBR Green I real-time PCR with nucleocapsid gene-specific primers |
| title_short | Detection and differentiation of velogenic and lentogenic Newcastle disease viruses using SYBR Green I real-time PCR with nucleocapsid gene-specific primers |
| title_sort | detection and differentiation of velogenic and lentogenic newcastle disease viruses using sybr green i real-time pcr with nucleocapsid gene-specific primers |
| url | http://psasir.upm.edu.my/id/eprint/13926/ http://psasir.upm.edu.my/id/eprint/13926/ http://psasir.upm.edu.my/id/eprint/13926/ http://psasir.upm.edu.my/id/eprint/13926/1/Detection%20and%20differentiation%20of%20velogenic%20and%20lentogenic%20Newcastle%20disease%20viruses%20using%20SYBR%20Green%20I%20real-time%20PCR%20with%20nucleocapsid%20gene-specific%20primers.pdf |