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Comparative genomic, transcriptomic, and proteomic reannotation of human herpesvirus 6.
- Source :
-
BMC genomics [BMC Genomics] 2018 Mar 20; Vol. 19 (1), pp. 204. Date of Electronic Publication: 2018 Mar 20. - Publication Year :
- 2018
-
Abstract
- Background: Human herpesvirus-6A and -6B (HHV-6) are betaherpesviruses that reach > 90% seroprevalence in the adult population. Unique among human herpesviruses, HHV-6 can integrate into the subtelomeric regions of human chromosomes; when this occurs in germ line cells it causes a condition called inherited chromosomally integrated HHV-6 (iciHHV-6). Only two complete genomes are available for replicating HHV-6B, leading to numerous conflicting annotations and little known about the global genomic diversity of this ubiquitous virus.<br />Results: Using a custom capture panel for HHV-6B, we report complete genomes from 61 isolates of HHV-6B from active infections (20 from Japan, 35 from New York state, and 6 from Uganda), and 64 strains of iciHHV-6B (mostly from North America). HHV-6B sequence clustered by geography and illustrated extensive recombination. Multiple iciHHV-6B sequences from unrelated individuals across the United States were found to be completely identical, consistent with a founder effect. Several iciHHV-6B strains clustered with strains from recent active pediatric infection. Combining our genomic analysis with the first RNA-Seq and shotgun proteomics studies of HHV-6B, we completely reannotated the HHV-6B genome, altering annotations for more than 10% of existing genes, with multiple instances of novel splicing and genes that hitherto had gone unannotated.<br />Conclusion: Our results are consistent with a model of intermittent de novo integration of HHV-6B into host germline cells during active infection with a large contribution of founder effect in iciHHV-6B. Our data provide a significant advance in the genomic annotation of HHV-6B, which will contribute to the detection, diversity, and control of this virus.
- Subjects :
- Adolescent
Adult
Aged
Child
Child, Preschool
Cohort Studies
Female
Genome, Viral
Global Health
Herpesvirus 6, Human isolation & purification
Humans
Infant
Infant, Newborn
Male
Middle Aged
Proteomics methods
Young Adult
Gene Expression Profiling methods
Genomics methods
Herpesvirus 6, Human genetics
Herpesvirus 6, Human metabolism
Roseolovirus Infections virology
Viral Proteins analysis
Subjects
Details
- Language :
- English
- ISSN :
- 1471-2164
- Volume :
- 19
- Issue :
- 1
- Database :
- MEDLINE
- Journal :
- BMC genomics
- Publication Type :
- Academic Journal
- Accession number :
- 29554870
- Full Text :
- https://doi.org/10.1186/s12864-018-4604-2