Next generation sequencing
We are using Illumina MiSeq for viral genome sequencing.We have sequenced over 40 isolated of Senecavirus A using Illumina Miseq. Often we run viral metagenomic sequencing in clinical samples for disease diagnosis. I have deep interest in viral informatics. In the Posts section of this webpage you can find some of the tools I am learning to develop my bioinformatics skills.
Lok Raj Joshi
Postdoctoral Research Fellow
My research interests include AAV gene therapy, vectored vaccine development, viral pathogenesis, diagnostic assay development,reverse genetics, viral bioinformatics.
Publications
Genetic diversity and evolution of the emerging picornavirus Senecavirus A
Abstract
Senecavirus A (SVA) is an emerging picornavirus that causes vesicular disease (VD) in swine. The virus has been circulating in swine in the United Stated (USA) since at least 1988, however, since 2014 a marked increase in the number of SVA outbreaks has been observed in swine worldwide.
Detection of Fowlpox virus carrying distinct genome segments of Reticuloendotheliosis virus
Abstract
Highlights
•Two distinct FWPV populations were detected in the skin of a wild bird affected with FWPV.
•Metagenomics revealed two FWPV genome populations containing the insertion of REV LTR or the full-length provirus.
A novel bovine papillomavirus type in the genus Dyokappapapillomavirus
Abstract
Papillomaviruses are a diverse group of viruses that are known to infect a wide range of animal species. Bovine papillomaviruses (BPVs) are divided into at least 21 genotypes (BPV1 to BPV21), with most BPV isolates/strains described to date belonging to one of four genera, including Deltapapillomavirus, Xipapillomavirus, Epsilonpapillomavirus and Dyoxipapillomavirus.