A G-quadruplex motif in an envelope gene promoter regulates transcription and virion secretion in HBV genotype B

Biswas, Banhi; Kandpal, Manish; Vivekanandan, Perumal

doi:10.1093/nar/gkx823

Cited by 76 publications

(83 citation statements)

References 53 publications

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“…Ebola virus [26]). A G4 was also detected in hepatitis B virus (HBV) genome, the only member of dsDNA viruses with RT activity [27]. Finally, functionally significant G4s were identified both in the RNA and DNA proviral genome of the human immunodeficiency virus (HIV), a retrovirus belonging to group 6 ( Table 1) [28][29][30][31][32][33][34][35], and [33,34]in the LTR region of lentiviruses in general (ssRNA RT) [36].…”

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confidence: 98%

G-quadruplex forming sequences in the genome of all known human viruses: A comprehensive guide

et al. 2018

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G-quadruplexes are non-canonical nucleic-acid structures that control transcription, replication, and recombination in organisms. G-quadruplexes are present in eukaryotes, prokaryotes, and viruses. In the latter, mounting evidence indicates their key biological activity. Since data on viruses are scattered, we here present a comprehensive analysis of potential quadruplex-forming sequences (PQS) in the genome of all known viruses that can infect humans. We show that occurrence and location of PQSs are features characteristic of each virus class and family. Our statistical analysis proves that their presence within the viral genome is orderly arranged, as indicated by the possibility to correctly assign up to two-thirds of viruses to their exact class based on the PQS classification. For each virus we provide: i) the list of all PQS present in the genome (positive and negative strands), ii) their position in the viral genome, iii) the degree of conservation among strains of each PQS in its genome context, iv) the statistical significance of PQS abundance. This information is accessible from a database to allow the easy navigation of the results: http://www.medcomp.medicina.unipd.it/main_site/doku.php?id=g4virus. The availability of these data will greatly expedite research on G-quadruplex in viruses, with the possibility to accelerate finding therapeutic opportunities to numerous and some fearsome human diseases.

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confidence: 98%

G-quadruplex forming sequences in the genome of all known human viruses: A comprehensive guide

et al. 2018

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“…Among the microorganisms that contain a G4 in their genome, the over-representation of viruses associated with cancer, namely, KSHV, EBV, HCV, HBV, and HPV, is noteworthy [40,51,60,63,76]. The existence of these secondary structures in zoonotic agents such as Ebola virus and vector-borne pathogens such as Zika virus, Plasmodium spp., B. burgdorferi, and T. brucei, is particularly interesting [24,42,93,94].…”

Section: Discussionmentioning

confidence: 99%

“…In addition to HIV-1 evolution, other functional aspects of G4s discussed in this review, and the selective retention or exclusion of G4s from specific genomic loci in bacteria and yeast, indicate that G4s play a role in the evolution of microbes ( Figure 3) [30,[37][38][39][40][41][42].…”

Section: Recombination-[ 3 1 9 _ T D $ D I F F ] Mediated Microbial Ementioning

confidence: 93%

“…However, genotype-specific regulatory mechanisms in HBV remain elusive. We had recently identified a G4 motif as a genotype-specific regulator of HBV replication [40]. A conserved three-tetrad G4 motif, 190 bp upstream of the transcription start site, was identified in the preS2/S promoter of HBV genotype B.…”

Section: Role In Genotype-[ 3 2 4 _ T D $ D I F F ] Specific Pathogenmentioning

confidence: 99%

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G-Quadruplexes: More Than Just a Kink in Microbial Genomes

Saranathan

Vivekanandan

2019

Trends in Microbiology

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G-quadruplexes (G4s) are noncanonical nucleic acid secondary structures formed by guanine-rich DNA and RNA sequences. In this review we aim to provide an overview of the biological roles of G4s in microbial genomes with emphasis on recent discoveries. G4s are enriched and conserved in the regulatory regions of microbes, including bacteria, fungi, and viruses. Importantly, G4s in hepatitis B virus (HBV) and hepatitis C virus (HCV) genomes modulate genes crucial for virus replication. Recent studies on Epstein-Barr virus (EBV) shed light on the role of G4s within the microbial transcripts as cis-acting regulatory signals that modulate translation and facilitate immune evasion. Furthermore, G4s in microbial genomes have been linked to radioresistance, antigenic variation, recombination, and latency. G4s in microbial genomes represent novel therapeutic targets for antimicrobial therapy.

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“…RNA G4s were also found in the ssRNA (-) Ebola virus genome (Wang et al 2016b). In hepatis B virus (HBV), the only member of dsDNA viruses with RT activity, stabilization of a G4 in the promoter of the envelope gene increased transcription and virion secretion (Biswas et al 2017). Functionally significant G4s were identified in the human immunodeficiency virus (HIV), a retrovirus belonging to group 6 (Table 1).…”

Section: Introductionmentioning

confidence: 99%

G-quadruplex forming sequences in the genome of all known human viruses: a comprehensive guide

Lavezzo

Berselli

Frasson

et al. 2018

Preprint

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G-quadruplexes are non-canonical nucleic acid structures that control transcription, replication, and recombination in organisms. G-quadruplexes are present in eukaryotes, prokaryotes, and viruses. In the latter, mounting evidence indicates their key biological activity. Since data on viruses are scattered, we here present a comprehensive analysis of putative G-quadruplexes in the genome of all known viruses that can infect humans. We show that the presence, distribution, and location of G-quadruplexes are features characteristic of each virus class and family. Our statistical analysis proves that their presence within the viral genome is orderly arranged, as indicated by the possibility to correctly assign up to two-thirds of viruses to their exact class based on the G-quadruplex classification. For each virus we provide: i) the list of all G-quadruplexes formed by GG-, GGG-and GGGG-islands present in the genome (positive and negative strands), ii) their position in the viral genome along with the known function of that region, iii) the degree of conservation among strains of each G-quadruplex in its genome context, iv) the statistical significance of G-quadruplex formation. This information is accessible from a database

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A G-quadruplex motif in an envelope gene promoter regulates transcription and virion secretion in HBV genotype B

Cited by 76 publications

References 53 publications

G-quadruplex forming sequences in the genome of all known human viruses: A comprehensive guide

G-quadruplex forming sequences in the genome of all known human viruses: A comprehensive guide

G-Quadruplexes: More Than Just a Kink in Microbial Genomes

G-quadruplex forming sequences in the genome of all known human viruses: a comprehensive guide

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