Long range PCR-based deep sequencing for haplotype determination in mixed HCMV infections.

ABSTRACT:

Background

Short read sequencing has been used extensively to decipher the genome diversity of human cytomegalovirus (HCMV) strains, but falls short to reveal individual genomes in mixed HCMV strain populations. Novel third-generation sequencing platforms offer an extended read length and promise to resolve how distant polymorphic sites along individual genomes are linked. In the present study, we established a long amplicon PacBio sequencing workflow to identify the absolute and relative quantities of unique HCMV haplotypes spanning over multiple hypervariable sites in mixtures. Initial validation of this approach was performed with defined HCMV DNA templates derived from cell-culture enriched viruses and was further tested for its suitability on patient samples carrying mixed HCM

SUBMITTER: Brait N 

PROVIDER: S-EPMC8735729 | biostudies-literature | 2022 Jan

REPOSITORIES: biostudies-literature