Sequence variability of the human cytomegalovirus UL141 Open Reading Frame in clinical strains

Ma, Yanping; Ruan, Qiang; He, Rong; Sun, Zhengrong; Ji, Yaohua; Huang, Yujing; Liu, Q.; Chen, S.-R.; Wang, J.-D.

doi:10.1007/s00705-005-0638-2

Cited by 6 publications

(4 citation statements)

References 17 publications

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“…Although some regions have been sequenced in multiple studies (for example, UL55 (gB)), for the purposes of this figure, we show the data from the study that sequenced the largest region. The data used to construct this figure are from [1], [2], [3], [4], [5], [6], [7], [8], [9], [10], [11], [12], [13], [14], [15], [16], which are listed in Text S1.…”

Section: Supporting Informationmentioning

confidence: 99%

“…The genome of AD169 as compared to low passage strains has an approximately 15 kb deletion which encodes an additional 19 or 22 open ORFs, referred to as the UL/b' region [6], [7], [8]. Approximately 20 ORFs of HCMV have been shown to exhibit nucleotide variability when sequenced from infected hosts [9], [10], [11], [12], [13], [14], [15], [16], [17], [18], [19]. These studies have often focused on the variability of ORFs encoding envelope glycoproteins or ORFs of UL/b', which are thought to be important for pathogenesis.…”

Section: Introductionmentioning

confidence: 99%

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Extensive Genome-Wide Variability of Human Cytomegalovirus in Congenitally Infected Infants

et al. 2011

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Research has shown that RNA virus populations are highly variable, most likely due to low fidelity replication of RNA genomes. It is generally assumed that populations of DNA viruses will be less complex and show reduced variability when compared to RNA viruses. Here, we describe the use of high throughput sequencing for a genome wide study of viral populations from urine samples of neonates with congenital human cytomegalovirus (HCMV) infections. We show that HCMV intrahost genomic variability, both at the nucleotide and amino acid level, is comparable to many RNA viruses, including HIV. Within intrahost populations, we find evidence of selective sweeps that may have resulted from immune-mediated mechanisms. Similarly, genome wide, population genetic analyses suggest that positive selection has contributed to the divergence of the HCMV species from its most recent ancestor. These data provide evidence that HCMV, a virus with a large dsDNA genome, exists as a complex mixture of genome types in humans and offer insights into the evolution of the virus.

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Section: Supporting Informationmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Extensive Genome-Wide Variability of Human Cytomegalovirus in Congenitally Infected Infants

et al. 2011

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“…The fact that AD169 has attenuated virulence and different tropism for endothelial cell than low-passage isolates leads us to consider the possibility that the predicted products of UL/b' genes determine the manifestation of HCMV infection in vivo. Several genes have been analyzed to look for genomic variation in clinical isolates in China, such as UL139, UL141, and UL149 open reading frames (ORF) Ma et al, 2006;Ji et al, 2006).…”

Section: Introductionmentioning

confidence: 99%

Structure characterization of human cytomegalovirus UL131A, UL130 and UL128 genes in clinical strains in China

Yh²,

Ruan³

et al. 2009

Genet. Mol. Res.

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ABSTRACT. Human cytomegalovirus (HCMV) genetic determinants of endothelial cell tropism, leukocytes and dendritic cells have been identified in the genes UL131A, UL130, and UL128. We examined the structure of these three genes in HCMV. Eighteen low-passage clinical isolates and five non-passage strains from congenitally HCMV-infected infants in China were used to assess the structures of the UL131A, UL130, and UL128 genes and to find possible relationships between sequence polymorphism and different signs of HCMV disease. Comparisons were made between the UL131A, UL130, and UL128 genes of clinical strains and published sequences of Towne and Merlin strains. The UL131A coding region in the clinical strains was similar to that of Towne and Merlin strains, while UL130, and UL128 coding regions in the clinical strains were parallel with those of Towne and Merlin, respectively. Sequence comparison indicated that the UL130, and UL128 genes encode chemokine-like proteins in the clinical strain; the transmembrane regions of UL131A, and UL130 were conserved in all clinical and reference strains. The three genes of clinical strains from infants with different signs of HCMV disease had similar structure characterization. We conclude that the UL131A, UL130, and UL128 genes are highly conserved in these clinical strains. No correlation was found between the structure of the three genes and variations in HCMV disease. The finding of chemokine-like domains in UL130, and UL128 putative proteins suggests that the predicted products play a role in HCMV infectivity.

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“…The fact that AD169 shows attenuated virulence and different tropism for endothelial cells from low-passage isolates suggests that the predicted products of UL/b' genes may determine the manifestations of HCMV infection in vivo. Several genes such as UL139, UL141 and UL149 ORFs have been analysed for genomic variation in clinical isolates Ma et al 2006;Ji et al 2006). Putative functions of these UL/b′ ORFs have so far been ascribed to UL144, UL146 and UL147 Benedict et al 1999;Penfold et al 1999).…”

Section: Introductionmentioning

confidence: 99%

Human cytomegalovirus UL145 gene is highly conserved among clinical strains

Sun

Ruan

et al. 2007

J. Biosci.

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Human cytomegalovirus (HCMV), a ubiquitous human pathogen, is the leading cause of birth defects in newborns. A region (referred to as UL/b') present in the Toledo strain of HCMV and low-passage clinical isolates) contains 22 additional genes,which are absent in the highly passaged laboratory strain AD169. One of these genes,UL145 open reading frame (ORF), is located between the highly variable genes UL144 and UL146. To assess the structure of the UL145 gene,the UL145 ORF was amplified by PCR and sequenced from 16 low-passage clinical isolates and 15 non-passage strains from suspected congenitally infected infants. Nine UL145 sequences previously published in the GenBank were used for sequence comparison. The identities of the gene and the similarities of its putative protein among all strains were 95.9 -100% and 96.6-100%, respectively. The post-translational modification motifs of the UL145 putative protein in clinical strains were conserved,comprising the protein kinase C phosphorylation motif (PKC)and casein kinase II phosphorylation site (CK-II). We conclude that the structure of the UL145 gene and its putative protein are relatively conserved among clinical strains, irrespective of whether the strains come from patients with different manifestations, from different areas of the world, or were passaged or not in human embryonic lung fibroblast (HELF) cells.

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Sequence variability of the human cytomegalovirus UL141 Open Reading Frame in clinical strains

Cited by 6 publications

References 17 publications

Extensive Genome-Wide Variability of Human Cytomegalovirus in Congenitally Infected Infants

Extensive Genome-Wide Variability of Human Cytomegalovirus in Congenitally Infected Infants

Structure characterization of human cytomegalovirus UL131A, UL130 and UL128 genes in clinical strains in China

Human cytomegalovirus UL145 gene is highly conserved among clinical strains

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