Evaluation of global clustering patterns and strain variation over an extended ORF26 gene locus from Kaposi's sarcoma herpesvirus

Zong, Jian; Kajumbula, Henry; Boto, William; Hayward, Gary S.

doi:10.1016/j.jcv.2007.06.013

Cited by 16 publications

(26 citation statements)

References 23 publications

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“…The KSHV-harboring cells were obtained from the ATCC repository (BC-1, BC-2, BC-3, BCP-1, and JSC-1) or Dr. Jae Jung (BCBL-1, VG-1, 239A, and APK1) (University of Southern California). VG-1 is an African B-subtype genome; the other KSHV-containing PEL lines are of Caucasian origin (Zong et al, 2007). They were cultured according to the suggestions of the provider for subsequent viral DNA isolation.…”

Section: Methodsmentioning

confidence: 99%

Glycoprotein gene sequence variation in rhesus monkey rhadinovirus

Shin

Jones²,

Manrique³

et al. 2010

Virology

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Gene sequences for seven glycoproteins from 20 independent isolates of rhesus monkey rhadinovirus (RRV) and of the corresponding seven glycoprotein genes from nine strains of the Kaposi’s sarcoma-associated herpesvirus (KSHV) were obtained and analyzed. Phylogenetic analysis revealed two discrete groupings of RRV gH sequences, two discrete groupings of RRV gL sequences and two discrete groupings of RRV gB sequences. We called these phylogenetic groupings gHa, gHb, gLa, gLb, gBa and gBb. gHa was always paired with gLa and gHb was always paired with gLb for any individual RRV isolate. Since gH and gL are known to be interacting partners, these results suggest the need of matching sequence types for function of these cooperating proteins. gB phylogenetic grouping was not associated with gH/gL phylogenetic grouping. Our results demonstrate two distinct, distantly-related phylogenetic groupings of gH and gL of RRV despite a remarkable degree of sequence conservation within each individual phylogenetic group.

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Section: Methodsmentioning

confidence: 99%

Glycoprotein gene sequence variation in rhesus monkey rhadinovirus

Shin

Jones²,

Manrique³

et al. 2010

Virology

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“…The sequences obtained during this work were deposited in GenBank under accession numbers KU987585‐KU987608. The clade assignment of 21/24 individual sequences was derived from analysis of 37 polymorphic sites but fewer sites were considered in three samples (AR070M, AR169M, AR245M) that yielded shorter amplicons. The 24 newly available sequences separated into six different ORF26E subtypes as compared with reference strains: A/C (11), K (4), J (4), B2 (2), R (1), D(1) and one with an extent corresponding to R or K (Table ).…”

Section: Resultsmentioning

confidence: 99%

“… a Indicates variable number of Gs between 1561 and 1564. Deletions are indicated with d. The numbering system conforms to those used by Zong et al…”

Section: Resultsmentioning

confidence: 99%

“… a Reverse complementary or LGH2573 . Nt (nucleotide position): K1 positions belong to those described by Russo et al; ORF26 sites are derived from Chang et al…”

Section: Methodsmentioning

confidence: 99%

“…The ORF26E region considered in the current work represents sites 47 220‐48 157 for the prototype HHV‐8 BC1 genome. For the analysis, ORF26E assigned position numbers (920‐1857) are derived from Chang et al Nucleotide polymorphic patterns were compared to ORF26E distinctive subgroup strains: A/C: BCBLR (DQ984689), J: BC3 (DQ984720), K: BKS13 (DQ984726), R: UG208 (GQ252673), B2: HKS9 (DQ984799), D: TKS10 (DQ984799) …”

Section: Methodsmentioning

confidence: 99%

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Diversity of human herpesvirus 8 genotypes in patients with AIDS and non-AIDS associated Kaposi's sarcoma, Castleman's disease and primary effusion lymphoma in Argentina

Perez

Tous

2017

J Med Virol

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HHV-8 genotypes are distributed heterogeneously worldwide. The variable K1 gene and the conserved ORF26E region serve to genotype. The aim of the study was to characterize HHV-8 isolates from patients with AIDS, classical, and iatrogenic KS, primary effusion lymphoma and Castleman's disease and one organ donor from Argentina by analysis of ORFK1 and ORF26E regions. DNA was extracted from fresh or paraffin embedded biopsies, blood, and saliva samples and submitted to HHV-8 PCR. Phylogenetic analyses of ORFK1 showed that subtypes C (C1, C2, and C3), B1 and A (A1, A2, and A3) were present in 70.8%, 16.7%, and 12.5% of cases, respectively. Analyses of ORF26E fragment revealed that most strains (45.8%) were subtype A/C while the remaining fall into K, J, B2, R, and D subtypes. Linkage between ORFK1-ORF26E subtypes corresponded to reported relationships, except for one strain that clustered with B1 (K1 African) and D (ORF26E Asian-Pacific) subtypes. This research reveals predominance of subtype C, a broad spectrum of HHV-8 genotypes and reports the first isolation of the African B genotype in Argentina.

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Molecular epidemiology of human herpesvirus 8 in patients with HHV‐8‐related diseases in Ireland

O'Rourke,

Laoi,

Clarke

et al. 2024

Journal of Medical Virology

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Human Herpesvirus 8 (HHV‐8) has been classified by sequence analysis of open reading frame (ORF) K1, ORF K15, and variable sequence loci within the central constant region. The purpose of this study was to examine the molecular epidemiology of HHV‐8 in an Irish population. This retrospective study included 30 patients who had HHV‐8 DNA detected in plasma. Nested end‐point PCR was used to characterise four regions of the HHV‐8 genome, K1, T0.7 (K12), ORF 75, and K15. Sequencing data were obtained for 23 specimens from 19 patients. Phylogenetic analysis of ORF K1 demonstrated that subtypes A, B, C and F were present in 37%, 11%, 47% and 5%, respectively. For T0.7 and ORF 75, sequencing data were obtained for 12 patients. For T0.7, subtypes A/C, J, B, R and Q were present in 58%, 17%, 8%, 8%, and 8%, respectively. For ORF 75, subtypes A, B, C and D were present in 58%, 8%, 25%, and 8%, respectively. K15 sequences were determined for 13 patients. 69% had the P allele and 31% had the M allele. The data generated by this study demonstrate that a broad variety of HHV‐8 subtypes are represented in patients exhibiting HHV‐8‐related disease in Ireland, a low prevalence country. The predominance of C and A K1 subtypes was as expected for a Western European population. The 31% prevalence for K15 subtype M was higher than expected for a Western European population. This may represent the changing and evolving epidemiology in Ireland due to altered migration patterns.

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Evaluation of global clustering patterns and strain variation over an extended ORF26 gene locus from Kaposi's sarcoma herpesvirus

Abstract: Background-Small 233-bp or 330-bp DNA fragments of the ORF26 gene of human Kaposi's sarcoma herpesvirus (KSHV) have been used extensively to identify KSHV by PCR in clinical samples; to associate KSHV with novel diseases; and to correlate KSHV strain differences with pathogenicity.

Cited by 16 publications

References 23 publications

Glycoprotein gene sequence variation in rhesus monkey rhadinovirus

Glycoprotein gene sequence variation in rhesus monkey rhadinovirus

Diversity of human herpesvirus 8 genotypes in patients with AIDS and non-AIDS associated Kaposi's sarcoma, Castleman's disease and primary effusion lymphoma in Argentina

Molecular epidemiology of human herpesvirus 8 in patients with HHV‐8‐related diseases in Ireland

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