| Literature DB >> 34536487 |
Simon King1, John Flannery2, Carrie Batten2, Paulina Rajko-Nenow2.
Abstract
Previously, we reported the detection of two novel bluetongue virus (BTV) strains (SPvvvv/02 and SPvvvv/03), possibly representing new BTV genotypes, in a batch of sheeppox vaccine. We developed type-specific RT-qPCR assays (targeting genome segment 2) for these two new BTV strains. The limit of detection of both assays was 10 genome copies/μl and no cross-reactivity with other BTV genotypes was observed. The performance of three other BTV group-specific diagnostic assays was also tested against the putative novel genotypes. RT-qPCR assays targeting BTV segment 9 and 10 detected both strains (SPvvvv/02 and SPvvvv/03) whereas a BTV segment 1 RT-qPCR assay was unable to detect either BTV strain. The work presented here expands upon the current repertoire of RT-qPCR assays for BTV genotype determination.Entities:
Keywords: Bluetongue virus; Diagnostics; RT-qPCR; Serotyping
Mesh:
Substances:
Year: 2021 PMID: 34536487 PMCID: PMC8543067 DOI: 10.1016/j.jviromet.2021.114288
Source DB: PubMed Journal: J Virol Methods ISSN: 0166-0934 Impact factor: 2.014
Sequences of primers and probes for the typing real-time RT-qPCR assays of SPvvvv/02 and SPvvvv/03. Sequence start and end positions refer to segment 2.
| Primer/probe | Sequence | Sequence start | Sequence end |
|---|---|---|---|
| SPvvvv/02_Fwd | 5′-CGG TGG ATT GAG CGT TAA-3′ | 1748 | 1765 |
| SPvvvv/02_Rev | 5′-CGC CCA TGT ACT CGA AAA C-3′ | 1800 | 1782 |
| SPvvvv/02_Probe | 5′-FAM CAG CAG CAG TCT GC MGB-3′ | 1767 | 1780 |
| SPvvvv/03_Fwd | 5′-GAC ATC TGC CCA CAT TCG-3′ | 1838 | 1855 |
| SPvvvv/03_Rev | 5′-GCT TAA CGC GGT TCT TCT G-3′ | 1894 | 1876 |
| SPvvvv/03_Probe | 5′-FAM TGG CGC GTT ATA CAT T MGB-3′ | 1858 | 1873 |
Comparison of BTV group-specific and typing RT-qPCR CT values.
| Sample type | Passage history | SPvvvv/02 CT value | SPvvvv/03 CT value | Seg-1 CT value | Seg-9 CT value | Seg-10 CT value |
|---|---|---|---|---|---|---|
| Re-suspended vaccine 1 | N/A | 24.64 | 27.09 | Undet. | 30.88 | 23.98 |
| Re-suspended vaccine 2 | N/A | 26.66 | 29.42 | Undet. | 31.80 | 26.14 |
| Re-suspended vaccine 3 | N/A | 26.77 | 28.52 | Undet. | 31.39 | 25.48 |
| Resuspended vaccine 4 | N/A | 24.47 | 27.27 | Undet. | 28.85 | 22.99 |
| Cell culture 1 | ECE BSR3 | Undet. | 14.56 | Undet. | 17.77 | 13.38 |
| Cell culture 2 | ECE BSR2 BHK1 | Undet. | 11.81 | Undet. | 16.36 | 11.43 |
| Cell culture 3 | ECE Vero2 | Undet. | 13.51 | Undet. | 17.60 | 13.27 |
| Cell culture 4 | ECE | Undet. | 11.08 | Undet. | 14.51 | 10.42 |
| Cell culture 5 | ECE BSR2 | Undet. | 13.00 | Undet. | 16.58 | 12.41 |
| Cell culture 6 | BHK2 | 11.23 | 36.56 | Undet. | 14.91 | 10.34 |
| Cell culture 7 | BSR1BHK2 | 15.80 | Undet. | Undet. | 20.68 | 16.40 |
| Cell culture 8 | BSR1BHK2 | 15.94 | Undet. | Undet. | 19.82 | 15.68 |
| Cell culture 9 | BSR3 | 16.75 | Undet. | Undet. | 21.72 | 16.83 |
| Cell culture 10 | BHK2 | 16.99 | Undet. | Undet. | 20.65 | 16.26 |
| Cell culture 11 | Vero2 | 12.51 | Undet. | Undet. | 17.01 | 12.31 |
| Cell culture 12 | Vero1VeroVDS1 | 12.70 | Undet. | Undet. | 17.15 | 12.51 |
| Cell culture 13 | ECE BSR3 | 12.12 | Undet. | Undet. | 18.82 | 11.77 |
| Cell culture 14 | ECE Vero2 | 12.28 | Undet. | Undet. | 19.16 | 12.09 |
| Cell culture 15 | ECE BSR2BHK1 | 14.75 | Undet. | Undet. | 20.94 | 14.11 |
| Cell culture 16 | ECE BSR2 | 14.45 | Undet. | Undet. | 22.28 | 14.06 |
| Cell culture 17 | KC1 | 35.19 | 36.32 | Undet. | Undet. | 35.85 |
| Cell culture 18 | ECE | 13.03 | 21.82 | Undet. | 19.04 | 12.39 |
| Cell culture 19 | ECE | 16.11 | 37.22 | Undet. | 23.47 | 15.66 |
| Cell culture 20 | ECE | Undet. | 35.27 | Undet. | Undet. | 35.70 |
| Cell culture 21 | ECE | Undet. | 33.07 | Undet. | Undet. | 32.56 |
| Cell culture 22 | ECE | Undet. | 10.80 | Undet. | 13.50 | 9.09 |
| Cell culture 23 | ECE | Undet. | 15.67 | Undet. | 21.30 | 15.95 |
| Cell culture 24 | ECE | Undet. | 34.57 | Undet. | Undet. | 35.47 |
| Cell culture 25 | ECE | Undet. | 24.22 | Undet. | 27.07 | 23.09 |
| Cell culture 26 | ECE | 24.78 | 26.65 | Undet. | 28.85 | 23.38 |
Fig. 1Standard curve for the a) SPvvvv/02 RT-qPCR assay, and b) SPvvvv/03 RT-qPCR assay.
Fig. 2Phylogenetic relationship for the VP2 coding region of BTV. A Neighbour-joining tree (1,000 bootstrap replicates) was constructed using the MEGA7.0 software. Nomenclature used in accordance with that proposed by the BTV-GLUE database.